Psyllid ID: psy7554

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-----
Protein Sequence
MSLRPATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVDLTTES
Secondary Structure (PSIPRED)
ccccccccccccccccccccccEEEEEEccccccHHHHHHHHHcccccEEEEcccccccccccccccccccHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccEHEEEccccccccEEEEEEccccccccccccEEEccccccccHHHHHHHHHHHccccEEcccccHHHHccccccEEEEccccccccHHHHHHHHHHHHccEEEEEccc
Coil and Loop (DISEMBL)
MSLRPATHYQVNLLTGTPDQVYLSYLsclpdsvcphahqvdltdgpdlfCRTYQVYLMVYKGLDvitnkvtpeeaegiphhlldfldpntrftvVDYRNRALkhtglkvdlttes
Flexible Loop (DISEMBL)
mslrpathYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGiphhlldfldpnTRFTVVDYRNralkhtglkvdlttes
Low Complexity Region (SEG)
MSLRPATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVDLTTES
Disordered region (IsUnstruct)
*******HYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKV******
Disordered Region (DISOPRED)
**********************LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVDLTTES
Disordered Region (DISEMBL)
MSLRPATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVDLTTES
Disordered Region (DISPRO)
***RPATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVDLTT**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSLRPATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVDLTTES
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	115	2.2.26 [Sep-21-2011]
B1HRH3	300	tRNA dimethylallyltransfe	yes	N/A	0.373	0.143	0.581	9e-10
A7Z500	314	tRNA dimethylallyltransfe	yes	N/A	0.373	0.136	0.534	1e-08
O31795	314	tRNA dimethylallyltransfe	yes	N/A	0.373	0.136	0.488	2e-08
Q8R5S5	315	tRNA dimethylallyltransfe	yes	N/A	0.391	0.142	0.466	2e-08
Q9H3H1	467	tRNA dimethylallyltransfe	yes	N/A	0.391	0.096	0.543	5e-08
B9DPA1	316	tRNA dimethylallyltransfe	yes	N/A	0.408	0.148	0.468	7e-08
Q5L0D9	315	tRNA dimethylallyltransfe	yes	N/A	0.4	0.146	0.520	7e-08
Q9KAC3	314	tRNA dimethylallyltransfe	yes	N/A	0.391	0.143	0.466	7e-08
Q80UN9	467	tRNA dimethylallyltransfe	yes	N/A	0.391	0.096	0.521	8e-08
Q8CQL3	332	tRNA dimethylallyltransfe	yes	N/A	0.417	0.144	0.458	8e-08

>sp|B1HRH3|MIAA_LYSSC tRNA dimethylallyltransferase OS=Lysinibacillus sphaericus (strain C3-41) GN=miaA PE=3 SV=1

 Score = 62.4 bits (150), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 25/43 (58%), Positives = 32/43 (74%)

Query: 57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRN 99
          + VYKGLD+ T K+T EE EG+PHHLL FL+P   F+V DY+ 
Sbjct: 43 MQVYKGLDIGTAKITEEEMEGVPHHLLSFLEPTASFSVADYQK 85

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).
Lysinibacillus sphaericus (strain C3-41) (taxid: 444177)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 7EC: 5

>sp|A7Z500|MIAA_BACA2 tRNA dimethylallyltransferase OS=Bacillus amyloliquefaciens (strain FZB42) GN=miaA PE=3 SV=1

 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/43 (53%), Positives = 32/43 (74%)

Query: 57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRN 99
          + VYKG+D+ T KVT EE EG+PHHL+D L+P+  F+  DY+ 
Sbjct: 40 MQVYKGMDIGTAKVTEEETEGVPHHLIDILEPSDTFSTADYQK 82

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Bacillus amyloliquefaciens (strain FZB42) (taxid: 326423)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|O31795|MIAA_BACSU tRNA dimethylallyltransferase OS=Bacillus subtilis (strain 168) GN=miaA PE=3 SV=2

 Score = 57.8 bits (138), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 21/43 (48%), Positives = 32/43 (74%)

Query: 57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRN 99
          + +YKG+D+ T K+T +E EG+PHHL+D LDP   F+  DY++
Sbjct: 40 MQIYKGMDIGTAKITEQEMEGVPHHLIDILDPQDSFSTADYQS 82

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Bacillus subtilis (strain 168) (taxid: 224308)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|Q8R5S5|MIAA_THETN tRNA dimethylallyltransferase OS=Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) GN=miaA PE=3 SV=1

 Score = 57.8 bits (138), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 33/45 (73%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRA 101
           + +YK +D+ T K+T EE +GIPHH++D ++PN  F+V +Y  RA
Sbjct: 37  MQIYKYMDIGTAKITKEEMQGIPHHMIDIVEPNEEFSVAEYEKRA 81

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) (taxid: 273068)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|Q9H3H1|MOD5_HUMAN tRNA dimethylallyltransferase, mitochondrial OS=Homo sapiens GN=TRIT1 PE=1 SV=1

 Score = 56.6 bits (135), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 25/46 (54%), Positives = 35/46 (76%), Gaps = 1/46 (2%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRA 101
           + VY+GLD+ITNKV+ +E     HH++ F+DP  T +TVVD+RNRA
Sbjct: 57  MQVYEGLDIITNKVSAQEQRICRHHMISFVDPLVTNYTVVDFRNRA 102

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 of both cytosolic and mitochondrial tRNAs, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|B9DPA1|MIAA_STACT tRNA dimethylallyltransferase OS=Staphylococcus carnosus (strain TM300) GN=miaA PE=3 SV=1

 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 34/47 (72%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           + VY+G+D+ T KVT EE +G+PH+L+D LDP+  F+   ++ RA K
Sbjct: 40  IQVYRGMDIGTAKVTKEEMQGVPHYLIDILDPDEPFSAFAFKERAQK 86

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Staphylococcus carnosus (strain TM300) (taxid: 396513)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|Q5L0D9|MIAA_GEOKA tRNA dimethylallyltransferase OS=Geobacillus kaustophilus (strain HTA426) GN=miaA PE=3 SV=1

 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 35/48 (72%), Gaps = 2/48 (4%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRN--RAL 102
           + +YKG+D+ T KV P+E EGIPHHLLD  +P   F+VV+++   RAL
Sbjct: 37  MQIYKGMDIGTAKVKPDEMEGIPHHLLDIKEPCEPFSVVEFQRLCRAL 84

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Geobacillus kaustophilus (strain HTA426) (taxid: 235909)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|Q9KAC3|MIAA_BACHD tRNA dimethylallyltransferase OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) GN=miaA PE=1 SV=1

 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 34/45 (75%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRA 101
           + VY+G+D+ T K+T EE +G+PHHL+D  DP+  F+V D+++ A
Sbjct: 37  MQVYRGMDIGTAKITAEEMDGVPHHLIDIKDPSESFSVADFQDLA 81

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) (taxid: 272558)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|Q80UN9|MOD5_MOUSE tRNA dimethylallyltransferase, mitochondrial OS=Mus musculus GN=Trit1 PE=2 SV=2

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 24/46 (52%), Positives = 36/46 (78%), Gaps = 1/46 (2%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRA 101
           + VY+GLD+ITNKV+ +E +   HH++ F+DP  T +TVVD+RN+A
Sbjct: 57  MQVYEGLDIITNKVSAQEQKMCQHHMISFVDPLVTSYTVVDFRNKA 102

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 of both cytosolic and mitochondrial tRNAs, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

>sp|Q8CQL3|MIAA_STAES tRNA dimethylallyltransferase OS=Staphylococcus epidermidis (strain ATCC 12228) GN=miaA PE=1 SV=1

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 35/48 (72%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH 104
           + VY+G+D+ T KVT EE EGIPH+++D L P+  F+  +++ RA K+
Sbjct: 41  MQVYQGMDIGTAKVTTEEMEGIPHYMIDILPPDASFSAYEFKKRAEKY 88

Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A).

Staphylococcus epidermidis (strain ATCC 12228) (taxid: 176280)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 7

EC: 5

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	115
391325368	375	PREDICTED: tRNA dimethylallyltransferase	0.4	0.122	0.673	1e-11
390358716	637	PREDICTED: tRNA dimethylallyltransferase	0.4	0.072	0.652	2e-10
346468251	476	hypothetical protein [Amblyomma maculatu	0.4	0.096	0.630	3e-10
357621627	197	hypothetical protein KGM_06386 [Danaus p	0.417	0.243	0.583	2e-09
325112798	334	adenylate isopentenyltransferase [Malus	0.391	0.134	0.6	3e-09
91092888	419	PREDICTED: similar to tRNA isopentenyltr	0.408	0.112	0.617	4e-09
427792927	479	Putative trna delta2-isopentenylpyrophos	0.4	0.096	0.608	4e-09
449676452	326	PREDICTED: tRNA dimethylallyltransferase	0.4	0.141	0.586	6e-09
194067759	319	adenylate isopentenyltransferase [Ipomoe	0.408	0.147	0.553	1e-08
198423736	461	PREDICTED: similar to Trit1 protein [Cio	0.408	0.101	0.531	1e-08

>gi|391325368|ref|XP_003737209.1| PREDICTED: tRNA dimethylallyltransferase, mitochondrial-like, partial [Metaseiulus occidentalis]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 31/46 (67%), Positives = 37/46 (80%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           + VYK LDV TNKVT EE  G+PHH++DF+DP   FTVVD+RNRAL
Sbjct: 49  MQVYKNLDVTTNKVTAEEMAGVPHHIIDFVDPVDSFTVVDFRNRAL 94

Source: Metaseiulus occidentalis

Species: Metaseiulus occidentalis

Genus: Metaseiulus

Family: Phytoseiidae

Order: Mesostigmata

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|390358716|ref|XP_791099.3| PREDICTED: tRNA dimethylallyltransferase, mitochondrial-like [Strongylocentrotus purpuratus]

 Score = 69.7 bits (169), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 30/46 (65%), Positives = 35/46 (76%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           + VYKGLD+ITNKVTPEE E  PHH L  + P  RFTVVD+RNR +
Sbjct: 40  MQVYKGLDIITNKVTPEEQEQCPHHALGMVQPLQRFTVVDFRNRVI 85

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

Superkingdom: Eukaryota

>gi|346468251|gb|AEO33970.1| hypothetical protein [Amblyomma maculatum]

 Score = 69.3 bits (168), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 29/46 (63%), Positives = 37/46 (80%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           + VYK LD+ITNKVTP E +  PHHLLDFLDP + FTV D++++AL
Sbjct: 47  MQVYKSLDIITNKVTPAERDAAPHHLLDFLDPLSNFTVADFQSKAL 92

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357621627|gb|EHJ73402.1| hypothetical protein KGM_06386 [Danaus plexippus]

 Score = 66.2 bits (160), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 28/48 (58%), Positives = 37/48 (77%)

Query: 59  VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTG 106
           +YKGLD++T K +P+E E + HHLLD L+P+  FTVVD+RNRAL   G
Sbjct: 14  IYKGLDIVTAKASPQERELVKHHLLDILEPHQNFTVVDFRNRALSIIG 61

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|325112798|gb|ADY80560.1| adenylate isopentenyltransferase [Malus x domestica]

 Score = 65.9 bits (159), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/45 (60%), Positives = 35/45 (77%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRA 101
           + VYKGLD++TNKVT EE +GIPHHL+   DPN+ FT  D++N A
Sbjct: 70  MQVYKGLDIVTNKVTEEECKGIPHHLIGKFDPNSNFTANDFKNHA 114

Source: Malus x domestica

Species: Malus domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|91092888|ref|XP_970625.1| PREDICTED: similar to tRNA isopentenyltransferase 1 [Tribolium castaneum]

 Score = 65.5 bits (158), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 29/47 (61%), Positives = 34/47 (72%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           + VYKGLD+IT K T EE    PHHL+D L+P+  FTVV YRN ALK
Sbjct: 39  MQVYKGLDIITAKATKEEQNVAPHHLIDILEPHETFTVVQYRNSALK 85

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427792927|gb|JAA61915.1| Putative trna delta2-isopentenylpyrophosphate transferase, partial [Rhipicephalus pulchellus]

 Score = 65.5 bits (158), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 36/46 (78%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           + VYK LD+ITNKVT  E +  PHHLLDFLDP + FTV D++++AL
Sbjct: 8   MQVYKSLDIITNKVTQAERDAAPHHLLDFLDPLSNFTVADFQSKAL 53

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|449676452|ref|XP_004208631.1| PREDICTED: tRNA dimethylallyltransferase, mitochondrial-like [Hydra magnipapillata]

 Score = 64.7 bits (156), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 35/46 (76%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           + VYKGLDV+TNKVT  E E IPHH++D + P   F+VV +RN+AL
Sbjct: 44  MQVYKGLDVVTNKVTANEMEEIPHHMIDIISPPLEFSVVQFRNKAL 89

Source: Hydra magnipapillata

Species: Hydra magnipapillata

Genus: Hydra

Family: Hydridae

Order: Hydroida

Class: Hydrozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|194067759|dbj|BAG55007.1| adenylate isopentenyltransferase [Ipomoea nil]

 Score = 63.9 bits (154), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 35/47 (74%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           + VYKGLD++TNKV  EE +G+PHHLL  +DPN  FT  D+  +AL+
Sbjct: 63  MQVYKGLDIVTNKVREEECQGVPHHLLGVVDPNVDFTAADFCRQALQ 109

Source: Ipomoea nil

Species: Ipomoea nil

Genus: Ipomoea

Family: Convolvulaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|198423736|ref|XP_002120555.1| PREDICTED: similar to Trit1 protein [Ciona intestinalis]

 Score = 63.9 bits (154), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/47 (53%), Positives = 36/47 (76%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           + VYKGLD++TNKVT  E E  PHH++ FL+P  +FT+VD++ + LK
Sbjct: 50  MQVYKGLDIVTNKVTKAEQEMCPHHMIGFLEPKDQFTIVDFQEQTLK 96

Source: Ciona intestinalis

Species: Ciona intestinalis

Genus: Ciona

Family: Cionidae

Order: Enterogona

Class: Ascidiacea

Phylum: Chordata

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	115
UNIPROTKB|B4E3K2	144	TRIT1 "tRNA dimethylallyltrans	0.391	0.312	0.543	4.7e-09
ZFIN|ZDB-GENE-060503-297	455	trit1 "tRNA isopentenyltransfe	0.4	0.101	0.574	6.7e-09
TAIR|locus:2179629	330	IPT5 "isopentenyltransferase 5	0.408	0.142	0.520	1.2e-08
UNIPROTKB|F1Q3P4	468	TRIT1 "Uncharacterized protein	0.391	0.096	0.543	1.9e-08
UNIPROTKB|E1C6R1	459	TRIT1 "Uncharacterized protein	0.4	0.100	0.510	3e-08
RGD|1304781	479	Trit1 "tRNA isopentenyltransfe	0.391	0.093	0.543	3.2e-08
UNIPROTKB|Q9H3H1	467	TRIT1 "tRNA dimethylallyltrans	0.391	0.096	0.543	4e-08
MGI|MGI:1914216	467	Trit1 "tRNA isopentenyltransfe	0.391	0.096	0.521	5.1e-08
UNIPROTKB|F1SMC5	413	TRIT1 "Uncharacterized protein	0.373	0.104	0.545	6.8e-08
UNIPROTKB|Q5GHF7	329	Q5GHF7 "Adenylate isopentenylt	0.408	0.142	0.458	1.9e-07

UNIPROTKB|B4E3K2 TRIT1 "tRNA dimethylallyltransferase, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 134 (52.2 bits), Expect = 4.7e-09, P = 4.7e-09
 Identities = 25/46 (54%), Positives = 35/46 (76%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRA 101
             + VY+GLD+ITNKV+ +E     HH++ F+DP  T +TVVD+RNRA
Sbjct:    57 MQVYEGLDIITNKVSAQEQRICRHHMISFVDPLVTNYTVVDFRNRA 102

GO:0005524 "ATP binding" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

ZFIN|ZDB-GENE-060503-297 trit1 "tRNA isopentenyltransferase 1" [Danio rerio (taxid:7955)]

 Score = 141 (54.7 bits), Expect = 6.7e-09, P = 6.7e-09
 Identities = 27/47 (57%), Positives = 35/47 (74%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTR-FTVVDYRNRAL 102
             + VYKGLD+ITNKVT EE     HH++ F+DP    +TVVD+RN+AL
Sbjct:    48 MQVYKGLDIITNKVTEEEQAQCHHHMISFVDPLVSGYTVVDFRNKAL 94

GO:0008033 "tRNA processing" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

TAIR|locus:2179629 IPT5 "isopentenyltransferase 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 136 (52.9 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 25/48 (52%), Positives = 35/48 (72%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFL-DPNTRFTVVDYRNRALK 103
             + VYKGLD++TNKVTPEE+ G+PHHLL  + D    FT  D++  A++
Sbjct:    67 IQVYKGLDIVTNKVTPEESLGVPHHLLGTVHDTYEDFTAEDFQREAIR 114

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0008033 "tRNA processing" evidence=IEA

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=ISS

GO:0009536 "plastid" evidence=IDA

GO:0009824 "AMP dimethylallyltransferase activity" evidence=IMP

GO:0052622 "ATP dimethylallyltransferase activity" evidence=ISS

GO:0052623 "ADP dimethylallyltransferase activity" evidence=ISS

GO:0009691 "cytokinin biosynthetic process" evidence=IGI;RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

UNIPROTKB|F1Q3P4 TRIT1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 137 (53.3 bits), Expect = 1.9e-08, P = 1.9e-08
 Identities = 25/46 (54%), Positives = 35/46 (76%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRA 101
             + VY+GLD+ITNKVT +E     HH++ F+DP  T +TVVD+RN+A
Sbjct:    57 MQVYEGLDIITNKVTAQEQRMCQHHMISFVDPLVTNYTVVDFRNKA 102

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|E1C6R1 TRIT1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 135 (52.6 bits), Expect = 3.0e-08, P = 3.0e-08
 Identities = 24/47 (51%), Positives = 37/47 (78%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRAL 102
             + VYKGLD+ITNKV+P+E     HH++ F+DP  + +TVVD+R++A+
Sbjct:    57 MQVYKGLDIITNKVSPQEQRLCRHHMISFVDPLVSNYTVVDFRDKAV 103

GO:0008033 "tRNA processing" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

RGD|1304781 Trit1 "tRNA isopentenyltransferase 1" [Rattus norvegicus (taxid:10116)]

 Score = 135 (52.6 bits), Expect = 3.2e-08, P = 3.2e-08
 Identities = 25/46 (54%), Positives = 36/46 (78%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRA 101
             + VY+GLD+ITNKV+ +E +   HH++ F+DP  T +TVVD+RNRA
Sbjct:    57 MQVYEGLDIITNKVSAQEQKMCRHHMISFVDPLVTSYTVVDFRNRA 102

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0008033 "tRNA processing" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

UNIPROTKB|Q9H3H1 TRIT1 "tRNA dimethylallyltransferase, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 134 (52.2 bits), Expect = 4.0e-08, P = 4.0e-08
 Identities = 25/46 (54%), Positives = 35/46 (76%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRA 101
             + VY+GLD+ITNKV+ +E     HH++ F+DP  T +TVVD+RNRA
Sbjct:    57 MQVYEGLDIITNKVSAQEQRICRHHMISFVDPLVTNYTVVDFRNRA 102

GO:0005524 "ATP binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0052381 "tRNA dimethylallyltransferase activity" evidence=TAS

GO:0008033 "tRNA processing" evidence=NAS

GO:0005575 "cellular_component" evidence=ND

MGI|MGI:1914216 Trit1 "tRNA isopentenyltransferase 1" [Mus musculus (taxid:10090)]

 Score = 133 (51.9 bits), Expect = 5.1e-08, P = 5.1e-08
 Identities = 24/46 (52%), Positives = 36/46 (78%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRA 101
             + VY+GLD+ITNKV+ +E +   HH++ F+DP  T +TVVD+RN+A
Sbjct:    57 MQVYEGLDIITNKVSAQEQKMCQHHMISFVDPLVTSYTVVDFRNKA 102

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0008033 "tRNA processing" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0052381 "tRNA dimethylallyltransferase activity" evidence=IEA

UNIPROTKB|F1SMC5 TRIT1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 131 (51.2 bits), Expect = 6.8e-08, P = 6.8e-08
 Identities = 24/44 (54%), Positives = 34/44 (77%)

Query:    59 VYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRA 101
             VY+GLD+ITNKV+ +E     HH++ F+DP  T +TVVD+RN+A
Sbjct:     1 VYEGLDIITNKVSAQEQRMCQHHMISFVDPLVTNYTVVDFRNKA 44

GO:0005739 "mitochondrion" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|Q5GHF7 Q5GHF7 "Adenylate isopentenyltransferase" [Humulus lupulus (taxid:3486)]

 Score = 112 (44.5 bits), Expect = 1.9e-07, Sum P(2) = 1.9e-07
 Identities = 22/48 (45%), Positives = 31/48 (64%)

Query:    57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRALK 103
             + VYKGLD+ TNK++  +  G+PHHLL  +DP     T  D+R+ A K
Sbjct:    64 MQVYKGLDITTNKISVPDRGGVPHHLLGEVDPARGELTPADFRSLAGK 111

GO:0009824 "AMP dimethylallyltransferase activity" evidence=IDA

GO:0034265 "isopentenyl adenine biosynthetic process" evidence=IC

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q94ID2	IPT5_ARATH	2, ., 5, ., 1, ., n, 4	0.5208	0.4086	0.1424	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.5.1	LOW CONFIDENCE prediction!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	115
PRK00091	307	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosp	7e-16
COG0324	308	COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosph	5e-15
pfam01715	253	pfam01715, IPPT, IPP transferase	3e-13
TIGR00174	287	TIGR00174, miaA, tRNA dimethylallyltransferase	2e-12
PLN02748	468	PLN02748, PLN02748, tRNA dimethylallyltransferase	4e-12
PLN02165	334	PLN02165, PLN02165, adenylate isopentenyltransfera	2e-08
PLN02840	421	PLN02840, PLN02840, tRNA dimethylallyltransferase	5e-08
PRK14729	300	PRK14729, miaA, tRNA delta(2)-isopentenylpyrophosp	0.001

>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

 Score = 70.5 bits (174), Expect = 7e-16
 Identities = 22/47 (46%), Positives = 32/47 (68%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           + VY+G+D+ T K T EE  G+PHHL+D LDP   ++V D++  AL 
Sbjct: 38  MQVYRGMDIGTAKPTAEERAGVPHHLIDILDPTESYSVADFQRDALA 84

Length = 307

>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]

 Score = 68.4 bits (168), Expect = 5e-15
 Identities = 19/46 (41%), Positives = 29/46 (63%)

Query: 59  VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH 104
           VY+GLD+ T K + EE  G+PHHL+D  DP   ++  +++  AL  
Sbjct: 39  VYRGLDIGTAKPSLEELAGVPHHLIDIRDPTESYSAAEFQRDALAA 84

Length = 308

>gnl|CDD|216659 pfam01715, IPPT, IPP transferase

 Score = 63.1 bits (154), Expect = 3e-13
 Identities = 20/45 (44%), Positives = 32/45 (71%)

Query: 59  VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           VYKG+D+ T K + EE +G+PHHL+D LDP   ++  +++  AL+
Sbjct: 3   VYKGMDIGTAKPSLEERKGVPHHLIDILDPTESYSAAEFQRDALE 47

This is a family of IPP transferases EC:2.5.1.8 also known as tRNA delta(2)-isopentenylpyrophosphate transferase. These enzymes modify both cytoplasmic and mitochondrial tRNAs at A(37) to give isopentenyl A(37). Length = 253

>gnl|CDD|213512 TIGR00174, miaA, tRNA dimethylallyltransferase

 Score = 61.6 bits (150), Expect = 2e-12
 Identities = 21/47 (44%), Positives = 34/47 (72%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           + +YKG+D+ T K + +E EGIPHHL+D LDP+  ++  D++ +AL 
Sbjct: 33  MQIYKGMDIGTAKPSLQEREGIPHHLIDILDPSESYSAADFQTQALN 79

Alternate names include delta(2)-isopentenylpyrophosphate transferase, IPP transferase, 2-methylthio-N6-isopentyladenosine tRNA modification enzyme. Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine. Understanding of substrate specificity has changed [Protein synthesis, tRNA and rRNA base modification]. Length = 287

>gnl|CDD|215399 PLN02748, PLN02748, tRNA dimethylallyltransferase

 Score = 60.7 bits (147), Expect = 4e-12
 Identities = 23/46 (50%), Positives = 32/46 (69%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           + VY GLDV+TNKV   E +G+PHHLL  + P+  FT  D+R+ A+
Sbjct: 56  MQVYSGLDVLTNKVPLHEQKGVPHHLLGVISPSVEFTAKDFRDHAV 101

Length = 468

>gnl|CDD|177823 PLN02165, PLN02165, adenylate isopentenyltransferase

 Score = 50.2 bits (120), Expect = 2e-08
 Identities = 18/44 (40%), Positives = 29/44 (65%), Gaps = 1/44 (2%)

Query: 59  VYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRA 101
           VY GL + TN++T ++  G+PHHLL  L+P +   T  ++R+ A
Sbjct: 79  VYDGLKITTNQITIQDRRGVPHHLLGELNPDDGELTASEFRSLA 122

Length = 334

>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase

 Score = 49.0 bits (117), Expect = 5e-08
 Identities = 18/47 (38%), Positives = 30/47 (63%)

Query: 59  VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHT 105
           VY+GLDV + K +  E + +PHHL+D L P+  ++V  + + A + T
Sbjct: 57  VYRGLDVGSAKPSLSERKEVPHHLIDILHPSDDYSVGAFFDDARRAT 103

Length = 421

>gnl|CDD|173191 PRK14729, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional

 Score = 36.8 bits (85), Expect = 0.001
 Identities = 17/47 (36%), Positives = 27/47 (57%)

Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           + VYK  D+ + K + E  + I HHL+DFL+P   + +  +   ALK
Sbjct: 37  IQVYKEFDIASCKPSKELRKHIKHHLVDFLEPIKEYNLGIFYKEALK 83

Length = 300

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	115
PRK14729	300	miaA tRNA delta(2)-isopentenylpyrophosphate transf	100.0
COG0324	308	MiaA tRNA delta(2)-isopentenylpyrophosphate transf	100.0
PLN02748	468	tRNA dimethylallyltransferase	100.0
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	100.0
PLN02840	421	tRNA dimethylallyltransferase	99.97
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	99.97
KOG1384|consensus	348		99.97
PLN02165	334	adenylate isopentenyltransferase	99.97
PF01715	253	IPPT: IPP transferase; InterPro: IPR002627 tRNA is	99.85
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	99.79
PRK04220	301	2-phosphoglycerate kinase; Provisional	99.33
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	98.93
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	98.66
PRK00300	205	gmk guanylate kinase; Provisional	98.58
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	98.48
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.44
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	98.29
PRK07261	171	topology modulation protein; Provisional	98.24
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	98.14
PRK06217	183	hypothetical protein; Validated	98.12
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	98.07
PRK08118	167	topology modulation protein; Reviewed	98.04
PRK00131	175	aroK shikimate kinase; Reviewed	98.01
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	98.0
PRK05057	172	aroK shikimate kinase I; Reviewed	97.98
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.97
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.93
PRK14737	186	gmk guanylate kinase; Provisional	97.91
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.91
smart00382	148	AAA ATPases associated with a variety of cellular	97.9
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.9
PRK03839	180	putative kinase; Provisional	97.88
PRK06547	172	hypothetical protein; Provisional	97.86
PRK14532	188	adenylate kinase; Provisional	97.85
PRK12337	475	2-phosphoglycerate kinase; Provisional	97.83
PF00004	132	AAA: ATPase family associated with various cellula	97.77
PRK13947	171	shikimate kinase; Provisional	97.76
PRK06762	166	hypothetical protein; Provisional	97.75
PRK14530	215	adenylate kinase; Provisional	97.74
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.73
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.7
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.7
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.7
PRK14531	183	adenylate kinase; Provisional	97.7
PRK04182	180	cytidylate kinase; Provisional	97.69
PHA02530	300	pseT polynucleotide kinase; Provisional	97.67
PRK03731	171	aroL shikimate kinase II; Reviewed	97.66
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	97.66
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	97.65
PRK08233	182	hypothetical protein; Provisional	97.63
PRK00279	215	adk adenylate kinase; Reviewed	97.6
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.58
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	97.58
PRK14527	191	adenylate kinase; Provisional	97.56
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.54
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	97.54
PRK13949	169	shikimate kinase; Provisional	97.52
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.5
PRK02496	184	adk adenylate kinase; Provisional	97.5
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.49
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.47
PTZ00088	229	adenylate kinase 1; Provisional	97.46
PRK05480	209	uridine/cytidine kinase; Provisional	97.45
PRK14528	186	adenylate kinase; Provisional	97.44
PRK13946	184	shikimate kinase; Provisional	97.42
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	97.42
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.4
PTZ00301	210	uridine kinase; Provisional	97.4
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	97.4
PRK11860	661	bifunctional 3-phosphoshikimate 1-carboxyvinyltran	97.39
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.39
PRK00081	194	coaE dephospho-CoA kinase; Reviewed	97.39
PLN02200	234	adenylate kinase family protein	97.37
PRK01184	184	hypothetical protein; Provisional	97.36
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	97.35
PRK06696	223	uridine kinase; Validated	97.34
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.34
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.34
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.33
PRK14730	195	coaE dephospho-CoA kinase; Provisional	97.32
PRK00625	173	shikimate kinase; Provisional	97.3
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	97.3
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.28
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.28
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	97.26
PRK12339	197	2-phosphoglycerate kinase; Provisional	97.26
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.24
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	97.24
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	97.23
PRK08356	195	hypothetical protein; Provisional	97.22
PHA00729	226	NTP-binding motif containing protein	97.21
PRK14738	206	gmk guanylate kinase; Provisional	97.18
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.18
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.18
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.17
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.17
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	97.15
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	97.15
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.14
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.12
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.12
PRK13948	182	shikimate kinase; Provisional	97.11
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.11
PRK13477	512	bifunctional pantoate ligase/cytidylate kinase; Pr	97.1
PRK07667	193	uridine kinase; Provisional	97.1
TIGR00152	188	dephospho-CoA kinase. This model produces scores i	97.1
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.09
PRK05541	176	adenylylsulfate kinase; Provisional	97.08
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.08
PRK12338	319	hypothetical protein; Provisional	97.06
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.04
PF02283	167	CobU: Cobinamide kinase / cobinamide phosphate gua	97.04
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.02
COG1493	308	HprK Serine kinase of the HPr protein, regulates c	97.0
PRK09825	176	idnK D-gluconate kinase; Provisional	96.99
PRK04040	188	adenylate kinase; Provisional	96.98
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.95
PRK15453	290	phosphoribulokinase; Provisional	96.94
PF07475	171	Hpr_kinase_C: HPr Serine kinase C-terminal domain;	96.94
PRK14526	211	adenylate kinase; Provisional	96.94
PRK13808	333	adenylate kinase; Provisional	96.93
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.92
PLN02772	398	guanylate kinase	96.91
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.91
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.91
KOG0745|consensus	564		96.87
PRK05428	308	HPr kinase/phosphorylase; Provisional	96.87
PRK14731	208	coaE dephospho-CoA kinase; Provisional	96.85
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.85
PLN02674	244	adenylate kinase	96.84
PRK13851	344	type IV secretion system protein VirB11; Provision	96.84
PRK13975	196	thymidylate kinase; Provisional	96.84
PRK11545	163	gntK gluconate kinase 1; Provisional	96.84
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.84
TIGR00679	304	hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene	96.83
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.81
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.8
PRK06620	214	hypothetical protein; Validated	96.79
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.79
PLN02199	303	shikimate kinase	96.75
PRK00889	175	adenylylsulfate kinase; Provisional	96.75
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.75
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.74
PRK14734	200	coaE dephospho-CoA kinase; Provisional	96.73
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.73
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.73
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.72
COG1341	398	Predicted GTPase or GTP-binding protein [General f	96.7
PF07931	174	CPT: Chloramphenicol phosphotransferase-like prote	96.69
PRK05439	311	pantothenate kinase; Provisional	96.66
COG0283	222	Cmk Cytidylate kinase [Nucleotide transport and me	96.66
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.63
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	96.63
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.62
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	96.61
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.6
PLN02318	656	phosphoribulokinase/uridine kinase	96.6
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.6
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	96.6
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	96.58
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.58
PRK14732	196	coaE dephospho-CoA kinase; Provisional	96.58
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.58
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.57
PRK00023	225	cmk cytidylate kinase; Provisional	96.57
COG4185	187	Uncharacterized protein conserved in bacteria [Fun	96.56
PRK14733	204	coaE dephospho-CoA kinase; Provisional	96.56
PRK00149	450	dnaA chromosomal replication initiation protein; R	96.56
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.55
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	96.54
PRK06526	254	transposase; Provisional	96.54
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	96.5
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.49
PRK14529	223	adenylate kinase; Provisional	96.49
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.48
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.48
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.47
PRK07429	327	phosphoribulokinase; Provisional	96.46
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	96.46
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.45
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.44
PRK03333	395	coaE dephospho-CoA kinase/protein folding accessor	96.44
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.43
PRK12377	248	putative replication protein; Provisional	96.43
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	96.43
PHA02244	383	ATPase-like protein	96.43
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.42
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.42
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.42
PRK09087	226	hypothetical protein; Validated	96.42
KOG3347|consensus	176		96.41
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.4
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.4
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.4
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	96.39
PRK12402	337	replication factor C small subunit 2; Reviewed	96.39
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.39
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.38
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	96.37
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.37
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.37
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.36
PF01121	180	CoaE: Dephospho-CoA kinase; InterPro: IPR001977 Th	96.36
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.35
PRK06893	229	DNA replication initiation factor; Validated	96.35
PRK06921	266	hypothetical protein; Provisional	96.35
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.35
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.34
PRK08727	233	hypothetical protein; Validated	96.34
PRK00698	205	tmk thymidylate kinase; Validated	96.34
PRK13342	413	recombination factor protein RarA; Reviewed	96.34
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	96.33
PLN02348	395	phosphoribulokinase	96.32
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.31
CHL00195	489	ycf46 Ycf46; Provisional	96.3
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.28
PTZ00451	244	dephospho-CoA kinase; Provisional	96.26
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.25
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.25
PF13173	128	AAA_14: AAA domain	96.25
COG2087	175	CobU Adenosyl cobinamide kinase/adenosyl cobinamid	96.24
PRK13951	488	bifunctional shikimate kinase/3-dehydroquinate syn	96.23
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	96.23
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.23
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.21
PRK04195	482	replication factor C large subunit; Provisional	96.21
PLN03025	319	replication factor C subunit; Provisional	96.21
PRK13764	602	ATPase; Provisional	96.2
PRK05642	234	DNA replication initiation factor; Validated	96.19
PRK03846	198	adenylylsulfate kinase; Provisional	96.18
PRK08084	235	DNA replication initiation factor; Provisional	96.18
PF12846	304	AAA_10: AAA-like domain	96.17
PRK06761	282	hypothetical protein; Provisional	96.16
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.16
PRK10867	433	signal recognition particle protein; Provisional	96.16
PRK06835	329	DNA replication protein DnaC; Validated	96.16
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.16
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.15
PF05729	166	NACHT: NACHT domain	96.15
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.14
PRK08181	269	transposase; Validated	96.13
PRK10416	318	signal recognition particle-docking protein FtsY;	96.13
PRK09183	259	transposase/IS protein; Provisional	96.13
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.12
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	96.11
KOG0741|consensus	744		96.1
KOG1942|consensus	456		96.08
PHA02544	316	44 clamp loader, small subunit; Provisional	96.08
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.06
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.05
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	96.05
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	96.04
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	96.03
CHL00095	821	clpC Clp protease ATP binding subunit	96.03
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.03
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.02
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.02
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.01
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.01
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.0
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.0
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.98
PLN02422	232	dephospho-CoA kinase	95.97
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.96
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.94
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	95.93
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	95.93
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	95.93
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	95.91
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	95.91
PRK08116	268	hypothetical protein; Validated	95.91
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	95.9
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.89
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.88
PRK10865	857	protein disaggregation chaperone; Provisional	95.88
PRK09984	262	phosphonate/organophosphate ester transporter subu	95.88
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	95.87
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	95.86
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	95.86
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.86
PLN02459	261	probable adenylate kinase	95.85
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	95.84
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.84
PLN02842	505	nucleotide kinase	95.83
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.83
PRK12269	863	bifunctional cytidylate kinase/ribosomal protein S	95.83
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.82
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	95.82
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.82
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.82
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	95.82
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	95.81
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	95.8
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	95.8
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	95.78
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	95.77
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.76
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.76
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.76
CHL00181	287	cbbX CbbX; Provisional	95.75
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.75
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	95.75
KOG0744|consensus	423		95.74
PRK14088	440	dnaA chromosomal replication initiation protein; P	95.74
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	95.74
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	95.73
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.73
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	95.73
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	95.72
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.72
PRK10436	462	hypothetical protein; Provisional	95.72
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	95.72
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	95.72
TIGR02533	486	type_II_gspE general secretory pathway protein E.	95.72
PRK05973	237	replicative DNA helicase; Provisional	95.71
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.71
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.7
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	95.69
PRK07952	244	DNA replication protein DnaC; Validated	95.69
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	95.68
KOG3308|consensus	225		95.68
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.68
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.68
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.67
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	95.66
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.66
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.66
COG0630	312	VirB11 Type IV secretory pathway, VirB11 component	95.65
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.65
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.65
PRK12422	445	chromosomal replication initiation protein; Provis	95.65
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.64
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.63
cd03114	148	ArgK-like The function of this protein family is u	95.63
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	95.62
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	95.62
COG2256	436	MGS1 ATPase related to the helicase subunit of the	95.62
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	95.62
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.61
cd02030	219	NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO	95.61
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	95.61
COG0714	329	MoxR-like ATPases [General function prediction onl	95.61
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.61
PRK04296	190	thymidine kinase; Provisional	95.6
cd03215	182	ABC_Carb_Monos_II This family represents domain II	95.6
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.6
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.59
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	95.59
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	95.58
PRK07940	394	DNA polymerase III subunit delta'; Validated	95.58
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.58
PF13245	76	AAA_19: Part of AAA domain	95.58
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.57
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.57
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.57
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	95.56
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.56
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.55
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	95.55
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	95.55
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	95.54
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	95.53
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.53
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	95.53
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.53
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.52
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	95.52
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.52
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	95.51
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.51
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	95.49
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	95.49
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.49
PRK11784	345	tRNA 2-selenouridine synthase; Provisional	95.49
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	95.48
PF13479	213	AAA_24: AAA domain	95.48
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	95.48
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	95.47
PRK00411	394	cdc6 cell division control protein 6; Reviewed	95.47
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	95.47
TIGR00959	428	ffh signal recognition particle protein. This mode	95.47
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.47
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.46
PRK13341	725	recombination factor protein RarA/unknown domain f	95.46
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.46
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.45
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.45
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.45
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.44
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	95.44
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.44
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	95.43
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.43
PHA02624	647	large T antigen; Provisional	95.42
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.42
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.41
PLN02796	347	D-glycerate 3-kinase	95.41
CHL00176	638	ftsH cell division protein; Validated	95.41
TIGR01587	358	cas3_core CRISPR-associated helicase Cas3. This mo	95.4
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.4
cd03279	213	ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complex	95.4
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	95.39
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	95.39
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.39
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	95.38
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.37
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.37
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	95.37
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.36
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	95.35
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	95.35
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	95.35
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	95.35
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	95.34
PRK13768	253	GTPase; Provisional	95.34
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.34
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	95.33
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	95.33
PRK10908	222	cell division protein FtsE; Provisional	95.32
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.32
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.32
KOG3354|consensus	191		95.31
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	95.3
PRK14087	450	dnaA chromosomal replication initiation protein; P	95.3
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	95.3
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	95.29
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.29
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	95.29
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.29
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	95.29
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	95.29
PRK08939	306	primosomal protein DnaI; Reviewed	95.29
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	95.27
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.26
cd03246	173	ABCC_Protease_Secretion This family represents the	95.26
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.26
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.26
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	95.26
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	95.26
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	95.26
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.25
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	95.25
PRK14021	542	bifunctional shikimate kinase/3-dehydroquinate syn	95.25
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.25
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	95.24
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	95.24
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	95.23
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	95.22
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.21
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.21
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.2
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	95.2
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	95.2
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.2
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	95.2
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.19
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.18
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	95.18
PRK05707	328	DNA polymerase III subunit delta'; Validated	95.18
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	95.17
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.17
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	95.17
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	95.16
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.15
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	95.15
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.15
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	95.15
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	95.15
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	95.14
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.13
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.13
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	95.12
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.12
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	95.12
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	95.12
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	95.12
PF13476	202	AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V	95.11
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	95.1
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	95.1
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.1
cd03234	226	ABCG_White The White subfamily represents ABC tran	95.1
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	95.09
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	95.09
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.08
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	95.08
PRK09112	351	DNA polymerase III subunit delta'; Validated	95.08
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.08
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	95.06
PRK15455	644	PrkA family serine protein kinase; Provisional	95.06
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	95.06
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	95.06
PRK14974	336	cell division protein FtsY; Provisional	95.06
PF01935	229	DUF87: Domain of unknown function DUF87; InterPro:	95.05
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.05
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.05
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.05
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	95.04
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	95.04
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.04
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	95.03

>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional

Probab=100.00  E-value=1.1e-39  Score=265.06  Aligned_cols=86  Identities=23%  Similarity=0.269  Sum_probs=83.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||++||++ ++|| ||||||||||+|||||||||.+|+++|||||||+++|+++|||++|+++|.++
T Consensus         7 i~I~GpTasGKS~LAl~LA~~-~~eI-IsaDS~QvYr~ldIgTaKpt~eE~~~i~Hhlid~~~p~e~~sv~~f~~~a~~~   84 (300)
T PRK14729          7 VFIFGPTAVGKSNILFHFPKG-KAEI-INVDSIQVYKEFDIASCKPSKELRKHIKHHLVDFLEPIKEYNLGIFYKEALKI   84 (300)
T ss_pred             EEEECCCccCHHHHHHHHHHh-CCcE-EeccHHHHHCCCceecCCCCHHHHcCCCeeeeeccCCCCceeHHHHHHHHHHH
Confidence            468999999999999999999 7899 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhcc
Q psy7554         105 TGLKVDLT  112 (115)
Q Consensus       105 I~~i~~~~  112 (115)
                      |++++++.
T Consensus        85 i~~i~~~g   92 (300)
T PRK14729         85 IKELRQQK   92 (300)
T ss_pred             HHHHHHCC
Confidence            99999885

>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=3.3e-39  Score=263.75  Aligned_cols=87  Identities=25%  Similarity=0.347  Sum_probs=84.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||++||+++|+|| ||+|||||||||||||||||.+|+++|||||||+++|.|.|||++|.++|.++
T Consensus         6 i~I~GPTAsGKT~lai~LAk~~~~eI-Is~DSmQvYr~mdIGTAKps~~e~~~vpHhliDi~~p~e~ysa~~f~~~a~~~   84 (308)
T COG0324           6 IVIAGPTASGKTALAIALAKRLGGEI-ISLDSMQVYRGLDIGTAKPSLEELAGVPHHLIDIRDPTESYSAAEFQRDALAA   84 (308)
T ss_pred             EEEECCCCcCHHHHHHHHHHHcCCcE-EecchhhhcCCCcccCCCCCHHHHcCCCEEEecccCccccccHHHHHHHHHHH
Confidence            56799999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhcc
Q psy7554         105 TGLKVDLT  112 (115)
Q Consensus       105 I~~i~~~~  112 (115)
                      |+++.+|.
T Consensus        85 i~~i~~rg   92 (308)
T COG0324          85 IDDILARG   92 (308)
T ss_pred             HHHHHhCC
Confidence            99999873

>PLN02748 tRNA dimethylallyltransferase

Probab=100.00  E-value=5.1e-36  Score=255.61  Aligned_cols=87  Identities=31%  Similarity=0.439  Sum_probs=84.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||++||+.++++| ||+|||||||||||||||||.+|+++|||||||+++|+++|||++|+++|.++
T Consensus        25 i~i~GptgsGKs~la~~la~~~~~ei-i~~DsmQVYrgLdIgTaKpt~eE~~~VpHHLid~v~p~e~ysv~~F~~~A~~~  103 (468)
T PLN02748         25 VVVMGPTGSGKSKLAVDLASHFPVEI-INADSMQVYSGLDVLTNKVPLHEQKGVPHHLLGVISPSVEFTAKDFRDHAVPL  103 (468)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCeeE-EcCchheeeCCcchhcCCCCHHHHcCCCCeeEeecCCCCcCcHHHHHHHHHHH
Confidence            45899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhcc
Q psy7554         105 TGLKVDLT  112 (115)
Q Consensus       105 I~~i~~~~  112 (115)
                      |++|++|.
T Consensus       104 I~~I~~rg  111 (468)
T PLN02748        104 IEEILSRN  111 (468)
T ss_pred             HHHHHhcC
Confidence            99999884

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=100.00  E-value=1.9e-33  Score=227.24  Aligned_cols=87  Identities=28%  Similarity=0.409  Sum_probs=84.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||.+||+.++++| ||+|||||||+||||||||+++|+++|||||+|+++|++.|||++|.++|.++
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~~~i-is~Ds~qvY~~l~IgTakp~~~e~~~v~hhlid~~~~~~~~~v~~f~~~a~~~   80 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLNAEI-ISVDSMQIYKGMDIGTAKPSLQEREGIPHHLIDILDPSESYSAADFQTLALNA   80 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCcE-EEechhheeeeccccCCCCCHHHHcCccEEEEEEechhheEcHHHHHHHHHHH
Confidence            57899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhcc
Q psy7554         105 TGLKVDLT  112 (115)
Q Consensus       105 I~~i~~~~  112 (115)
                      |++++++.
T Consensus        81 i~~~~~~g   88 (287)
T TIGR00174        81 IADITARG   88 (287)
T ss_pred             HHHHHhCC
Confidence            99998863

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>PLN02840 tRNA dimethylallyltransferase

Probab=99.97  E-value=1.5e-32  Score=232.06  Aligned_cols=87  Identities=23%  Similarity=0.307  Sum_probs=84.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||.+||++++++| ||+|||||||+|+||||||+.+|+++|||||||+++|+++|||++|.++|.++
T Consensus        24 i~I~GptgsGKTtla~~La~~~~~~i-is~Ds~qvYr~~~IgTaKpt~eE~~~V~Hhlidil~p~e~ySv~~F~~~A~~~  102 (421)
T PLN02840         24 IVISGPTGAGKSRLALELAKRLNGEI-ISADSVQVYRGLDVGSAKPSLSERKEVPHHLIDILHPSDDYSVGAFFDDARRA  102 (421)
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCCe-EeccccceecceeEEcCCCCHHHHcCCCeEeEeecCCCCceeHHHHHHHHHHH
Confidence            56899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhcc
Q psy7554         105 TGLKVDLT  112 (115)
Q Consensus       105 I~~i~~~~  112 (115)
                      |+++++|.
T Consensus       103 I~~i~~rg  110 (421)
T PLN02840        103 TQDILNRG  110 (421)
T ss_pred             HHHHHhcC
Confidence            99999874

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=99.97  E-value=2.5e-32  Score=221.84  Aligned_cols=87  Identities=29%  Similarity=0.427  Sum_probs=84.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||.+||+.++++| ||+|||||||+||||||||+++|+++|||||+|+++|++.||+++|.++|.+.
T Consensus         7 i~i~GptgsGKt~la~~la~~~~~~i-is~Ds~Qvy~~l~i~Takp~~~E~~gv~hhlid~~~~~~~~s~~~f~~~a~~~   85 (307)
T PRK00091          7 IVIVGPTASGKTALAIELAKRLNGEI-ISADSMQVYRGMDIGTAKPTAEERAGVPHHLIDILDPTESYSVADFQRDALAA   85 (307)
T ss_pred             EEEECCCCcCHHHHHHHHHHhCCCcE-EeccccceeecccccCCCCCHHHHcCccEEeecccChhhcccHHHHHHHHHHH
Confidence            45899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhcc
Q psy7554         105 TGLKVDLT  112 (115)
Q Consensus       105 I~~i~~~~  112 (115)
                      |++++++.
T Consensus        86 i~~i~~~g   93 (307)
T PRK00091         86 IADILARG   93 (307)
T ss_pred             HHHHHhCC
Confidence            99998763

>KOG1384|consensus

Probab=99.97  E-value=2.3e-32  Score=225.99  Aligned_cols=91  Identities=29%  Similarity=0.375  Sum_probs=87.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHH
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDY   97 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F   97 (115)
                      |+-|..   |.||||||||.||++||.+|++|| ||+|+||||||++|+|||+|.+|+.+|||||+|+++|+.+||+++|
T Consensus         6 k~KVvv---I~G~TGsGKSrLaVdLA~rf~~EI-INsDkmQvYkGldivTnK~t~~e~~gVPHHLlg~l~~~~e~t~~~F   81 (348)
T KOG1384|consen    6 KDKVVV---IMGATGAGKSRLAVDLATRFPGEI-INSDKMQVYKGLDIVTNKITLQERKGVPHHLLGHLHPEAEYTAGEF   81 (348)
T ss_pred             CceEEE---EecCCCCChhhhHHHHHHhCCcee-ecccceeeecCcccccccCChhhcCCCChHHhCcCChHhhccHHHH
Confidence            455544   999999999999999999999999 9999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhcc
Q psy7554          98 RNRALKHTGLKVDLT  112 (115)
Q Consensus        98 ~~~A~~~I~~i~~~~  112 (115)
                      .++|..+|++|++|.
T Consensus        82 ~~~a~~aie~I~~rg   96 (348)
T KOG1384|consen   82 EDDASRAIEEIHSRG   96 (348)
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999999999974

>PLN02165 adenylate isopentenyltransferase

Probab=99.97  E-value=6.7e-31  Score=216.75  Aligned_cols=103  Identities=24%  Similarity=0.296  Sum_probs=97.2

Q ss_pred             ccceeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecc
Q psy7554           6 ATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDF   85 (115)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~   85 (115)
                      .+|-|+..+-.++..++.   |+||||||||+||++||+.++++| ||+|||||||||||+||||+.+|++++||||+|+
T Consensus        30 ~~~~~~~~~~~~~g~iiv---IiGPTGSGKStLA~~LA~~l~~eI-IsaDs~QvYkgldIgTakpt~~er~gv~Hhli~~  105 (334)
T PLN02165         30 VTMTSVAMEQNCKDKVVV---IMGATGSGKSRLSVDLATRFPSEI-INSDKMQVYDGLKITTNQITIQDRRGVPHHLLGE  105 (334)
T ss_pred             ccccccccccCCCCCEEE---EECCCCCcHHHHHHHHHHHcCCce-ecCChheeECCcccccCCCCHHHHcCCChhhhhe
Confidence            478889888888888655   899999999999999999999999 9999999999999999999999999999999999


Q ss_pred             cCCCC-ccCHHHHHHHHHHHHhhhhhcc
Q psy7554          86 LDPNT-RFTVVDYRNRALKHTGLKVDLT  112 (115)
Q Consensus        86 ldp~e-~ySv~~F~~~A~~~I~~i~~~~  112 (115)
                      ++|.+ .||+++|.+++.++|++++++.
T Consensus       106 ~~~~~~~~sv~~F~~~a~~~I~~i~~~~  133 (334)
T PLN02165        106 LNPDDGELTASEFRSLASLSISEITSRQ  133 (334)
T ss_pred             eccccceeeHHHHHHHHHHHHHHHHHCC
Confidence            99997 8999999999999999998874

>PF01715 IPPT: IPP transferase; InterPro: IPR002627 tRNA isopentenyltransferases 2

Probab=99.85  E-value=2.4e-22  Score=159.08  Aligned_cols=56  Identities=39%  Similarity=0.707  Sum_probs=44.7

Q ss_pred             eeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHHHhhhhhcc
Q psy7554          57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVDLT  112 (115)
Q Consensus        57 mQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~I~~i~~~~  112 (115)
                      |||||||||||||||.+|+++|||||||+++|+++|||++|.++|.++|++++++.
T Consensus         1 mQvYr~ldIgTaKps~~e~~~vpHhlid~~~p~e~ysv~~f~~~a~~~i~~i~~rg   56 (253)
T PF01715_consen    1 MQVYRGLDIGTAKPSPEERAGVPHHLIDILDPDEEYSVGDFQRDAREAIEDILARG   56 (253)
T ss_dssp             STTBTT-CTTTT---HHHHTTS-EESSS-B-TTS---HHHHHHHHHHHHHHHHHTT
T ss_pred             CCccCCCceeeCCCCHHHHcCCCEeeeeeecccCCCCHHHHHHHHHHHHHHHHhcC
Confidence            89999999999999999999999999999999999999999999999999999873

5.1.8 from EC also known as tRNA delta(2)-isopentenylpyrophosphate transferases or IPP transferases. These enzymes modify both cytoplasmic and mitochondrial tRNAs at A(37) to give isopentenyl A(37) [].; GO: 0005524 ATP binding, 0008033 tRNA processing; PDB: 2ZXU_A 3FOZ_A 2ZM5_B 3D3Q_A 3EXA_B 2QGN_A 3A8T_A 3EPK_B 3EPH_A 3EPJ_A ....

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=99.79  E-value=4.2e-20  Score=146.64  Aligned_cols=85  Identities=18%  Similarity=0.144  Sum_probs=61.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCC-CccCHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN-TRFTVVDYRNRALK  103 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~-e~ySv~~F~~~A~~  103 (115)
                      ++|.||||||||++|++||++++++| |++|++|+|.+|+|||+||+++|+++++++++|-.... -.+++.++.+....
T Consensus         4 ~~i~GpT~tGKt~~ai~lA~~~g~pv-I~~Driq~y~~l~v~Sgrp~~~el~~~~RiyL~~r~l~~G~i~a~ea~~~Li~   82 (233)
T PF01745_consen    4 YLIVGPTGTGKTALAIALAQKTGAPV-ISLDRIQCYPELSVGSGRPTPSELKGTRRIYLDDRPLSDGIINAEEAHERLIS   82 (233)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH--EE-EEE-SGGG-GGGTTTTT---SGGGTT-EEEES----GGG-S--HHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHHHhCCCE-EEecceecccccccccCCCCHHHHcccceeeeccccccCCCcCHHHHHHHHHH
Confidence            34999999999999999999999999 99999999999999999999999999999999988765 56888888888777


Q ss_pred             HHhhhhh
Q psy7554         104 HTGLKVD  110 (115)
Q Consensus       104 ~I~~i~~  110 (115)
                      .+.+..+
T Consensus        83 ~v~~~~~   89 (233)
T PF01745_consen   83 EVNSYSA   89 (233)
T ss_dssp             HHHTTTT
T ss_pred             HHHhccc
Confidence            7766543

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=99.33  E-value=2.9e-13  Score=110.90  Aligned_cols=78  Identities=10%  Similarity=0.010  Sum_probs=68.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCce-Eeeccceee------------------eccCCceecCCCCHHHhcCCCeeee
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLF-CRTYQVYLM------------------VYKGLDVITNKVTPEEAEGIPHHLL   83 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~e-I~IsaDSmQ------------------VYkgldIgTAKPs~eE~~~IpHHLi   83 (115)
                      +.++|+||+|||||++|.+||++++.. + |+.|+++                  .|..++++|++|+.++     ||+.
T Consensus        93 ~iIlI~G~sgsGKStlA~~La~~l~~~~v-i~~D~~re~~R~~~~~e~~p~L~~S~Y~a~~~l~~~~~~~~-----~~l~  166 (301)
T PRK04220         93 IIILIGGASGVGTSTIAFELASRLGIRSV-IGTDSIREVMRKIISKELLPTLHESSYTAWKSLRRPPPPEP-----PVIY  166 (301)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCEE-EechHHHHHHHHhcchhhccchhhhhhhhhhcccCCCCCch-----hhhh
Confidence            347899999999999999999999987 6 9999999                  9999999999999876     9999


Q ss_pred             cccCCCCccCHHHHHHHHHHHHhhhhhc
Q psy7554          84 DFLDPNTRFTVVDYRNRALKHTGLKVDL  111 (115)
Q Consensus        84 d~ldp~e~ySv~~F~~~A~~~I~~i~~~  111 (115)
                      |++++.+.++++     +...|+.++.+
T Consensus       167 g~~~~~~~v~~g-----i~~~I~~~~~~  189 (301)
T PRK04220        167 GFERHVEPVSVG-----VEAVIERALKE  189 (301)
T ss_pred             hHHHHHHHHHHH-----HHHHHHHHHHh
Confidence            999999998888     55555555443

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=98.93  E-value=1.1e-10  Score=83.95  Aligned_cols=62  Identities=18%  Similarity=0.187  Sum_probs=48.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc---eEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL---FCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYR   98 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~---eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~   98 (115)
                      ++|+||||||||+|+..|++.++.   .+ ++.           .|.+|...|..+++||+++..+..+.+..+.|.
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~~~~~~~-v~~-----------tTr~p~~~e~~g~~~~~v~~~~~~~~~~~~~f~   66 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFDPNFGFS-VSH-----------TTRKPRPGEVDGVDYHFVSKEEFERLIENGEFL   66 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCccceec-ccc-----------cccCCCCCccCCceeEEeCHHHHHHHHHcCCeE
Confidence            468999999999999999998764   33 443           688999999999999999977665554444443

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=98.66  E-value=2.6e-09  Score=77.73  Aligned_cols=63  Identities=13%  Similarity=0.103  Sum_probs=47.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDY   97 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F   97 (115)
                      ++|+||+|||||+|+..|++.++... ++.         .+.|.+|...|..+..||+++.-.....+..++|
T Consensus         4 i~l~G~~GsGKsTl~~~L~~~~~~~~-~~~---------~~~tr~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   66 (180)
T TIGR03263         4 IVISGPSGVGKSTLVKALLEEDPNLK-FSI---------SATTRKPRPGEVDGVDYFFVSKEEFEEMIAAGEF   66 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHccCcccc-ccc---------cceeeCCCCCCcCCcEEEEecHHHHHHHHHcCCc
Confidence            46899999999999999999876644 332         6788899998999999999875544433333333

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=98.58  E-value=4.2e-08  Score=72.82  Aligned_cols=54  Identities=11%  Similarity=0.084  Sum_probs=45.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDP   88 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp   88 (115)
                      ++|+||+|||||+|+..|++.++ .         +|..+.+.|.+|...|..+.+||+++.-..
T Consensus         8 i~i~G~sGsGKstl~~~l~~~~~-~---------~~~~~~~~tr~p~~ge~~g~~~~~~~~~~~   61 (205)
T PRK00300          8 IVLSGPSGAGKSTLVKALLERDP-N---------LQLSVSATTRAPRPGEVDGVDYFFVSKEEF   61 (205)
T ss_pred             EEEECCCCCCHHHHHHHHHhhCc-c---------ceeccCccccCCCCCCcCCCeeEEcCHHHH
Confidence            34899999999999999999876 2         477788999999999999999999875443

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=98.48  E-value=4.6e-08  Score=73.36  Aligned_cols=48  Identities=17%  Similarity=0.055  Sum_probs=41.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHh-cCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEA-EGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~-~~IpHHLid   84 (115)
                      ++|+||+|||||++|.++|++++..+ +           -|.|++|..+|+ ++|+||...
T Consensus         4 ili~G~~~sGKS~~a~~l~~~~~~~~-~-----------~iat~~~~~~e~~~ri~~h~~~   52 (170)
T PRK05800          4 ILVTGGARSGKSRFAERLAAQSGLQV-L-----------YIATAQPFDDEMAARIAHHRQR   52 (170)
T ss_pred             EEEECCCCccHHHHHHHHHHHcCCCc-E-----------eCcCCCCChHHHHHHHHHHHhc
Confidence            57899999999999999999887665 3           288999998887 789998774

>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=98.44  E-value=9.2e-08  Score=65.15  Aligned_cols=31  Identities=6%  Similarity=-0.082  Sum_probs=29.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||+|||||++|.+||+++|..+ ++.|.
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~-i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPV-ISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEE-EEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeE-EEecc
Confidence            56999999999999999999999999 99999

...

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=98.29  E-value=8.5e-07  Score=63.81  Aligned_cols=36  Identities=6%  Similarity=-0.222  Sum_probs=32.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYk   61 (115)
                      |+++||+|||||++|..|++.++... ++.|++..+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~-v~~D~~~~~~   36 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKF-IEGDDLHPAA   36 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeE-EeCccccChH
Confidence            46899999999999999999999988 9999986553

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.

>PRK07261 topology modulation protein; Provisional

Probab=98.24  E-value=9.3e-07  Score=65.62  Aligned_cols=37  Identities=5%  Similarity=-0.253  Sum_probs=33.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      ++|+|++|||||+||..|++.++... ++.|.++...+
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~~~~~-i~~D~~~~~~~   39 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHYNCPV-LHLDTLHFQPN   39 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCe-EecCCEEeccc
Confidence            67899999999999999999999999 99999886544

>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=98.14  E-value=1.2e-06  Score=60.82  Aligned_cols=33  Identities=12%  Similarity=0.039  Sum_probs=29.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQ   58 (115)
                      ++++||.|||||.++-.|++.++..+ |+.|...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~~~~-i~~D~~~   34 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLGAVV-ISQDEIR   34 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHSTEEE-EEHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCEE-EeHHHHH
Confidence            56899999999999999999999888 9999843

...

>PRK06217 hypothetical protein; Validated

Probab=98.12  E-value=2e-06  Score=63.71  Aligned_cols=33  Identities=6%  Similarity=-0.154  Sum_probs=30.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQ   58 (115)
                      |+|+|++|||||+||.+||+.++... ++.|.+-
T Consensus         4 I~i~G~~GsGKSTla~~L~~~l~~~~-~~~D~~~   36 (183)
T PRK06217          4 IHITGASGSGTTTLGAALAERLDIPH-LDTDDYF   36 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcE-EEcCcee
Confidence            78899999999999999999999999 9999743

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=98.07  E-value=1.9e-06  Score=63.67  Aligned_cols=51  Identities=14%  Similarity=0.083  Sum_probs=37.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||+||||++|+-.|.+.+...+         .....-.|.+|...|..++.||+++
T Consensus         5 ivl~Gpsg~GK~~l~~~L~~~~~~~~---------~~~v~~TTR~~r~~E~~g~~y~fvs   55 (183)
T PF00625_consen    5 IVLVGPSGSGKSTLAKRLIQEFPDKF---------GRVVSHTTRPPRPGEVDGVDYHFVS   55 (183)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHSTTTE---------EEEEEEESS-GGTTS-TTTSEEE--
T ss_pred             EEEECCCCCCHHHHHHHHHHhccccc---------ccceeecccCCcccccCCcceEEEe
Confidence            45799999999999999998876533         1234557888888899999999884

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 ....

>PRK08118 topology modulation protein; Reviewed

Probab=98.04  E-value=2.6e-06  Score=63.26  Aligned_cols=33  Identities=6%  Similarity=-0.110  Sum_probs=30.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQ   58 (115)
                      |+|+||.|||||+||..|++.++... ++.|.+.
T Consensus         4 I~I~G~~GsGKSTlak~L~~~l~~~~-~~lD~l~   36 (167)
T PRK08118          4 IILIGSGGSGKSTLARQLGEKLNIPV-HHLDALF   36 (167)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCc-eecchhh
Confidence            67899999999999999999999999 9999874

>PRK00131 aroK shikimate kinase; Reviewed

Probab=98.01  E-value=4.2e-06  Score=59.49  Aligned_cols=33  Identities=6%  Similarity=-0.312  Sum_probs=29.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      .++++||.|||||.+|..||++++... +..|..
T Consensus         6 ~i~l~G~~GsGKstla~~La~~l~~~~-~d~d~~   38 (175)
T PRK00131          6 NIVLIGFMGAGKSTIGRLLAKRLGYDF-IDTDHL   38 (175)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCE-EEChHH
Confidence            356799999999999999999999888 888764

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=98.00  E-value=5.8e-06  Score=58.57  Aligned_cols=32  Identities=6%  Similarity=-0.227  Sum_probs=29.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++++||.|||||++|..|++.++... ++.|..
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~-i~~D~~   33 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPF-IDGDDL   33 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEE-EeCccc
Confidence            56899999999999999999999888 888875

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.98  E-value=8.9e-06  Score=60.41  Aligned_cols=65  Identities=12%  Similarity=-0.090  Sum_probs=44.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||+|||||.++..||+.++... +..|+.              .+++.+.     ++-...+.+....|+..-.+.
T Consensus         7 I~liG~~GaGKStl~~~La~~l~~~~-vd~D~~--------------i~~~~g~-----~i~~~~~~~g~~~fr~~e~~~   66 (172)
T PRK05057          7 IFLVGPMGAGKSTIGRQLAQQLNMEF-YDSDQE--------------IEKRTGA-----DIGWVFDVEGEEGFRDREEKV   66 (172)
T ss_pred             EEEECCCCcCHHHHHHHHHHHcCCcE-EECCch--------------HHHHhCc-----CHhHHHHHhCHHHHHHHHHHH
Confidence            56699999999999999999999999 999972              2222211     222223445666777666666


Q ss_pred             Hhhhh
Q psy7554         105 TGLKV  109 (115)
Q Consensus       105 I~~i~  109 (115)
                      ++++.
T Consensus        67 l~~l~   71 (172)
T PRK05057         67 INELT   71 (172)
T ss_pred             HHHHH
Confidence            66543

>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=97.97  E-value=5e-06  Score=57.70  Aligned_cols=30  Identities=10%  Similarity=-0.226  Sum_probs=28.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      |+|+|++|||||++|..||++++... ++.|
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~-~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPY-LDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-eccc
Confidence            57899999999999999999999999 9998

>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=97.93  E-value=7.7e-06  Score=59.65  Aligned_cols=31  Identities=13%  Similarity=-0.123  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||.+|..||++++... |++|.
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~-i~~~~   32 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPH-ISTGD   32 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-EECcH
Confidence            67899999999999999999999998 88865

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.91  E-value=1e-05  Score=61.22  Aligned_cols=50  Identities=12%  Similarity=0.073  Sum_probs=41.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||+|||||+|+-.|.+.... +         +.-.+..|-+|-+-|..++.||+++
T Consensus         7 ivl~GpsG~GK~tl~~~l~~~~~~-~---------~~~v~~TTR~~r~gE~~G~dY~fvs   56 (186)
T PRK14737          7 FIISSVAGGGKSTIIQALLEEHPD-F---------LFSISCTTRAPRPGDEEGKTYFFLT   56 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCc-c---------ccccCccCCCCCCCCCCCceeEeCC
Confidence            467999999999999999887533 2         3345888999999999999999994

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.91  E-value=8.7e-06  Score=59.28  Aligned_cols=30  Identities=0%  Similarity=-0.207  Sum_probs=27.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|+||.|||||++|..||++++... ||+|
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~-is~~   31 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTH-LSAG   31 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-EECC
Confidence            57899999999999999999999888 8874

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.90  E-value=1.3e-05  Score=52.39  Aligned_cols=26  Identities=12%  Similarity=-0.114  Sum_probs=22.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      .++|+||+|||||.++..||+.+...
T Consensus         4 ~~~l~G~~G~GKTtl~~~l~~~~~~~   29 (148)
T smart00382        4 VILIVGPPGSGKTTLARALARELGPP   29 (148)
T ss_pred             EEEEECCCCCcHHHHHHHHHhccCCC
Confidence            45689999999999999999988653

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.

>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=97.90  E-value=7.6e-06  Score=57.50  Aligned_cols=33  Identities=9%  Similarity=-0.249  Sum_probs=29.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +++++||.|||||++|..||+.++... +++|..
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~-~~~d~~   33 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPF-VDLDEL   33 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCE-EEchHH
Confidence            477899999999999999999999888 888854

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.

>PRK03839 putative kinase; Provisional

Probab=97.88  E-value=9.3e-06  Score=59.50  Aligned_cols=39  Identities=5%  Similarity=-0.265  Sum_probs=32.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCcee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVI   66 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIg   66 (115)
                      ++|+|+.|||||+++..||++++... ++.|.  +++...++
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~~~~~-id~d~--~~~~~~~~   41 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKLGYEY-VDLTE--FALKKGIG   41 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-Eehhh--hhhhcCCc
Confidence            67899999999999999999999999 88884  45554444

>PRK06547 hypothetical protein; Provisional

Probab=97.86  E-value=1.1e-05  Score=60.71  Aligned_cols=35  Identities=14%  Similarity=-0.053  Sum_probs=30.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      ++|.||.|||||.||-.||+.++..+ ++.|+.  |+.
T Consensus        18 i~i~G~~GsGKTt~a~~l~~~~~~~~-~~~d~~--~~~   52 (172)
T PRK06547         18 VLIDGRSGSGKTTLAGALAARTGFQL-VHLDDL--YPG   52 (172)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe-ecccce--ecc
Confidence            45799999999999999999999888 999984  664

>PRK14532 adenylate kinase; Provisional

Probab=97.85  E-value=1.1e-05  Score=59.31  Aligned_cols=30  Identities=7%  Similarity=-0.016  Sum_probs=27.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++++||.|||||++|..||++++... |+.|
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g~~~-is~~   32 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERGMVQ-LSTG   32 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-EeCc
Confidence            67899999999999999999999888 8875

>PRK12337 2-phosphoglycerate kinase; Provisional

Probab=97.83  E-value=7.2e-06  Score=71.28  Aligned_cols=39  Identities=10%  Similarity=-0.135  Sum_probs=35.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce-eeeccCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY-LMVYKGL   63 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS-mQVYkgl   63 (115)
                      ++++|++|||||++|.+||.+++...+|+.|+ +++++++
T Consensus       258 il~~G~~G~GKSt~a~~LA~~lg~~~ii~tD~iR~~lr~~  297 (475)
T PRK12337        258 VLIGGVSGVGKSVLASALAYRLGITRIVSTDAVREVLRAM  297 (475)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcEEeehhHHHHHHHhh
Confidence            56899999999999999999999873399999 7999998

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.77  E-value=1.5e-05  Score=53.95  Aligned_cols=35  Identities=9%  Similarity=-0.209  Sum_probs=29.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVY   60 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVY   60 (115)
                      ++|.||.|+|||.++..+|+.++..+ +..|...+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~-~~i~~~~~~   35 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPF-IEIDGSELI   35 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEE-EEEETTHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhhccccc-ccccccccc
Confidence            57899999999999999999999877 665555554

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 ....

>PRK13947 shikimate kinase; Provisional

Probab=97.76  E-value=1.9e-05  Score=56.90  Aligned_cols=33  Identities=0%  Similarity=-0.350  Sum_probs=29.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +|+|+|+.|||||.+|..||++++... +..|..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~-id~d~~   35 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGF-IDTDKE   35 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCE-EECchh
Confidence            467899999999999999999999988 888863

>PRK06762 hypothetical protein; Provisional

Probab=97.75  E-value=1.5e-05  Score=57.38  Aligned_cols=33  Identities=6%  Similarity=-0.130  Sum_probs=27.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC--CceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP--DLFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~--~~eI~IsaDSmQ   58 (115)
                      ++|+|+.|||||++|..|++.+  +..+ ++.|.+.
T Consensus         5 i~i~G~~GsGKST~A~~L~~~l~~~~~~-i~~D~~r   39 (166)
T PRK06762          5 IIIRGNSGSGKTTIAKQLQERLGRGTLL-VSQDVVR   39 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEE-ecHHHHH
Confidence            4689999999999999999998  3445 8888754

>PRK14530 adenylate kinase; Provisional

Probab=97.74  E-value=2.1e-05  Score=59.67  Aligned_cols=30  Identities=7%  Similarity=-0.121  Sum_probs=26.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      |+|+||+|||||++|..||+.++... |+.|
T Consensus         6 I~i~G~pGsGKsT~~~~La~~~~~~~-i~~g   35 (215)
T PRK14530          6 ILLLGAPGAGKGTQSSNLAEEFGVEH-VTTG   35 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-Eecc
Confidence            56799999999999999999999877 6553

>TIGR01351 adk adenylate kinases

Probab=97.73  E-value=1.9e-05  Score=59.71  Aligned_cols=31  Identities=6%  Similarity=-0.126  Sum_probs=28.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||.+|..||++++... |+++.
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~-is~gd   32 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPH-ISTGD   32 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCe-eehhH
Confidence            67899999999999999999999988 88864

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.70  E-value=1.8e-05  Score=57.24  Aligned_cols=31  Identities=0%  Similarity=-0.246  Sum_probs=27.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|.||.|||||+++..||+.++... +++|.
T Consensus         6 i~i~G~~GsGKsTl~~~l~~~~g~~~-~~~g~   36 (188)
T TIGR01360         6 IFIVGGPGSGKGTQCEKIVEKYGFTH-LSTGD   36 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-EeHHH
Confidence            56899999999999999999999888 87754

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.

>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=97.70  E-value=2.4e-05  Score=52.69  Aligned_cols=22  Identities=5%  Similarity=-0.221  Sum_probs=20.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      |+|+|++|||||++|.+|++.+
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            5689999999999999999997

...

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

Probab=97.70  E-value=2.5e-05  Score=51.86  Aligned_cols=40  Identities=13%  Similarity=0.014  Sum_probs=30.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC---CceEeeccceeeeccCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSmQVYkgld   64 (115)
                      +++|.||+|+|||.++..+++.+   +..+ +..|.-+.+....
T Consensus        21 ~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v-~~~~~~~~~~~~~   63 (151)
T cd00009          21 NLLLYGPPGTGKTTLARAIANELFRPGAPF-LYLNASDLLEGLV   63 (151)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhhcCCCCe-EEEehhhhhhhhH
Confidence            56689999999999999999887   6666 6666655554433

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.

>PRK14531 adenylate kinase; Provisional

Probab=97.70  E-value=2.3e-05  Score=58.17  Aligned_cols=31  Identities=13%  Similarity=-0.072  Sum_probs=27.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||++|..||++++... ||++.
T Consensus         5 i~i~G~pGsGKsT~~~~la~~~g~~~-is~gd   35 (183)
T PRK14531          5 LLFLGPPGAGKGTQAARLCAAHGLRH-LSTGD   35 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe-Eeccc
Confidence            66899999999999999999999888 88733

>PRK04182 cytidylate kinase; Provisional

Probab=97.69  E-value=2.7e-05  Score=55.82  Aligned_cols=30  Identities=10%  Similarity=-0.156  Sum_probs=27.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      |+|+|++|||||++|..||++++..+ +++|
T Consensus         3 I~i~G~~GsGKstia~~la~~lg~~~-id~~   32 (180)
T PRK04182          3 ITISGPPGSGKTTVARLLAEKLGLKH-VSAG   32 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcE-ecHH
Confidence            67899999999999999999999988 7764

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.67  E-value=3e-05  Score=60.74  Aligned_cols=32  Identities=6%  Similarity=-0.090  Sum_probs=28.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-~~eI~IsaDSm   57 (115)
                      ++++||.|||||++|..|++++ +... |+.|.+
T Consensus         5 iil~G~pGSGKSTla~~L~~~~~~~~~-l~~D~~   37 (300)
T PHA02530          5 ILTVGVPGSGKSTWAREFAAKNPKAVN-VNRDDL   37 (300)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHCCCCEE-EeccHH
Confidence            5679999999999999999999 6777 999885

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.66  E-value=3.3e-05  Score=55.93  Aligned_cols=32  Identities=3%  Similarity=-0.168  Sum_probs=28.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||.++..||++++... ++.|.+
T Consensus         5 i~~~G~~GsGKst~~~~la~~lg~~~-~d~D~~   36 (171)
T PRK03731          5 LFLVGARGCGKTTVGMALAQALGYRF-VDTDQW   36 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EEccHH
Confidence            56799999999999999999999988 888853

>smart00072 GuKc Guanylate kinase homologues

Probab=97.66  E-value=4.9e-05  Score=56.45  Aligned_cols=51  Identities=16%  Similarity=0.143  Sum_probs=39.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||+||||++|+-.|.+.+...         +..-..-.|-.|-+.|..++.||+++
T Consensus         5 ivl~Gpsg~GK~tl~~~L~~~~~~~---------~~~~~~~TtR~~r~~e~~g~dy~fvs   55 (184)
T smart00072        5 IVLSGPSGVGKGTLLAELIQEIPDA---------FERVVSHTTRPPRPGEVNGVDYHFVS   55 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCcc---------eEeeeeecCCCCCCCCcCCceEEECC
Confidence            5689999999999999998886421         23334556777778888899999874

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.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=97.65  E-value=3.5e-05  Score=54.96  Aligned_cols=31  Identities=10%  Similarity=-0.180  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      +.|+|+.|||||++|..||++++..+ ++.|.
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~-~~~~~   33 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKL-ISAGD   33 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCce-ecHHH
Confidence            67899999999999999999999999 88863

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.

>PRK08233 hypothetical protein; Provisional

Probab=97.63  E-value=4.8e-05  Score=54.76  Aligned_cols=32  Identities=9%  Similarity=-0.181  Sum_probs=26.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc-eEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL-FCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~-eI~IsaDSm   57 (115)
                      +.|+|++|||||+||..||+.++. .+ +..|..
T Consensus         6 I~I~G~~GsGKtTla~~L~~~l~~~~~-~~~d~~   38 (182)
T PRK08233          6 ITIAAVSGGGKTTLTERLTHKLKNSKA-LYFDRY   38 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhhCCCCce-EEECCE
Confidence            568999999999999999999963 44 555554

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.60  E-value=4.5e-05  Score=57.81  Aligned_cols=31  Identities=3%  Similarity=-0.161  Sum_probs=28.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||.|||||.+|..||++++... ||.+.
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~~~~-is~~d   33 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIPH-ISTGD   33 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-EECCc
Confidence            67899999999999999999999988 88754

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.58  E-value=6.9e-05  Score=59.47  Aligned_cols=53  Identities=15%  Similarity=0.075  Sum_probs=40.9

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCCce---EeeccceeeeccCCceecCCCCHHHhcCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLF---CRTYQVYLMVYKGLDVITNKVTPEEAEGI   78 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~~e---I~IsaDSmQVYkgldIgTAKPs~eE~~~I   78 (115)
                      |+.+++ +-|+|++|||||++|.+|++.++++   + |+.|+.  ||    ...+.+.+|+..+
T Consensus         5 ~~~~ii-IgIaG~SgSGKTTva~~l~~~~~~~~~~~-I~~D~Y--Yk----~~~~~~~~~~~~~   60 (218)
T COG0572           5 PEKVII-IGIAGGSGSGKTTVAKELSEQLGVEKVVV-ISLDDY--YK----DQSHLPFEERNKI   60 (218)
T ss_pred             CCceEE-EEEeCCCCCCHHHHHHHHHHHhCcCcceE-eecccc--cc----chhhcCHhhcCCc
Confidence            356666 7799999999999999999999977   7 999985  66    3445556665443

>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=97.58  E-value=5.6e-05  Score=56.59  Aligned_cols=67  Identities=10%  Similarity=0.031  Sum_probs=48.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCcc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRF   92 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~y   92 (115)
                      .++|+||.|+|||++|++|.++ +... |+=|-..+.+.=+-.-++++..-+..+.=..+|+++....|
T Consensus        16 gvLi~G~sG~GKStlal~L~~~-g~~l-vaDD~v~v~~~~~~l~~~~p~~l~g~iEvRGlGiv~v~~~~   82 (149)
T cd01918          16 GVLITGPSGIGKSELALELIKR-GHRL-VADDRVVVKREGGRLVGRAPEALKGLIEIRGLGIIDVPRLY   82 (149)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc-CCeE-EECCEEEEEEECCEEEEeChHHhCCCcEecCceEEEchhhh
Confidence            4678999999999999999886 4566 88888888776554455555544445555667777766655

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.

>PRK14527 adenylate kinase; Provisional

Probab=97.56  E-value=4.5e-05  Score=56.71  Aligned_cols=32  Identities=9%  Similarity=-0.104  Sum_probs=27.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++++||.|||||.+|..||++++... ++.|.+
T Consensus         9 i~i~G~pGsGKsT~a~~La~~~~~~~-is~gd~   40 (191)
T PRK14527          9 VIFLGPPGAGKGTQAERLAQELGLKK-LSTGDI   40 (191)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCC-CCccHH
Confidence            44899999999999999999999887 776543

>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=97.54  E-value=5.7e-05  Score=56.69  Aligned_cols=25  Identities=16%  Similarity=0.093  Sum_probs=21.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +++++||||+|||.||..||+.+..
T Consensus         5 ~~ll~GpsGvGKT~la~~la~~l~~   29 (171)
T PF07724_consen    5 NFLLAGPSGVGKTELAKALAELLFV   29 (171)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHT-
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3559999999999999999998883

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 ....

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

Probab=97.54  E-value=7.3e-05  Score=57.33  Aligned_cols=33  Identities=6%  Similarity=-0.289  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-CceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-DLFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-~~eI~IsaDSmQ   58 (115)
                      +.|+|++|||||.||..|++.+ +..+ |+.|..-
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~~~~~-i~~Ddf~   35 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILPNCCV-IHQDDFF   35 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeE-Ecccccc
Confidence            4689999999999999999999 4666 9999653

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.

>PRK13949 shikimate kinase; Provisional

Probab=97.52  E-value=7.7e-05  Score=55.42  Aligned_cols=33  Identities=6%  Similarity=-0.172  Sum_probs=29.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      .++|+||.|||||+++..||+.++... +..|.+
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~~~-id~D~~   35 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGLSF-IDLDFF   35 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCe-ecccHH
Confidence            367799999999999999999999988 999954

>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=97.50  E-value=6.3e-05  Score=52.61  Aligned_cols=26  Identities=12%  Similarity=-0.104  Sum_probs=23.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +++.||+|+|||.|+..+|+.++..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~~~   27 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGRPV   27 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhcce
Confidence            67899999999999999999997654

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.

>PRK02496 adk adenylate kinase; Provisional

Probab=97.50  E-value=5.5e-05  Score=55.58  Aligned_cols=32  Identities=9%  Similarity=-0.044  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|.||.|||||.+|..||+.++... ++.|.+
T Consensus         4 i~i~G~pGsGKst~a~~la~~~~~~~-i~~~~~   35 (184)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHLHIPH-ISTGDI   35 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-EEhHHH
Confidence            67899999999999999999999888 877543

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.49  E-value=9.2e-05  Score=54.99  Aligned_cols=37  Identities=11%  Similarity=-0.032  Sum_probs=29.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC---ceEeeccceeeeccCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD---LFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~---~eI~IsaDSmQVYkgld   64 (115)
                      +.|+||+|||||+|+..|+..++   ..+ ++.|.  .|+.++
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l~~~~~~v-~~~D~--~~~~~~   41 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQLGNPKVVI-ISQDS--YYKDLS   41 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCCeEE-EEecc--cccccc
Confidence            45899999999999999998873   456 88884  565544

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.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=97.47  E-value=0.00027  Score=52.85  Aligned_cols=36  Identities=8%  Similarity=-0.110  Sum_probs=30.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSmQVYk   61 (115)
                      +.|+|++|||||.||-.|++.+     +..+ |+.|..-.+.
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~-i~~Ddf~~~~   42 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVV-ISLDDYYVPR   42 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEE-EehhhcccCc
Confidence            4689999999999999999885     4567 9999876655

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.46  E-value=7.7e-05  Score=58.58  Aligned_cols=32  Identities=9%  Similarity=-0.113  Sum_probs=29.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||++|..||++++... |+.|.+
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~g~~~-is~gdl   40 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKENLKH-INMGNI   40 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-EECChH
Confidence            67899999999999999999999988 888865

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.45  E-value=9.8e-05  Score=55.40  Aligned_cols=32  Identities=3%  Similarity=-0.233  Sum_probs=27.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC---ceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD---LFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~---~eI~IsaDSm   57 (115)
                      +.|+||+|||||+|+..|++.++   ..+ ++.|..
T Consensus         9 I~I~G~sGsGKTTl~~~l~~~l~~~~~~~-i~~D~~   43 (209)
T PRK05480          9 IGIAGGSGSGKTTVASTIYEELGDESIAV-IPQDSY   43 (209)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCceEE-EeCCcc
Confidence            45899999999999999999883   345 899985

>PRK14528 adenylate kinase; Provisional

Probab=97.44  E-value=9.2e-05  Score=55.50  Aligned_cols=38  Identities=5%  Similarity=-0.070  Sum_probs=31.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld   64 (115)
                      ++|.||.|||||.+|..||+.++... |++|.. +...+.
T Consensus         4 i~i~G~pGsGKtt~a~~la~~~~~~~-is~~~~-lr~~~~   41 (186)
T PRK14528          4 IIFMGPPGAGKGTQAKILCERLSIPQ-ISTGDI-LREAVK   41 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe-eeCCHH-HHHHhh
Confidence            57899999999999999999999988 888776 344333

>PRK13946 shikimate kinase; Provisional

Probab=97.42  E-value=0.00012  Score=54.52  Aligned_cols=31  Identities=6%  Similarity=-0.307  Sum_probs=28.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+++|+.|||||.++..||++++... +..|.
T Consensus        13 I~l~G~~GsGKsti~~~LA~~Lg~~~-id~D~   43 (184)
T PRK13946         13 VVLVGLMGAGKSTVGRRLATMLGLPF-LDADT   43 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCe-ECcCH
Confidence            55699999999999999999999999 88885

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.42  E-value=9.1e-05  Score=63.01  Aligned_cols=43  Identities=16%  Similarity=-0.021  Sum_probs=36.0

Q ss_pred             CCceeEee---eeeeccCCCchhHHHHHHhcCCCceEeeccceeeec
Q psy7554          17 TPDQVYLS---YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVY   60 (115)
Q Consensus        17 ~~~~~~~~---~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVY   60 (115)
                      .+|.|=|+   +|++||||||||-||--||+-+|... --||+-++=
T Consensus        89 ~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPF-aiADATtLT  134 (408)
T COG1219          89 DNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPF-AIADATTLT  134 (408)
T ss_pred             CCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCe-eeccccchh
Confidence            45556664   78999999999999999999999987 668887763

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

Probab=97.40  E-value=8.7e-05  Score=55.43  Aligned_cols=23  Identities=9%  Similarity=-0.125  Sum_probs=20.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |-|+||+|||||+||..|++.++
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~   24 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILN   24 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999998876

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 ....

>PTZ00301 uridine kinase; Provisional

Probab=97.40  E-value=8.9e-05  Score=57.54  Aligned_cols=68  Identities=6%  Similarity=-0.010  Sum_probs=41.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC------ce-EeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD------LF-CRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDY   97 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~------~e-I~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F   97 (115)
                      +-|+||+|||||+||..|+++++      .. + ++.|+  .|+.-.   ..| ..+..     ..++-.| +.|+...|
T Consensus         6 IgIaG~SgSGKTTla~~l~~~l~~~~~~~~~~v-i~~D~--yy~~~~---~~~-~~~~~-----~~~~d~p-~a~D~~~l   72 (210)
T PTZ00301          6 IGISGASGSGKSSLSTNIVSELMAHCGPVSIGV-ICEDF--YYRDQS---NIP-ESERA-----YTNYDHP-KSLEHDLL   72 (210)
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHhhcCCCeEEE-eCCCC--CccCcc---cCC-HHHhc-----CCCCCCh-hhhCHHHH
Confidence            56899999999999998887652      23 5 88888  676532   112 11111     1122222 46677777


Q ss_pred             HHHHHHHH
Q psy7554          98 RNRALKHT  105 (115)
Q Consensus        98 ~~~A~~~I  105 (115)
                      .+...++.
T Consensus        73 ~~~l~~L~   80 (210)
T PTZ00301         73 TTHLRELK   80 (210)
T ss_pred             HHHHHHHH
Confidence            76664444

>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=97.40  E-value=5.3e-05  Score=54.17  Aligned_cols=29  Identities=10%  Similarity=-0.135  Sum_probs=26.0

Q ss_pred             eeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          27 SCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |.||+|||||++|..||++++... ||+..
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~-is~~~   29 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVH-ISVGD   29 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEE-EEHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcCcce-echHH
Confidence            589999999999999999999888 88643

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 ....

>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional

Probab=97.39  E-value=5.8e-05  Score=66.88  Aligned_cols=38  Identities=5%  Similarity=-0.112  Sum_probs=34.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld   64 (115)
                      .+.|.||+|||||++|..||++++...   .|+-++||.+.
T Consensus       444 ~i~i~g~~~~gks~~~~~l~~~~~~~~---~~~~~~~~~~~  481 (661)
T PRK11860        444 VICIDGPTASGKGTVAARVAEALGYHY---LDSGALYRLTA  481 (661)
T ss_pred             eEEeeCCCCCCHHHHHHHHHHHhCCeE---ecHHHhhhHHH
Confidence            467899999999999999999999988   67779999974

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.39  E-value=9.6e-05  Score=56.04  Aligned_cols=30  Identities=13%  Similarity=-0.099  Sum_probs=25.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|.||+|||||++|-+||++++..= |+.|
T Consensus         3 iiilG~pGaGK~T~A~~La~~~~i~h-lstg   32 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKKLGLPH-LDTG   32 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-EcHh
Confidence            67899999999999999999976654 4544

>PRK00081 coaE dephospho-CoA kinase; Reviewed

Probab=97.39  E-value=0.00016  Score=54.49  Aligned_cols=31  Identities=0%  Similarity=-0.389  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++-.|++ ++..+ |++|.+
T Consensus         5 i~ltG~~gsGKst~~~~l~~-~g~~~-i~~D~~   35 (194)
T PRK00081          5 IGLTGGIGSGKSTVANLFAE-LGAPV-IDADAI   35 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHH-cCCEE-EEecHH
Confidence            66899999999999999998 88899 999963

>PLN02200 adenylate kinase family protein

Probab=97.37  E-value=0.00012  Score=57.39  Aligned_cols=31  Identities=0%  Similarity=-0.288  Sum_probs=27.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||.+|-.||++++... |+++.
T Consensus        46 i~I~G~PGSGKsT~a~~La~~~g~~h-is~gd   76 (234)
T PLN02200         46 TFVLGGPGSGKGTQCEKIVETFGFKH-LSAGD   76 (234)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EEccH
Confidence            67899999999999999999998877 77743

>PRK01184 hypothetical protein; Provisional

Probab=97.36  E-value=0.00013  Score=53.41  Aligned_cols=29  Identities=0%  Similarity=-0.298  Sum_probs=25.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|+||.|||||++|. ++++++..+ +++|
T Consensus         4 i~l~G~~GsGKsT~a~-~~~~~g~~~-i~~~   32 (184)
T PRK01184          4 IGVVGMPGSGKGEFSK-IAREMGIPV-VVMG   32 (184)
T ss_pred             EEEECCCCCCHHHHHH-HHHHcCCcE-EEhh
Confidence            6689999999999985 899999888 8873

>TIGR00017 cmk cytidylate kinase

Probab=97.35  E-value=8.5e-05  Score=57.66  Aligned_cols=37  Identities=5%  Similarity=-0.066  Sum_probs=30.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGL   63 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgl   63 (115)
                      .+.|.||+|||||+++..||++++... ++  +=.+||.+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~~~~~~-~~--~g~~~r~~   40 (217)
T TIGR00017         4 IIAIDGPSGAGKSTVAKAVAEKLGYAY-LD--SGAMYRAI   40 (217)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCce-ee--CchHHHHH
Confidence            467899999999999999999999888 54  44557665

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>PRK06696 uridine kinase; Validated

Probab=97.34  E-value=0.00012  Score=56.03  Aligned_cols=40  Identities=5%  Similarity=-0.230  Sum_probs=29.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCC---ce-Eeeccceee
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPD---LF-CRTYQVYLM   58 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~---~e-I~IsaDSmQ   58 (115)
                      ++..++ |.|+|++|||||+||-.||+.++   .. +.++.|..-
T Consensus        19 ~~~~~i-I~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~   62 (223)
T PRK06696         19 LTRPLR-VAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFH   62 (223)
T ss_pred             CCCceE-EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecccccc
Confidence            334444 77999999999999999999883   22 226788653

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.34  E-value=0.00025  Score=52.59  Aligned_cols=31  Identities=6%  Similarity=-0.145  Sum_probs=25.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||+|+..||..++..+ .-.|+
T Consensus         5 i~l~G~sGsGKsTl~~~l~~~~~~~~-~~~~~   35 (186)
T PRK10078          5 IWLMGPSGSGKDSLLAALRQREQTQL-LVAHR   35 (186)
T ss_pred             EEEECCCCCCHHHHHHHHhccCCCeE-EEcCE
Confidence            45899999999999999999887776 44444

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.34  E-value=0.00012  Score=53.77  Aligned_cols=33  Identities=6%  Similarity=-0.308  Sum_probs=26.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce-Eeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF-CRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e-I~IsaDSm   57 (115)
                      ++++||.|||||++|..|++.++.. +.++.|..
T Consensus         5 i~l~G~~gsGKst~a~~l~~~~~~~~~~~~~D~~   38 (175)
T cd00227           5 IILNGGSSAGKSSIARALQSVLAEPWLHFGVDSF   38 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhCCCccccCccHH
Confidence            5589999999999999999998653 33577754

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.33  E-value=0.00018  Score=54.11  Aligned_cols=66  Identities=14%  Similarity=0.046  Sum_probs=39.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHh-cCCCeeeecccCCCCccCHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEA-EGIPHHLLDFLDPNTRFTVVDYRNRALK  103 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~-~~IpHHLid~ldp~e~ySv~~F~~~A~~  103 (115)
                      ++|+|+++||||.+|.++|...+... +..           .|++|-.+|+ ++|..|--.   ....|+..++..+..+
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~-~y~-----------at~~~~d~em~~rI~~H~~~---R~~~w~t~E~~~~l~~   66 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPV-TYI-----------ATAEAFDDEMAERIARHRKR---RPAHWRTIETPRDLVS   66 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCe-EEE-----------EccCcCCHHHHHHHHHHHHh---CCCCceEeecHHHHHH
Confidence            57899999999999999998865555 333           5555554443 334443111   1333444444444444


Q ss_pred             HH
Q psy7554         104 HT  105 (115)
Q Consensus       104 ~I  105 (115)
                      ++
T Consensus        67 ~l   68 (169)
T cd00544          67 AL   68 (169)
T ss_pred             HH
Confidence            44

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=97.32  E-value=0.00018  Score=54.64  Aligned_cols=36  Identities=3%  Similarity=-0.329  Sum_probs=32.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYk   61 (115)
                      +.|+|+.|||||.++-.|++.++..+ |++|.+  ++|+
T Consensus         4 i~itG~~gsGKst~~~~l~~~~g~~~-i~~D~~~~~~~~   41 (195)
T PRK14730          4 IGLTGGIASGKSTVGNYLAQQKGIPI-LDADIYAREALA   41 (195)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhCCeE-eeCcHHHHHHHh
Confidence            56899999999999999999889999 999987  4665

>PRK00625 shikimate kinase; Provisional

Probab=97.30  E-value=0.00016  Score=54.40  Aligned_cols=32  Identities=16%  Similarity=-0.059  Sum_probs=29.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |+++|+.|||||+++..||++++... |..|.+
T Consensus         3 I~LiG~pGsGKTT~~k~La~~l~~~~-id~D~~   34 (173)
T PRK00625          3 IFLCGLPTVGKTSFGKALAKFLSLPF-FDTDDL   34 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EEhhHH
Confidence            56799999999999999999999988 888864

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=97.30  E-value=0.00022  Score=52.82  Aligned_cols=31  Identities=3%  Similarity=-0.323  Sum_probs=27.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++..|++ ++..+ |++|.+
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~-i~~D~~   32 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPV-IDADKI   32 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCE-EecCHH
Confidence            56899999999999999999 88888 999953

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=97.28  E-value=0.00053  Score=53.10  Aligned_cols=66  Identities=8%  Similarity=-0.206  Sum_probs=40.6

Q ss_pred             eeeccCCCchhHHHHHHhcCCC-------ceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHH
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPD-------LFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYR   98 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~-------~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~   98 (115)
                      -|+||+|||||+||..|+..+.       ..+ |+.|..  |+.         .++++...  +++.-..-+.|++..+.
T Consensus         3 gI~G~sGSGKTTla~~L~~~l~~~~~~~~v~v-i~~D~f--~~~---------~~~~~~~~--~~~~~g~p~~~d~~~l~   68 (220)
T cd02025           3 GIAGSVAVGKSTTARVLQALLSRWPDHPNVEL-ITTDGF--LYP---------NKELIERG--LMDRKGFPESYDMEALL   68 (220)
T ss_pred             EeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEE-EecCcc--cCc---------HHHHHHhh--hhhcCCCcccCCHHHHH
Confidence            4899999999999999997762       245 888987  432         23332222  11222223677777776


Q ss_pred             HHHHHHH
Q psy7554          99 NRALKHT  105 (115)
Q Consensus        99 ~~A~~~I  105 (115)
                      +...++.
T Consensus        69 ~~L~~l~   75 (220)
T cd02025          69 KFLKDIK   75 (220)
T ss_pred             HHHHHHH
Confidence            5544443

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=97.28  E-value=0.00023  Score=54.51  Aligned_cols=32  Identities=9%  Similarity=-0.090  Sum_probs=24.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSm   57 (115)
                      ++++||||||||..+.+||..+     ...+ |++|..
T Consensus         4 i~lvGptGvGKTTt~aKLAa~~~~~~~~v~l-is~D~~   40 (196)
T PF00448_consen    4 IALVGPTGVGKTTTIAKLAARLKLKGKKVAL-ISADTY   40 (196)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--EEE-EEESTS
T ss_pred             EEEECCCCCchHhHHHHHHHHHhhcccccee-ecCCCC
Confidence            4579999999999988888543     3456 888865

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 ....

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=97.26  E-value=0.0002  Score=53.75  Aligned_cols=34  Identities=3%  Similarity=-0.239  Sum_probs=25.0

Q ss_pred             eeeccCCCchhHHHHHHhcCC--CceEeeccceeee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP--DLFCRTYQVYLMV   59 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~--~~eI~IsaDSmQV   59 (115)
                      +++|+.|||||.++-.+...+  ++.+.|++|-+.-
T Consensus        19 i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~r~   54 (199)
T PF06414_consen   19 IIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEFRQ   54 (199)
T ss_dssp             EEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGGGG
T ss_pred             EEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHHHH
Confidence            479999999999999998876  4444499998643

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=97.26  E-value=0.0002  Score=55.03  Aligned_cols=33  Identities=9%  Similarity=-0.173  Sum_probs=28.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||.+|-.||++++...+++.|.+
T Consensus         6 i~i~G~~G~GKst~a~~l~~~~~~~~~~~~D~~   38 (197)
T PRK12339          6 HFIGGIPGVGKTSISGYIARHRAIDIVLSGDYL   38 (197)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCeEEehhHHH
Confidence            568999999999999999999987653777865

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.24  E-value=0.00024  Score=61.48  Aligned_cols=36  Identities=11%  Similarity=-0.129  Sum_probs=32.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeec
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVY   60 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVY   60 (115)
                      .+++.||||+|||.+|..||+.++... +..|+..+.
T Consensus        49 ~ILLiGppG~GKT~lAraLA~~l~~~f-i~vdat~~~   84 (441)
T TIGR00390        49 NILMIGPTGVGKTEIARRLAKLANAPF-IKVEATKFT   84 (441)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCeE-EEeecceee
Confidence            466799999999999999999999999 888977654

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

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

Probab=97.24  E-value=0.0017  Score=52.78  Aligned_cols=83  Identities=17%  Similarity=0.189  Sum_probs=58.2

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCC--Ccc
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN--TRF   92 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~--e~y   92 (115)
                      +=.+.+|+.   |.||.|||||+||.-|+-..+-++   ..--=+|+|=||..-.|+.--+.++   ++.+-.|-  .--
T Consensus        26 ~v~~GEvha---iMGPNGsGKSTLa~~i~G~p~Y~V---t~G~I~~~GedI~~l~~~ERAr~Gi---fLafQ~P~ei~GV   96 (251)
T COG0396          26 TVKEGEVHA---IMGPNGSGKSTLAYTIMGHPKYEV---TEGEILFDGEDILELSPDERARAGI---FLAFQYPVEIPGV   96 (251)
T ss_pred             eEcCCcEEE---EECCCCCCHHHHHHHHhCCCCceE---ecceEEECCcccccCCHhHHHhcCC---EEeecCCccCCCe
Confidence            445678888   999999999999999997765444   2223379999998777644444444   34444454  456


Q ss_pred             CHHHHHHHHHHHHh
Q psy7554          93 TVVDYRNRALKHTG  106 (115)
Q Consensus        93 Sv~~F~~~A~~~I~  106 (115)
                      ++.+|.+.|..+..
T Consensus        97 ~~~~fLr~a~n~~~  110 (251)
T COG0396          97 TNSDFLRAAMNARR  110 (251)
T ss_pred             eHHHHHHHHHHhhh
Confidence            78888887777643

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=97.23  E-value=0.00019  Score=62.18  Aligned_cols=36  Identities=11%  Similarity=-0.129  Sum_probs=30.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeec
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVY   60 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVY   60 (115)
                      .+|++||||+|||.||..||+.++... +..|+..+.
T Consensus        52 ~ILliGp~G~GKT~LAr~LAk~l~~~f-i~vD~t~f~   87 (443)
T PRK05201         52 NILMIGPTGVGKTEIARRLAKLANAPF-IKVEATKFT   87 (443)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCChh-eeecchhhc
Confidence            567899999999999999999999988 888865433

>PRK08356 hypothetical protein; Provisional

Probab=97.22  E-value=0.00044  Score=51.76  Aligned_cols=37  Identities=3%  Similarity=-0.208  Sum_probs=27.9

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |.+.-+   ++|+||.|||||++|-.|++ ++... |++..+
T Consensus         2 ~~~~~~---i~~~G~~gsGK~t~a~~l~~-~g~~~-is~~~~   38 (195)
T PRK08356          2 GVEKMI---VGVVGKIAAGKTTVAKFFEE-KGFCR-VSCSDP   38 (195)
T ss_pred             CCCcEE---EEEECCCCCCHHHHHHHHHH-CCCcE-EeCCCc
Confidence            445533   56899999999999999964 77766 776653

>PHA00729 NTP-binding motif containing protein

Probab=97.21  E-value=0.00019  Score=57.07  Aligned_cols=26  Identities=4%  Similarity=-0.063  Sum_probs=23.1

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |.+++|+||+|+|||.||..||++++
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45799999999999999999998764

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.18  E-value=0.00035  Score=53.12  Aligned_cols=50  Identities=16%  Similarity=0.143  Sum_probs=33.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||.|||||+|+-.|.+.... +         +.-..-.|-.|...|..++.||+++
T Consensus        16 ivi~GpsG~GK~tl~~~L~~~~~~-~---------~~~~~~ttr~~r~~e~~g~~y~fv~   65 (206)
T PRK14738         16 VVISGPSGVGKDAVLARMRERKLP-F---------HFVVTATTRPKRPGEIDGVDYHFVT   65 (206)
T ss_pred             EEEECcCCCCHHHHHHHHHhcCCc-c---------cccccccCCCCCCCCCCCCeeeeCC
Confidence            457999999999999999764221 1         1122233444455677888888774

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.18  E-value=0.00032  Score=55.28  Aligned_cols=31  Identities=6%  Similarity=-0.166  Sum_probs=24.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE-eeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC-RTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI-~IsaD   55 (115)
                      +++.||+|+|||.||..||+.++... +++++
T Consensus        24 vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~   55 (262)
T TIGR02640        24 VHLRGPAGTGKTTLAMHVARKRDRPVMLINGD   55 (262)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCC
Confidence            45799999999999999999887654 25554

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).

>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=97.18  E-value=0.00039  Score=44.59  Aligned_cols=38  Identities=8%  Similarity=0.002  Sum_probs=26.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceEeeccceeeeccCCce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYLMVYKGLDV   65 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSmQVYkgldI   65 (115)
                      +.|+|+.|||||+++..|++.+   +..+   .|...+..+..-
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l~~~~~~~---i~~~~I~eg~~~   42 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQLGGRSVVV---LDEIVILEGLYA   42 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCEEE---EeEEEEecchhh
Confidence            4579999999999999999984   4444   344444444433

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.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.17  E-value=0.00024  Score=60.39  Aligned_cols=34  Identities=12%  Similarity=-0.115  Sum_probs=27.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLM   58 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQ   58 (115)
                      ++|+.||||||||.||..||+.++... +..|.-.
T Consensus       110 ~iLl~Gp~GtGKT~lAr~lA~~l~~pf-~~id~~~  143 (412)
T PRK05342        110 NILLIGPTGSGKTLLAQTLARILDVPF-AIADATT  143 (412)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc-eecchhh
Confidence            467899999999999999999998776 5555543

>TIGR00235 udk uridine kinase

Probab=97.17  E-value=0.00031  Score=52.98  Aligned_cols=32  Identities=3%  Similarity=-0.235  Sum_probs=26.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC---ceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD---LFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~---~eI~IsaDSm   57 (115)
                      +.|+||+|||||+|+..|+..++   ..+ ++.|..
T Consensus         9 i~I~G~sGsGKSTl~~~l~~~l~~~~~~~-i~~D~~   43 (207)
T TIGR00235         9 IGIGGGSGSGKTTVARKIYEQLGKLEIVI-ISQDNY   43 (207)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcccCCeE-eccccc
Confidence            45899999999999999998765   456 888875

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

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=97.15  E-value=0.00032  Score=59.88  Aligned_cols=32  Identities=9%  Similarity=-0.128  Sum_probs=26.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+.||||||||.+|..||+.++... ...|.
T Consensus       118 ~iLL~GP~GsGKT~lAraLA~~l~~pf-~~~da  149 (413)
T TIGR00382       118 NILLIGPTGSGKTLLAQTLARILNVPF-AIADA  149 (413)
T ss_pred             eEEEECCCCcCHHHHHHHHHHhcCCCe-EEech
Confidence            577999999999999999999998765 44443

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.

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=97.15  E-value=0.00026  Score=60.61  Aligned_cols=35  Identities=11%  Similarity=-0.000  Sum_probs=24.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC--ceEeeccceeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD--LFCRTYQVYLMVY   60 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~--~eI~IsaDSmQVY   60 (115)
                      +|++||+|+|||+||+.+|+.++  ... +....-.||
T Consensus        53 iLiaGppGtGKTAlA~~ia~eLG~~~PF-~~isgSEiy   89 (398)
T PF06068_consen   53 ILIAGPPGTGKTALAMAIAKELGEDVPF-VSISGSEIY   89 (398)
T ss_dssp             EEEEE-TTSSHHHHHHHHHHHCTTTS-E-EEEEGGGG-
T ss_pred             EEEeCCCCCCchHHHHHHHHHhCCCCCe-eEcccceee
Confidence            45899999999999999999997  333 333444444

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>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=97.14  E-value=0.0013  Score=47.66  Aligned_cols=32  Identities=9%  Similarity=-0.134  Sum_probs=25.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSm   57 (115)
                      +++.||+|||||.++..+|..+     ...+ |++|..
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~-i~~D~~   39 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLL-VAADTY   39 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEE-EEcCCC
Confidence            6789999999999998888653     2345 889964

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.12  E-value=0.00033  Score=51.03  Aligned_cols=23  Identities=4%  Similarity=-0.194  Sum_probs=20.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+||+|||||+|+-.|+..++
T Consensus         4 ~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         4 IYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999998765

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.12  E-value=0.00044  Score=54.17  Aligned_cols=50  Identities=18%  Similarity=0.172  Sum_probs=41.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDF   85 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~   85 (115)
                      ++|+||.|+|||+|...|-+..+....||           -.|-+|-+-|..++.+|+++.
T Consensus         7 ~vlsgPSG~GKsTl~k~L~~~~~l~~SVS-----------~TTR~pR~gEv~G~dY~Fvs~   56 (191)
T COG0194           7 IVLSGPSGVGKSTLVKALLEDDKLRFSVS-----------ATTRKPRPGEVDGVDYFFVTE   56 (191)
T ss_pred             EEEECCCCCCHHHHHHHHHhhcCeEEEEE-----------eccCCCCCCCcCCceeEeCCH
Confidence            56899999999999999987776555344           467789999999999999964

>PRK13948 shikimate kinase; Provisional

Probab=97.11  E-value=0.00043  Score=52.66  Aligned_cols=31  Identities=6%  Similarity=-0.274  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++++|+-|||||.++..||+.++... |-.|.
T Consensus        13 I~LiG~~GsGKSTvg~~La~~lg~~~-iD~D~   43 (182)
T PRK13948         13 VALAGFMGTGKSRIGWELSRALMLHF-IDTDR   43 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCE-EECCH
Confidence            45699999999999999999999999 88883

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.11  E-value=0.00029  Score=53.26  Aligned_cols=23  Identities=13%  Similarity=0.034  Sum_probs=19.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+||||||||++...|+..++
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            67999999999999888776653

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.

>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional

Probab=97.10  E-value=0.00039  Score=60.87  Aligned_cols=37  Identities=8%  Similarity=0.015  Sum_probs=31.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld   64 (115)
                      +.|.||+|||||.+|..||+.++... ++.|  .+||.+.
T Consensus       287 i~i~G~sgsGKst~a~~la~~l~~~~-~d~g--~~YR~~a  323 (512)
T PRK13477        287 IAIDGPAGAGKSTVTRAVAKKLGLLY-LDTG--AMYRAVT  323 (512)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-ecCC--ceehHHH
Confidence            55899999999999999999999877 6666  5699863

>PRK07667 uridine kinase; Provisional

Probab=97.10  E-value=0.00032  Score=52.77  Aligned_cols=40  Identities=3%  Similarity=-0.203  Sum_probs=30.3

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCC-----ceEeecccee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYL   57 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSm   57 (115)
                      -++.+- +-+-|+|+.|||||.+|-.|++.++     ..+ ++.|..
T Consensus        12 ~~~~~~-~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~-i~~Dd~   56 (193)
T PRK07667         12 KHKENR-FILGIDGLSRSGKTTFVANLKENMKQEGIPFHI-FHIDDY   56 (193)
T ss_pred             hcCCCC-EEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEE-EEcCcc
Confidence            334443 3367999999999999999998763     456 899974

>TIGR00152 dephospho-CoA kinase

Probab=97.10  E-value=0.00042  Score=51.39  Aligned_cols=37  Identities=8%  Similarity=-0.251  Sum_probs=32.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYkg   62 (115)
                      +.|+|+.|||||.++-.|++..+..+ |++|.+  ++|..
T Consensus         2 i~itG~~gsGKst~~~~l~~~~~~~~-i~~D~~~~~~~~~   40 (188)
T TIGR00152         2 IGLTGGIGSGKSTVANYLADKYHFPV-IDADKIAHQVVEK   40 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCeE-EeCCHHHHHHHhc
Confidence            56899999999999999999887889 999976  56654

This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.09  E-value=0.00034  Score=54.31  Aligned_cols=29  Identities=7%  Similarity=-0.166  Sum_probs=26.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      |-|.||.|||||++|..||+.++.+. ||+
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~-vsa   31 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKL-VSA   31 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCce-eec
Confidence            56899999999999999999999999 774

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.08  E-value=0.00023  Score=51.95  Aligned_cols=23  Identities=4%  Similarity=-0.228  Sum_probs=20.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++++|+.|||||++|..|++.+.
T Consensus        10 I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541         10 IWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            45799999999999999998875

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

Probab=97.08  E-value=0.00028  Score=51.16  Aligned_cols=33  Identities=3%  Similarity=-0.167  Sum_probs=26.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---C--ceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---D--LFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~--~eI~IsaDSmQ   58 (115)
                      ++|+|+.|||||.||..|++.+   +  ... ++.|++.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~-i~~d~~r   39 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYV-LDGDNVR   39 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEE-EcCHHHH
Confidence            4689999999999999999987   3  234 6777653

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

>PRK12338 hypothetical protein; Provisional

Probab=97.06  E-value=0.0004  Score=57.72  Aligned_cols=34  Identities=6%  Similarity=-0.011  Sum_probs=28.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      -++|+|+.|||||.+|-.||++++....++.|.+
T Consensus         6 ii~i~G~sGsGKST~a~~la~~l~~~~~~~tD~~   39 (319)
T PRK12338          6 VILIGSASGIGKSTIASELARTLNIKHLIETDFI   39 (319)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCeEEccChHH
Confidence            3568999999999999999999998762477754

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.04  E-value=0.0003  Score=54.40  Aligned_cols=32  Identities=6%  Similarity=-0.067  Sum_probs=26.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-----ceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSm   57 (115)
                      ++++|+.|||||++|.+||+.++     ..+ ++.|+.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~-i~~D~l   38 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVII-LGTDLI   38 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEE-EccHHH
Confidence            57899999999999999998763     345 777765

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.

>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity

Probab=97.04  E-value=0.00034  Score=52.72  Aligned_cols=39  Identities=15%  Similarity=-0.101  Sum_probs=30.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHh
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEA   75 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~   75 (115)
                      +||+|...||||++|-+||.+++... +           =|.|++|..+||
T Consensus         1 ilv~GG~rSGKS~~Ae~la~~~~~~~-~-----------YiAT~~~~D~em   39 (167)
T PF02283_consen    1 ILVTGGARSGKSSFAERLALSFGGPV-T-----------YIATARPFDEEM   39 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS--SCE-E-----------EEESSHHHHHHH
T ss_pred             CEEeCCCCcchHHHHHHHHHhcCCCc-E-----------EEeCCCCCCHHH
Confidence            57899999999999999999887766 2           267888877665

The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.

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

Probab=97.02  E-value=0.00033  Score=64.22  Aligned_cols=25  Identities=20%  Similarity=0.050  Sum_probs=22.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      -|+|.+||||+|||.||..||+.+.
T Consensus       522 gsFlF~GPTGVGKTELAkaLA~~Lf  546 (786)
T COG0542         522 GSFLFLGPTGVGKTELAKALAEALF  546 (786)
T ss_pred             eEEEeeCCCcccHHHHHHHHHHHhc
Confidence            3666999999999999999999875

>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]

Probab=97.00  E-value=0.00074  Score=56.20  Aligned_cols=67  Identities=12%  Similarity=0.069  Sum_probs=48.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeecc-CCceecCCCCHHHhcCCCeeeecccCCCCcc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYK-GLDVITNKVTPEEAEGIPHHLLDFLDPNTRF   92 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYk-gldIgTAKPs~eE~~~IpHHLid~ldp~e~y   92 (115)
                      .+||+||.|+|||.+|++|-++- ... |.=|.+-+|+ +=+..-.+|+.--..-+.=..+|+++....|
T Consensus       147 GVLItG~SG~GKSElALeLi~rg-hrL-VaDD~V~i~~~~~~~L~gr~pe~l~gllEIRGlGii~v~~~~  214 (308)
T COG1493         147 GVLITGPSGAGKSELALELIKRG-HRL-VADDAVEIFREGGNRLVGRAPELLAGLLEIRGLGIINVMTVF  214 (308)
T ss_pred             EEEEECCCCCCHhHHHHHHHHhc-cce-eccccEEEEeccCCeEeecChHHhcCcEEecccceEeeehhc
Confidence            57899999999999999998765 556 7889999999 7777777753333333333445666655544

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.99  E-value=0.00086  Score=50.19  Aligned_cols=31  Identities=3%  Similarity=-0.321  Sum_probs=26.5

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +|+||+|||||.|+..|+..++... +..|.+
T Consensus         7 ~l~G~sGsGKSTl~~~la~~l~~~~-i~gd~~   37 (176)
T PRK09825          7 ILMGVSGSGKSLIGSKIAALFSAKF-IDGDDL   37 (176)
T ss_pred             EEECCCCCCHHHHHHHHHHhcCCEE-ECCccc
Confidence            4899999999999999999888766 766653

>PRK04040 adenylate kinase; Provisional

Probab=96.98  E-value=0.00054  Score=51.96  Aligned_cols=33  Identities=6%  Similarity=-0.236  Sum_probs=27.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC--CceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP--DLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~--~~eI~IsaDSm   57 (115)
                      .++|+|+.|||||+++..|++++  +... ++.|+.
T Consensus         4 ~i~v~G~pG~GKtt~~~~l~~~l~~~~~~-~~~g~~   38 (188)
T PRK04040          4 VVVVTGVPGVGKTTVLNKALEKLKEDYKI-VNFGDV   38 (188)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHhccCCeE-EecchH
Confidence            35789999999999999999999  5666 777773

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.95  E-value=0.00058  Score=49.31  Aligned_cols=21  Identities=10%  Similarity=-0.092  Sum_probs=18.4

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      +++|.||+|+|||.|+.+++.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~   21 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLY   21 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999988764

A related protein is found in archaea.

>PRK15453 phosphoribulokinase; Provisional

Probab=96.94  E-value=0.0013  Score=54.23  Aligned_cols=60  Identities=7%  Similarity=-0.014  Sum_probs=40.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-----ceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN   89 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~   89 (115)
                      |.|+|++|||||.++..|++.++     ..+ |+.|+.--|.- .-...++..+++++.   -+|+..|+
T Consensus         8 I~ItG~SGsGKTTva~~l~~if~~~~~~~~v-i~~D~yh~ydr-~~~~~~~~~~~r~g~---nfdhf~Pd   72 (290)
T PRK15453          8 IAVTGSSGAGTTTVKRAFEKIFRRENINAAV-VEGDSFHRYTR-PEMKAAIAKARAAGR---HFSHFGPE   72 (290)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCCeEE-EecccccccCh-hhHhhhhHHHHhcCC---CCCCCCCC
Confidence            56899999999999999998664     456 99999876621 122334444555553   45666664

>PF07475 Hpr_kinase_C: HPr Serine kinase C-terminal domain; InterPro: IPR011104 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []

Probab=96.94  E-value=0.00019  Score=55.17  Aligned_cols=45  Identities=7%  Similarity=-0.023  Sum_probs=35.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCce-ecCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDV-ITNKV   70 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldI-gTAKP   70 (115)
                      .++|+|+.|+|||.||++|.++ +... |+=|-+.|.+.-+= ..+++
T Consensus        20 GVLi~G~SG~GKS~lAl~Li~r-Gh~l-vaDD~v~i~~~~~~~l~g~~   65 (171)
T PF07475_consen   20 GVLITGPSGIGKSELALELIKR-GHRL-VADDRVEIRRIGGRTLIGRA   65 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT-T-EE-EESSEEEEEECTTCEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHC-CCeE-EeCCEEEEEECCCCEEEEeC
Confidence            5789999999999999999986 4567 88888888887653 44444

Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the C-terminal kinase domain of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller [].; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 2QMH_C 1KKM_B 1KKL_C 1JB1_A 3TQF_B 1KNX_B 1KO7_A.

>PRK14526 adenylate kinase; Provisional

Probab=96.94  E-value=0.00059  Score=52.84  Aligned_cols=32  Identities=9%  Similarity=-0.059  Sum_probs=27.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+++-.||+.++... |+++.+
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~~~~~-is~G~l   34 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNELNYYH-ISTGDL   34 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-eecChH
Confidence            57899999999999999999998877 776554

>PRK13808 adenylate kinase; Provisional

Probab=96.93  E-value=0.00051  Score=57.32  Aligned_cols=32  Identities=6%  Similarity=-0.071  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |||+||.|||||.++..||+.++... |+.|.+
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~ygl~~-is~gdl   34 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQYGIVQ-LSTGDM   34 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-ecccHH
Confidence            67899999999999999999999888 877553

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.92  E-value=0.00052  Score=51.99  Aligned_cols=23  Identities=4%  Similarity=-0.166  Sum_probs=19.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|+||+|||||.|+..++...
T Consensus        44 ~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         44 FFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            45679999999999999998653

>PLN02772 guanylate kinase

Probab=96.91  E-value=0.00098  Score=57.06  Aligned_cols=60  Identities=13%  Similarity=0.045  Sum_probs=44.3

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      |.|+....-++|+||+||||++|...|.+.+....         .....-.|-+|.+-|..++.+|+++
T Consensus       129 ~~~~~~~k~iVlsGPSGvGKsTL~~~L~~~~p~~~---------~~~vshTTR~pR~gE~dG~dY~Fvs  188 (398)
T PLN02772        129 GVRGNAEKPIVISGPSGVGKGTLISMLMKEFPSMF---------GFSVSHTTRAPREMEKDGVHYHFTE  188 (398)
T ss_pred             CCCCCCCcEEEEECCCCCCHHHHHHHHhhhccccc---------cccccccCCCCcccccCCceEeeCC
Confidence            44554555678899999999999999988765433         1122557888888899998888874

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.91  E-value=0.0017  Score=53.02  Aligned_cols=67  Identities=4%  Similarity=-0.207  Sum_probs=41.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-------CceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDY   97 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F   97 (115)
                      +-|+||+|||||+++..|+.-+       ...+ ++.|..  |+.         .++++...  +......-+.|++..+
T Consensus        65 IGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~v-i~~D~f--~~~---------~~~l~~~g--~~~~~g~P~s~D~~~l  130 (290)
T TIGR00554        65 ISIAGSVAVGKSTTARILQALLSRWPEHRKVEL-ITTDGF--LHP---------NQVLKERN--LMKKKGFPESYDMHRL  130 (290)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCCCceEE-Eecccc--ccc---------HHHHHHcC--CccccCCChhccHHHH
Confidence            5689999999999997664333       2345 888883  332         23333221  2333344578888888


Q ss_pred             HHHHHHHH
Q psy7554          98 RNRALKHT  105 (115)
Q Consensus        98 ~~~A~~~I  105 (115)
                      .+...+..
T Consensus       131 ~~~L~~Lk  138 (290)
T TIGR00554       131 VKFLSDLK  138 (290)
T ss_pred             HHHHHHHH
Confidence            76655444

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.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.91  E-value=0.00051  Score=59.19  Aligned_cols=24  Identities=13%  Similarity=0.058  Sum_probs=22.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      .+||+||.|+|||+||+.+|+.++
T Consensus        67 giLi~GppgTGKTAlA~gIa~eLG   90 (450)
T COG1224          67 GILIVGPPGTGKTALAMGIARELG   90 (450)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhC
Confidence            367899999999999999999986

>KOG0745|consensus

Probab=96.87  E-value=0.00068  Score=59.68  Aligned_cols=37  Identities=11%  Similarity=-0.097  Sum_probs=32.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      +|+.||||||||-||--||+-+|..| .=||.-++=+.
T Consensus       229 vLllGPtGsGKTllaqTLAr~ldVPf-aIcDcTtLTQA  265 (564)
T KOG0745|consen  229 VLLLGPTGSGKTLLAQTLARVLDVPF-AICDCTTLTQA  265 (564)
T ss_pred             EEEECCCCCchhHHHHHHHHHhCCCe-EEecccchhhc
Confidence            67899999999999999999999998 77998877443

>PRK05428 HPr kinase/phosphorylase; Provisional

Probab=96.87  E-value=0.00063  Score=56.40  Aligned_cols=74  Identities=9%  Similarity=-0.012  Sum_probs=50.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCce-ecCCCCHHHhcCCCeeeecccCCCCccCHHHHH
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDV-ITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYR   98 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldI-gTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~   98 (115)
                      ..+||.|+.|+|||.+|++|-++ +... |+=|-..|++.-+- .-++++.--+.-+.=..+|+++...-|-++.++
T Consensus       147 ~GvLi~G~SG~GKSelALeLi~r-Gh~L-VaDD~v~i~~~~~~~L~g~~p~~l~~~lEvRG~GIi~v~~lfG~~av~  221 (308)
T PRK05428        147 IGVLITGESGIGKSETALELIKR-GHRL-VADDAVDIKRIGPDTLEGRCPELLQHLLEIRGLGIIDVRTLFGATAVR  221 (308)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc-CCce-EecCeEEEEEecCCEEEeeCchhhcchhhhcCCcEEehhhhcCcccee
Confidence            46789999999999999999877 4456 78888899876542 334444433334444567777777666554443

>PRK14731 coaE dephospho-CoA kinase; Provisional

Probab=96.85  E-value=0.0011  Score=50.50  Aligned_cols=29  Identities=3%  Similarity=-0.460  Sum_probs=26.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      +-|+|+.|||||+++--|++ ++..+ +++|
T Consensus         8 igitG~igsGKSt~~~~l~~-~g~~v-~d~D   36 (208)
T PRK14731          8 VGVTGGIGSGKSTVCRFLAE-MGCEL-FEAD   36 (208)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCeE-Eecc
Confidence            56899999999999999996 88899 9999

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

Probab=96.85  E-value=0.00087  Score=60.07  Aligned_cols=27  Identities=19%  Similarity=0.187  Sum_probs=23.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +++++||||+|||.||..||+.++...
T Consensus       486 ~~lf~Gp~GvGKT~lA~~la~~l~~~~  512 (731)
T TIGR02639       486 SFLFTGPTGVGKTELAKQLAEALGVHL  512 (731)
T ss_pred             eEEEECCCCccHHHHHHHHHHHhcCCe
Confidence            445999999999999999999998755

>PLN02674 adenylate kinase

Probab=96.84  E-value=0.00072  Score=54.04  Aligned_cols=33  Identities=9%  Similarity=-0.105  Sum_probs=28.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      -++|+||.||||+++|-.||++++..- ||++.+
T Consensus        33 ~i~l~G~PGsGKgT~a~~La~~~~~~h-is~Gdl   65 (244)
T PLN02674         33 RLILIGPPGSGKGTQSPIIKDEYCLCH-LATGDM   65 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCcE-EchhHH
Confidence            467799999999999999999999887 877554

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.84  E-value=0.00089  Score=55.77  Aligned_cols=26  Identities=19%  Similarity=0.194  Sum_probs=22.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      ..++|+||||||||++...|+..++.
T Consensus       163 ~nilI~G~tGSGKTTll~aLl~~i~~  188 (344)
T PRK13851        163 LTMLLCGPTGSGKTTMSKTLISAIPP  188 (344)
T ss_pred             CeEEEECCCCccHHHHHHHHHcccCC
Confidence            45889999999999999999987753

>PRK13975 thymidylate kinase; Provisional

Probab=96.84  E-value=0.00088  Score=49.18  Aligned_cols=26  Identities=12%  Similarity=-0.045  Sum_probs=23.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |+|.|+.|||||+++-.||++++...
T Consensus         5 I~ieG~~GsGKtT~~~~L~~~l~~~~   30 (196)
T PRK13975          5 IVFEGIDGSGKTTQAKLLAEKLNAFW   30 (196)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            67899999999999999999998643

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=96.84  E-value=0.00069  Score=49.88  Aligned_cols=29  Identities=7%  Similarity=-0.128  Sum_probs=25.9

Q ss_pred             eccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          28 CLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        28 ~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +||+|||||.|+-.||+.++... +..|.+
T Consensus         1 ~G~sGsGKSTla~~la~~l~~~~-~~~d~~   29 (163)
T PRK11545          1 MGVSGSGKSAVASEVAHQLHAAF-LDGDFL   29 (163)
T ss_pred             CCCCCCcHHHHHHHHHHHhCCeE-EeCccC
Confidence            59999999999999999998877 888765

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.84  E-value=0.0018  Score=54.76  Aligned_cols=65  Identities=15%  Similarity=0.049  Sum_probs=43.2

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcC----CC---ceEeecccee------ee-----ccCCceecCCCC------HHH
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDG----PD---LFCRTYQVYL------MV-----YKGLDVITNKVT------PEE   74 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~----~~---~eI~IsaDSm------QV-----YkgldIgTAKPs------~eE   74 (115)
                      ..+++   ++||||+|||.++.+||..    .+   .-+ |.+|..      |+     +-++++...+..      ..+
T Consensus       137 g~ii~---lvGptGvGKTTtiakLA~~~~~~~G~~~V~l-it~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~  212 (374)
T PRK14722        137 GGVFA---LMGPTGVGKTTTTAKLAARCVMRFGASKVAL-LTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAE  212 (374)
T ss_pred             CcEEE---EECCCCCCHHHHHHHHHHHHHHhcCCCeEEE-EecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHH
Confidence            34555   8999999999999999854    22   245 888987      33     236676655543      234


Q ss_pred             hcCCCeeeecccC
Q psy7554          75 AEGIPHHLLDFLD   87 (115)
Q Consensus        75 ~~~IpHHLid~ld   87 (115)
                      +.....-|||...
T Consensus       213 l~~~DlVLIDTaG  225 (374)
T PRK14722        213 LRNKHMVLIDTIG  225 (374)
T ss_pred             hcCCCEEEEcCCC
Confidence            4556666777664

>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase

Probab=96.83  E-value=0.00073  Score=56.00  Aligned_cols=74  Identities=8%  Similarity=-0.012  Sum_probs=49.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC-CceecCCCCHHHhcCCCeeeecccCCCCccCHHHHH
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG-LDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYR   98 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg-ldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~   98 (115)
                      ..++|+|+.|+|||++|++|-++ +... |+=|-..|++. =+-.-++++..-+.-+.=..+|+++...-|-++.++
T Consensus       147 ~gvli~G~sg~GKS~lal~Li~r-g~~l-vaDD~~~~~~~~~~~L~g~~p~~l~~~iEvRG~GIi~v~~~fG~~a~~  221 (304)
T TIGR00679       147 VGVLITGKSGVGKSETALELINR-GHRL-VADDAVEIYRLNGNRLFGRAQELIKHFMEIRGLGIINVERLYGLGITR  221 (304)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc-CCce-eecCeEEEEEecCCEEEEeCChhhCCcEEEeCcEEEEchhhcCcccee
Confidence            35779999999999999999876 4456 77888888876 332233343333334444567777777666555544

The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.81  E-value=0.00093  Score=45.87  Aligned_cols=22  Identities=14%  Similarity=0.015  Sum_probs=19.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||+|+|||.++..++...
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~   23 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNI   23 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHH
Confidence            5689999999999998887654

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.

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

Probab=96.80  E-value=0.00069  Score=46.14  Aligned_cols=22  Identities=9%  Similarity=-0.074  Sum_probs=19.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.||+|+|||.++..+++.+
T Consensus         7 ~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    7 LVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             cEEEcCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999876

>PRK06620 hypothetical protein; Validated

Probab=96.79  E-value=0.0014  Score=50.69  Aligned_cols=30  Identities=10%  Similarity=-0.052  Sum_probs=24.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeec
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTY   53 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~Is   53 (115)
                      .+++|.||+|||||.|+..+|+..+..+ ++
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~-~~   74 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAYI-IK   74 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCEE-cc
Confidence            3456799999999999999999888766 54

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.79  E-value=0.00082  Score=56.07  Aligned_cols=33  Identities=9%  Similarity=-0.033  Sum_probs=26.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE-eecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC-RTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI-~IsaDSm   57 (115)
                      ++|.||+|+|||.++..||+.++..+ +|++++.
T Consensus        67 ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~  100 (327)
T TIGR01650        67 VMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSH  100 (327)
T ss_pred             EEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCC
Confidence            56799999999999999999998754 2555443

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.

>PLN02199 shikimate kinase

Probab=96.75  E-value=0.00089  Score=55.53  Aligned_cols=33  Identities=6%  Similarity=-0.334  Sum_probs=29.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +++++|++|||||+++..||+.++... |.+|.+
T Consensus       104 ~I~LIG~~GSGKSTVgr~LA~~Lg~~f-IDtD~l  136 (303)
T PLN02199        104 SMYLVGMMGSGKTTVGKLMSKVLGYTF-FDCDTL  136 (303)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCE-EehHHH
Confidence            456699999999999999999999999 888863

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.75  E-value=0.00087  Score=48.84  Aligned_cols=32  Identities=3%  Similarity=-0.250  Sum_probs=25.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---C--ceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---D--LFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~--~eI~IsaDSm   57 (115)
                      ++++|+.|||||++|..||+.+   +  ..+ ++.|.+
T Consensus         7 i~~~G~~GsGKST~a~~la~~l~~~g~~v~~-id~D~~   43 (175)
T PRK00889          7 VWFTGLSGAGKTTIARALAEKLREAGYPVEV-LDGDAV   43 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEE-EcCccH
Confidence            4589999999999999999876   2  234 777754

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

Probab=96.75  E-value=0.0011  Score=60.41  Aligned_cols=36  Identities=19%  Similarity=0.103  Sum_probs=27.9

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|..   +++++||||+|||.+|..||+.++... +-.|
T Consensus       485 ~kp~~---~~Lf~GP~GvGKT~lAk~LA~~l~~~~-i~id  520 (758)
T PRK11034        485 HKPVG---SFLFAGPTGVGKTEVTVQLSKALGIEL-LRFD  520 (758)
T ss_pred             CCCcc---eEEEECCCCCCHHHHHHHHHHHhCCCc-EEee
Confidence            34544   455999999999999999999998765 4333

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.74  E-value=0.00093  Score=54.22  Aligned_cols=24  Identities=8%  Similarity=-0.183  Sum_probs=20.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++|+||||||||++...|...+
T Consensus       133 ~~ilI~G~tGSGKTTll~al~~~i  156 (299)
T TIGR02782       133 KNILVVGGTGSGKTTLANALLAEI  156 (299)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            367899999999999999888664

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>PRK14734 coaE dephospho-CoA kinase; Provisional

Probab=96.73  E-value=0.0016  Score=49.61  Aligned_cols=58  Identities=9%  Similarity=-0.116  Sum_probs=39.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eeccCCceecCCCCHHHhcCCCeeeecccCCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTR   91 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~   91 (115)
                      +.|+|+.|||||+++..|+. ++..+ |++|.+  ++|+.     ..|..++  -+.++.-++++++..
T Consensus         4 igitG~igsGKst~~~~l~~-~g~~v-id~D~i~~~~~~~-----~~~~~~~--l~~~fg~~~~~~~g~   63 (200)
T PRK14734          4 IGLTGGIGSGKSTVADLLSS-EGFLI-VDADQVARDIVEP-----GQPALAE--LAEAFGDDILNPDGT   63 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCeE-EeCcHHHHHHHhc-----CCHHHHH--HHHHhCccccCCCCh
Confidence            56899999999999999997 78888 999975  66632     1111122  234455666666543

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.73  E-value=0.0013  Score=48.93  Aligned_cols=22  Identities=9%  Similarity=-0.280  Sum_probs=18.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||||||||+|...|+..+
T Consensus        28 i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          28 ILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            4599999999999998888654

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.

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=96.73  E-value=0.00091  Score=51.99  Aligned_cols=25  Identities=12%  Similarity=-0.081  Sum_probs=21.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      -.++|+||||||||++...|.+.++
T Consensus       128 ~~ili~G~tGSGKTT~l~all~~i~  152 (270)
T PF00437_consen  128 GNILISGPTGSGKTTLLNALLEEIP  152 (270)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHCH
T ss_pred             eEEEEECCCccccchHHHHHhhhcc
Confidence            3567999999999999998887664

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.72  E-value=0.0011  Score=52.08  Aligned_cols=27  Identities=7%  Similarity=-0.054  Sum_probs=22.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .+++.||.|+|||.||..+|+.++..+
T Consensus        32 ~~ll~Gp~G~GKT~la~~ia~~~~~~~   58 (305)
T TIGR00635        32 HLLLYGPPGLGKTTLAHIIANEMGVNL   58 (305)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            455799999999999999999887543

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.

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=96.70  E-value=0.0044  Score=53.18  Aligned_cols=82  Identities=9%  Similarity=-0.083  Sum_probs=60.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC-----ceEeeccceee----------eccCCceecCCCCHHHhcCCCeeeecccCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYLM----------VYKGLDVITNKVTPEEAEGIPHHLLDFLDP   88 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSmQ----------VYkgldIgTAKPs~eE~~~IpHHLid~ldp   88 (115)
                      -++|+||..||||+|+.-||.++-     ..| |-+|-=|          .++-.   +.-++.+|+.-..|.|+|...|
T Consensus        75 ~vmvvG~vDSGKSTLt~~LaN~~l~rG~~v~i-iDaDvGQ~ei~pPg~ISL~~~~---s~~~~L~~l~~~~~~FvG~isP  150 (398)
T COG1341          75 VVMVVGPVDSGKSTLTTYLANKLLARGRKVAI-IDADVGQSEIGPPGFISLAFPE---SPVISLSELEPFTLYFVGSISP  150 (398)
T ss_pred             EEEEECCcCcCHHHHHHHHHHHHhhcCceEEE-EeCCCCCcccCCCceEEeeccc---CCCCCHHHcCccceEEEeccCC
Confidence            356899999999999999987663     456 8887555          33322   3333489999999999999999


Q ss_pred             CCccCHHHHHHHHHHHHhhhhhc
Q psy7554          89 NTRFTVVDYRNRALKHTGLKVDL  111 (115)
Q Consensus        89 ~e~ySv~~F~~~A~~~I~~i~~~  111 (115)
                      ...+.  ++..-+.++++...+.
T Consensus       151 ~~~~~--~~i~~v~rL~~~a~~~  171 (398)
T COG1341         151 QGFPG--RYIAGVARLVDLAKKE  171 (398)
T ss_pred             CCChH--HHHHHHHHHHHHhhcc
Confidence            98754  7777777766665543

>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae

Probab=96.69  E-value=0.00089  Score=50.98  Aligned_cols=33  Identities=9%  Similarity=-0.155  Sum_probs=26.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce-Eeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF-CRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e-I~IsaDSm   57 (115)
                      |++.||++||||++|..|.+.+... ..++.|++
T Consensus         4 I~LNG~sSSGKSsia~~Lq~~~~~p~~~l~~D~f   37 (174)
T PF07931_consen    4 IILNGPSSSGKSSIARALQERLPEPWLHLSVDTF   37 (174)
T ss_dssp             EEEEE-TTSSHHHHHHHHHHHSSS-EEEEEHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHhCcCCeEEEecChH
Confidence            4579999999999999999999765 44888853

Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.

>PRK05439 pantothenate kinase; Provisional

Probab=96.66  E-value=0.0034  Score=51.84  Aligned_cols=67  Identities=6%  Similarity=-0.227  Sum_probs=43.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-------CceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDY   97 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F   97 (115)
                      +.|+||.|||||++|..|++.+       ...+ |+.|..  |+..         +++.  .+.+++-.+.-+.|+...|
T Consensus        89 IgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~v-i~~DdF--y~~~---------~~l~--~~~l~~~kg~Pes~D~~~l  154 (311)
T PRK05439         89 IGIAGSVAVGKSTTARLLQALLSRWPEHPKVEL-VTTDGF--LYPN---------AVLE--ERGLMKRKGFPESYDMRAL  154 (311)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhCCCCceEE-Eecccc--ccCH---------HHHh--hhhccccCCCcccccHHHH
Confidence            6789999999999999998744       2456 999986  4322         2222  2334443344557888777


Q ss_pred             HHHHHHHH
Q psy7554          98 RNRALKHT  105 (115)
Q Consensus        98 ~~~A~~~I  105 (115)
                      .+...++.
T Consensus       155 ~~~L~~Lk  162 (311)
T PRK05439        155 LRFLSDVK  162 (311)
T ss_pred             HHHHHHHH
Confidence            65554443

>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.66  E-value=0.001  Score=53.24  Aligned_cols=41  Identities=7%  Similarity=-0.034  Sum_probs=35.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCcee
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVI   66 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIg   66 (115)
                      ..|=|=||.|||||++|..||++++-.-   .||=-+||-+...
T Consensus         5 ~~IAIDGPagsGKsTvak~lA~~Lg~~y---ldTGamYRa~a~~   45 (222)
T COG0283           5 IIIAIDGPAGSGKSTVAKILAEKLGFHY---LDTGAMYRAVALA   45 (222)
T ss_pred             eEEEEeCCCccChHHHHHHHHHHhCCCe---ecccHHHHHHHHH
Confidence            3466789999999999999999999866   8999999987655

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.63  E-value=0.0014  Score=48.84  Aligned_cols=23  Identities=0%  Similarity=-0.301  Sum_probs=19.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||+|||||.||..+++..
T Consensus        40 ~lll~G~~G~GKT~la~~~~~~~   62 (226)
T TIGR03420        40 FLYLWGESGSGKSHLLQAACAAA   62 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            45579999999999999998654

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.

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=96.63  E-value=0.0015  Score=57.42  Aligned_cols=35  Identities=3%  Similarity=-0.252  Sum_probs=30.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVY   60 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVY   60 (115)
                      ++++|+.|||||.+|.++++..+.++ ||.|.+.-|
T Consensus       372 Vil~G~pGSGKST~A~~l~~~~g~~~-vn~D~lg~~  406 (526)
T TIGR01663       372 VIAVGFPGAGKSHFCKKFFQPAGYKH-VNADTLGST  406 (526)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-ECcHHHHHH
Confidence            45899999999999999999988888 999987443

Note that the EC number for the kinase function is: 2.7.1.78

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.62  E-value=0.0012  Score=55.70  Aligned_cols=29  Identities=14%  Similarity=-0.033  Sum_probs=24.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .++++++   ++||+|||||.||-.||+.++.
T Consensus        76 ~~r~il~---L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       76 ERKQILY---LLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             CCCcEEE---EECCCCCCHHHHHHHHHHHHhh
Confidence            3456644   8999999999999999988854

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

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=96.61  E-value=0.0013  Score=53.01  Aligned_cols=29  Identities=7%  Similarity=-0.106  Sum_probs=24.9

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +-.+++.||.|+|||.||..+|+.++..+
T Consensus        51 ~~~~ll~GppG~GKT~la~~ia~~l~~~~   79 (328)
T PRK00080         51 LDHVLLYGPPGLGKTTLANIIANEMGVNI   79 (328)
T ss_pred             CCcEEEECCCCccHHHHHHHHHHHhCCCe
Confidence            44566899999999999999999987755

>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=96.60  E-value=0.0029  Score=45.05  Aligned_cols=36  Identities=8%  Similarity=-0.204  Sum_probs=25.8

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      -.+.++..   |.||+|||||+|+..+.   .+.+.+..|.+
T Consensus        12 i~~ge~v~---I~GpSGsGKSTLl~~l~---~G~i~~~g~di   47 (107)
T cd00820          12 VYGKVGVL---ITGDSGIGKTELALELI---KRKHRLVGDDN   47 (107)
T ss_pred             EcCCEEEE---EEcCCCCCHHHHHHHhh---CCeEEEeeEeH
Confidence            34555554   89999999999998887   55554555544

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

>PLN02318 phosphoribulokinase/uridine kinase

Probab=96.60  E-value=0.0022  Score=57.97  Aligned_cols=43  Identities=12%  Similarity=-0.052  Sum_probs=33.8

Q ss_pred             eccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCc-eEeecccee
Q psy7554          13 LLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDL-FCRTYQVYL   57 (115)
Q Consensus        13 ~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~-eI~IsaDSm   57 (115)
                      ++.-.++.+++ +-|+||+|||||+|+..|+..+.. .+ |+.|..
T Consensus        57 lL~~~~~~riI-IGIaGpSGSGKTTLAk~LaglLp~vgv-IsmDdy  100 (656)
T PLN02318         57 LLAQKNDGIIL-VGVAGPSGAGKTVFTEKVLNFMPSIAV-ISMDNY  100 (656)
T ss_pred             HHHhcCCCeEE-EEEECCCCCcHHHHHHHHHhhCCCcEE-EEEcce
Confidence            44445566554 779999999999999999998854 45 899985

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

Probab=96.60  E-value=0.0016  Score=49.05  Aligned_cols=22  Identities=9%  Similarity=0.095  Sum_probs=18.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+++.||+|+|||.||..+|.+
T Consensus        49 ~l~l~G~~G~GKThLa~ai~~~   70 (178)
T PF01695_consen   49 NLILYGPPGTGKTHLAVAIANE   70 (178)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEhhHhHHHHHHHHHHHHH
Confidence            4667999999999999999853

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.

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=96.60  E-value=0.0012  Score=54.52  Aligned_cols=33  Identities=9%  Similarity=-0.110  Sum_probs=29.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +||-|++|+|||.+|-+||.+++--+-|+.||.
T Consensus        92 ILIGGasGVGkStIA~ElA~rLgI~~visTD~I  124 (299)
T COG2074          92 ILIGGASGVGKSTIAGELARRLGIRSVISTDSI  124 (299)
T ss_pred             EEecCCCCCChhHHHHHHHHHcCCceeecchHH
Confidence            578999999999999999999997554899985

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=96.58  E-value=0.0018  Score=42.31  Aligned_cols=22  Identities=9%  Similarity=-0.151  Sum_probs=17.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.||||+|||..++.++...
T Consensus         3 ~~i~~~~G~GKT~~~~~~~~~~   24 (144)
T cd00046           3 VLLAAPTGSGKTLAALLPILEL   24 (144)
T ss_pred             EEEECCCCCchhHHHHHHHHHH
Confidence            5689999999998877766543

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.58  E-value=0.0016  Score=53.82  Aligned_cols=25  Identities=4%  Similarity=-0.203  Sum_probs=22.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .++|+||||||||++...|...++.
T Consensus       162 nili~G~tgSGKTTll~aL~~~ip~  186 (332)
T PRK13900        162 NIIISGGTSTGKTTFTNAALREIPA  186 (332)
T ss_pred             cEEEECCCCCCHHHHHHHHHhhCCC
Confidence            6889999999999999999887753

>PRK14732 coaE dephospho-CoA kinase; Provisional

Probab=96.58  E-value=0.0021  Score=49.14  Aligned_cols=31  Identities=10%  Similarity=-0.278  Sum_probs=26.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++-.|++ ++..+ |++|.+
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~-i~~D~i   32 (196)
T PRK14732          2 IGITGMIGGGKSTALKILEE-LGAFG-ISADRL   32 (196)
T ss_pred             EEEECCCCccHHHHHHHHHH-CCCEE-EecchH
Confidence            45799999999999998875 67788 999865

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.58  E-value=0.0017  Score=52.00  Aligned_cols=31  Identities=10%  Similarity=-0.104  Sum_probs=24.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-------CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDS   56 (115)
                      ++++||||||||.++..||..+       ..-+ |.+|.
T Consensus       197 i~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~l-i~~D~  234 (282)
T TIGR03499       197 IALVGPTGVGKTTTLAKLAARFVLEHGNKKVAL-ITTDT  234 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEE-EECCc
Confidence            3489999999999988888543       2345 88897

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.57  E-value=0.0012  Score=55.16  Aligned_cols=22  Identities=0%  Similarity=-0.197  Sum_probs=18.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||||||||++...|++.+
T Consensus       137 ilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       137 VFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            4599999999999988887654

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK00023 cmk cytidylate kinase; Provisional

Probab=96.57  E-value=0.0012  Score=51.22  Aligned_cols=36  Identities=8%  Similarity=-0.109  Sum_probs=29.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      -+.|.||.|||||.++..||++++... +  |+=.+||.
T Consensus         6 ~i~i~g~~gsGksti~~~la~~~~~~~-~--~~~~~~r~   41 (225)
T PRK00023          6 VIAIDGPAGSGKGTVAKILAKKLGFHY-L--DTGAMYRA   41 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCc-c--cCchhHHH
Confidence            366899999999999999999999877 4  44456665

>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.56  E-value=0.0007  Score=52.78  Aligned_cols=33  Identities=6%  Similarity=-0.154  Sum_probs=26.8

Q ss_pred             eeeeccCCCchhHH-HHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAH-QVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~l-ai~LA~~~~~eI~IsaDSm   57 (115)
                      .++.||.|||||++ +..++.-++++++||+|-|
T Consensus         5 ~IvaG~NGsGKstv~~~~~~~~~~~~~~VN~D~i   38 (187)
T COG4185           5 DIVAGPNGSGKSTVYASTLAPLLPGIVFVNADEI   38 (187)
T ss_pred             EEEecCCCCCceeeeeccchhhcCCeEEECHHHH
Confidence            36899999999998 5666666777777999976

>PRK14733 coaE dephospho-CoA kinase; Provisional

Probab=96.56  E-value=0.0025  Score=49.56  Aligned_cols=32  Identities=6%  Similarity=-0.227  Sum_probs=28.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +-|+|..|||||+++..|++.++..+ +++|-+
T Consensus         9 IglTG~iGsGKStv~~~l~~~lg~~v-idaD~i   40 (204)
T PRK14733          9 IGITGGIASGKSTATRILKEKLNLNV-VCADTI   40 (204)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-EeccHH
Confidence            45699999999999999999888888 888865

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=96.56  E-value=0.00095  Score=56.24  Aligned_cols=30  Identities=7%  Similarity=-0.044  Sum_probs=25.7

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .|+..|.+++|.||+|+|||.|+..+|..+
T Consensus       143 ~~~~~~~~l~l~G~~G~GKThL~~ai~~~~  172 (450)
T PRK00149        143 NPGKAYNPLFIYGGVGLGKTHLLHAIGNYI  172 (450)
T ss_pred             CcCccCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            456788899999999999999998888664

>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=96.55  E-value=0.0021  Score=51.61  Aligned_cols=35  Identities=9%  Similarity=-0.041  Sum_probs=25.6

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcCCCceEe-ecc
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCR-TYQ   54 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~~~~eI~-Isa   54 (115)
                      +-.-|+|+.||.|+|||+||.-+|+.++..+. +|+
T Consensus        48 ~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg   83 (233)
T PF05496_consen   48 EALDHMLFYGPPGLGKTTLARIIANELGVNFKITSG   83 (233)
T ss_dssp             S---EEEEESSTTSSHHHHHHHHHHHCT--EEEEEC
T ss_pred             CCcceEEEECCCccchhHHHHHHHhccCCCeEeccc
Confidence            34457888999999999999999999988762 444

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.

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=96.54  E-value=0.0011  Score=46.63  Aligned_cols=35  Identities=9%  Similarity=-0.125  Sum_probs=22.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      +++.+|||||||-+++.++.++..-+.+-+-+.++
T Consensus        28 ~ll~~~tGsGKT~~~~~~~~~l~~~~l~~~p~~~l   62 (184)
T PF04851_consen   28 VLLNAPTGSGKTIIALALILELARKVLIVAPNISL   62 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHCEEEEEESSHHH
T ss_pred             EEEEECCCCCcChhhhhhhhccccceeEecCHHHH
Confidence            44799999999999888665443232244444333

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>PRK06526 transposase; Provisional

Probab=96.54  E-value=0.0018  Score=51.58  Aligned_cols=22  Identities=9%  Similarity=-0.062  Sum_probs=18.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++||+|+|||.||..|+.+
T Consensus       100 nlll~Gp~GtGKThLa~al~~~  121 (254)
T PRK06526        100 NVVFLGPPGTGKTHLAIGLGIR  121 (254)
T ss_pred             eEEEEeCCCCchHHHHHHHHHH
Confidence            3567999999999999988753

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=96.50  E-value=0.0017  Score=55.86  Aligned_cols=26  Identities=15%  Similarity=-0.055  Sum_probs=22.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ||.+||||+|||..|.+||+-.+..-
T Consensus        53 ILMIGpTGVGKTEIARRLAkl~~aPF   78 (444)
T COG1220          53 ILMIGPTGVGKTEIARRLAKLAGAPF   78 (444)
T ss_pred             eEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            45699999999999999998776644

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.49  E-value=0.0017  Score=53.24  Aligned_cols=22  Identities=14%  Similarity=0.021  Sum_probs=18.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||||||||++...|...+
T Consensus       125 ili~G~tGSGKTT~l~al~~~i  146 (343)
T TIGR01420       125 ILVTGPTGSGKSTTLASMIDYI  146 (343)
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            5699999999999988877644

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>PRK14529 adenylate kinase; Provisional

Probab=96.49  E-value=0.0015  Score=51.52  Aligned_cols=29  Identities=14%  Similarity=-0.014  Sum_probs=25.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      ++|.||.|||||++|..||+.++... ||.
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~-is~   31 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAH-IES   31 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCC-ccc
Confidence            67899999999999999999998766 543

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.48  E-value=0.0028  Score=50.26  Aligned_cols=42  Identities=14%  Similarity=-0.024  Sum_probs=33.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceee-eccCCceecCCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLM-VYKGLDVITNKVT   71 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQ-VYkgldIgTAKPs   71 (115)
                      ++.|+||.|+|||.|-..+|.     + ||.||-- .|+|=++-|.+|.
T Consensus        31 ~iaitGPSG~GKStllk~va~-----L-isp~~G~l~f~Ge~vs~~~pe   73 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVAS-----L-ISPTSGTLLFEGEDVSTLKPE   73 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHh-----c-cCCCCceEEEcCccccccChH
Confidence            456899999999999998874     3 5555544 5799999999994

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.48  E-value=0.0018  Score=53.36  Aligned_cols=29  Identities=10%  Similarity=0.004  Sum_probs=24.5

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .+.-++|+.||.|+|||.+|..+|+.+++
T Consensus        36 ~~~h~~L~~Gp~G~GKTtla~~la~~l~c   64 (363)
T PRK14961         36 RIHHAWLLSGTRGVGKTTIARLLAKSLNC   64 (363)
T ss_pred             CCCeEEEEecCCCCCHHHHHHHHHHHhcC
Confidence            34455669999999999999999999875

>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=96.47  E-value=0.0014  Score=47.15  Aligned_cols=23  Identities=9%  Similarity=-0.168  Sum_probs=20.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |+|.||.|||||+++-.||+.++
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~   25 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLE   25 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            56899999999999999998873

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK07429 phosphoribulokinase; Provisional

Probab=96.46  E-value=0.0033  Score=51.94  Aligned_cols=37  Identities=11%  Similarity=-0.107  Sum_probs=29.2

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCCC---ceEeecccee
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGPD---LFCRTYQVYL   57 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~~---~eI~IsaDSm   57 (115)
                      ++.++ +-|+|++|||||+|+..|++.++   +.+ |+.|..
T Consensus         6 ~~~~I-IgI~G~SGSGKSTla~~L~~ll~~~~~~v-i~~Dd~   45 (327)
T PRK07429          6 DRPVL-LGVAGDSGCGKTTFLRGLADLLGEELVTV-ICTDDY   45 (327)
T ss_pred             CCCEE-EEEECCCCCCHHHHHHHHHhHhccCceEE-EEeccc
Confidence            44444 56899999999999999998876   456 788864

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.46  E-value=0.0026  Score=51.01  Aligned_cols=31  Identities=6%  Similarity=-0.319  Sum_probs=25.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI~IsaDS   56 (115)
                      +-|+||+|||||+|+..|+..+   ++.+ |+.|.
T Consensus         2 igI~G~sGsGKSTl~~~L~~ll~~~~~~v-i~~Dd   35 (273)
T cd02026           2 IGVAGDSGCGKSTFLRRLTSLFGSDLVTV-ICLDD   35 (273)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhCCCceEE-EECcc
Confidence            3579999999999999999776   3556 88883

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.45  E-value=0.0026  Score=51.37  Aligned_cols=24  Identities=8%  Similarity=-0.079  Sum_probs=21.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +++|+||||||||+|...|+..+.
T Consensus       146 ~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       146 NIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             EEEEECCCCCCHHHHHHHHHccCC
Confidence            677999999999999998987763

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.44  E-value=0.0015  Score=51.07  Aligned_cols=24  Identities=8%  Similarity=-0.236  Sum_probs=20.8

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -.++++.||+|+|||.+|..+|+.
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~   65 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKL   65 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHH
Confidence            356788999999999999999875

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.

>PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional

Probab=96.44  E-value=0.0023  Score=53.81  Aligned_cols=35  Identities=9%  Similarity=-0.179  Sum_probs=30.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYk   61 (115)
                      +.|+|.-|||||+++-.|++ ++..+ |++|.+  ++|+
T Consensus         4 IgltG~igsGKStv~~~L~~-~G~~v-idaD~i~~~l~~   40 (395)
T PRK03333          4 IGLTGGIGAGKSTVAARLAE-LGAVV-VDADVLAREVVE   40 (395)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCeE-EehHHHHHHHhc
Confidence            56799999999999999997 89999 999965  4554

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.43  E-value=0.002  Score=53.76  Aligned_cols=27  Identities=7%  Similarity=-0.053  Sum_probs=23.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++|+.||+|+|||.+|..+|.+++...
T Consensus       167 gvLL~GppGtGKT~lAkaia~~~~~~~  193 (389)
T PRK03992        167 GVLLYGPPGTGKTLLAKAVAHETNATF  193 (389)
T ss_pred             ceEEECCCCCChHHHHHHHHHHhCCCE
Confidence            467799999999999999999888765

>PRK12377 putative replication protein; Provisional

Probab=96.43  E-value=0.0015  Score=52.02  Aligned_cols=23  Identities=0%  Similarity=-0.057  Sum_probs=20.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++.||+|+|||.||..+|..+
T Consensus       103 ~l~l~G~~GtGKThLa~AIa~~l  125 (248)
T PRK12377        103 NFVFSGKPGTGKNHLAAAIGNRL  125 (248)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            56789999999999999998765

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=96.43  E-value=0.0021  Score=52.57  Aligned_cols=27  Identities=7%  Similarity=-0.053  Sum_probs=23.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++++.||+|+|||.+|..+|..++...
T Consensus       158 gvLL~GppGtGKT~lakaia~~l~~~~  184 (364)
T TIGR01242       158 GVLLYGPPGTGKTLLAKAVAHETNATF  184 (364)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCCE
Confidence            367899999999999999999988665

Many proteins may score above the trusted cutoff because an internal

>PHA02244 ATPase-like protein

Probab=96.43  E-value=0.002  Score=55.04  Aligned_cols=26  Identities=8%  Similarity=-0.110  Sum_probs=23.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++|.||||+|||.||..+|..++...
T Consensus       122 VLL~GppGtGKTtLA~aLA~~lg~pf  147 (383)
T PHA02244        122 VFLKGGAGSGKNHIAEQIAEALDLDF  147 (383)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            55699999999999999999988765

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.42  E-value=0.003  Score=47.82  Aligned_cols=25  Identities=12%  Similarity=0.288  Sum_probs=20.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .|.++++   |+|++|+|||.++.++|.
T Consensus        11 ~~G~l~l---I~G~~G~GKT~~~~~~~~   35 (242)
T cd00984          11 QPGDLII---IAARPSMGKTAFALNIAE   35 (242)
T ss_pred             CCCeEEE---EEeCCCCCHHHHHHHHHH
Confidence            3556766   999999999999888764

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.42  E-value=0.0029  Score=53.60  Aligned_cols=78  Identities=9%  Similarity=0.020  Sum_probs=47.2

Q ss_pred             eeeccCCCchhHHHHHHhcCC---------CceEeeccce--------eeeccC---CceecCCCCH------HHhcCCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP---------DLFCRTYQVY--------LMVYKG---LDVITNKVTP------EEAEGIP   79 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~---------~~eI~IsaDS--------mQVYkg---ldIgTAKPs~------eE~~~Ip   79 (115)
                      +++||||||||+.+..||..+         ..-+ |++|.        ++.|-.   +++.......      ++.....
T Consensus       178 ~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~l-it~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~D  256 (388)
T PRK12723        178 ILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKI-ITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFD  256 (388)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEE-EeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCC
Confidence            479999999999999998543         2345 89998        555655   3444443311      2335667


Q ss_pred             eeeecccCCCCccCHHHHHHHHHHHHh
Q psy7554          80 HHLLDFLDPNTRFTVVDYRNRALKHTG  106 (115)
Q Consensus        80 HHLid~ldp~e~ySv~~F~~~A~~~I~  106 (115)
                      +=+||...-.. .+..+ ..+..+.++
T Consensus       257 lVLIDTaGr~~-~~~~~-l~el~~~l~  281 (388)
T PRK12723        257 LVLVDTIGKSP-KDFMK-LAEMKELLN  281 (388)
T ss_pred             EEEEcCCCCCc-cCHHH-HHHHHHHHH
Confidence            77777775543 23322 344444444

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.42  E-value=0.0021  Score=53.23  Aligned_cols=23  Identities=0%  Similarity=-0.224  Sum_probs=20.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|+|+||||||++...|+..+
T Consensus       146 nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        146 NIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999988754

>PRK09087 hypothetical protein; Validated

Probab=96.42  E-value=0.0028  Score=49.34  Aligned_cols=29  Identities=7%  Similarity=-0.121  Sum_probs=24.3

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      +|.||+|||||.|+..+++..+... |+.+
T Consensus        48 ~l~G~~GsGKThLl~~~~~~~~~~~-i~~~   76 (226)
T PRK09087         48 VLAGPVGSGKTHLASIWREKSDALL-IHPN   76 (226)
T ss_pred             EEECCCCCCHHHHHHHHHHhcCCEE-ecHH
Confidence            4599999999999999998877766 6664

>KOG3347|consensus

Probab=96.41  E-value=0.0023  Score=49.46  Aligned_cols=51  Identities=14%  Similarity=-0.014  Sum_probs=38.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecc----ceeeeccCCceecCCCCHHHh
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ----VYLMVYKGLDVITNKVTPEEA   75 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~Isa----DSmQVYkgldIgTAKPs~eE~   75 (115)
                      -|||+|+.|+|||.|+-+||+.++.+- |+.    ---++|-|.|=.=..|-.+|.
T Consensus         9 NILvtGTPG~GKstl~~~lae~~~~~~-i~isd~vkEn~l~~gyDE~y~c~i~DEd   63 (176)
T KOG3347|consen    9 NILVTGTPGTGKSTLAERLAEKTGLEY-IEISDLVKENNLYEGYDEEYKCHILDED   63 (176)
T ss_pred             CEEEeCCCCCCchhHHHHHHHHhCCce-EehhhHHhhhcchhcccccccCccccHH
Confidence            378999999999999999999999876 443    234677777766666655553

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

Probab=96.40  E-value=0.0027  Score=48.61  Aligned_cols=22  Identities=14%  Similarity=-0.102  Sum_probs=20.1

Q ss_pred             eeeccCCCchhHHHHHHhcCCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~   47 (115)
                      +|.||.|||||.|+..++..++
T Consensus        47 ~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        47 LITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             EEEcCCCCCHHHHHHHHHHhcC
Confidence            4899999999999999998876

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.40  E-value=0.0022  Score=46.19  Aligned_cols=25  Identities=8%  Similarity=-0.189  Sum_probs=19.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |.|+|+-++|||+|+-+||+. |..+
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-g~~~   26 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-GYPV   26 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-T-EE
T ss_pred             EEEECCCCCCHHHHHHHHHHc-CCeE
Confidence            578999999999999999988 6666

>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=96.40  E-value=0.0028  Score=42.42  Aligned_cols=23  Identities=13%  Similarity=-0.068  Sum_probs=19.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+|+.|||||+|...|+....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            57899999999999999996553

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.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=96.39  E-value=0.0022  Score=49.32  Aligned_cols=26  Identities=8%  Similarity=-0.197  Sum_probs=23.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++++|+-|+|||+++..||+.+|...
T Consensus         5 IvLiG~mGaGKSTIGr~LAk~L~~~F   30 (172)
T COG0703           5 IVLIGFMGAGKSTIGRALAKALNLPF   30 (172)
T ss_pred             EEEEcCCCCCHhHHHHHHHHHcCCCc
Confidence            45599999999999999999999877

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.39  E-value=0.0021  Score=50.63  Aligned_cols=23  Identities=17%  Similarity=-0.058  Sum_probs=20.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +++.||+|+|||.+|..+|+.+.
T Consensus        39 lll~Gp~GtGKT~la~~~~~~l~   61 (337)
T PRK12402         39 LLVQGPPGSGKTAAVRALARELY   61 (337)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            45799999999999999998774

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.39  E-value=0.0015  Score=53.99  Aligned_cols=29  Identities=7%  Similarity=-0.015  Sum_probs=24.4

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      |+..|..++|.||+|+|||.|+..+|..+
T Consensus       132 ~~~~~n~l~l~G~~G~GKThL~~ai~~~l  160 (405)
T TIGR00362       132 PGKAYNPLFIYGGVGLGKTHLLHAIGNEI  160 (405)
T ss_pred             cCccCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            55678888899999999999998888654

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).

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.38  E-value=0.0033  Score=54.53  Aligned_cols=32  Identities=6%  Similarity=-0.228  Sum_probs=25.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSm   57 (115)
                      ++++||||||||.++..||..+     ..-+ |.+|..
T Consensus       244 I~LVGptGvGKTTTiaKLA~~L~~~GkkVgl-I~aDt~  280 (436)
T PRK11889        244 IALIGPTGVGKTTTLAKMAWQFHGKKKTVGF-ITTDHS  280 (436)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCcEEE-EecCCc
Confidence            4589999999999999998543     3446 889865

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=96.37  E-value=0.0017  Score=58.00  Aligned_cols=39  Identities=10%  Similarity=-0.125  Sum_probs=32.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDV   65 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldI   65 (115)
                      .+.|.||.|||||.+|..||++++-..   .|+=-+||.+..
T Consensus         3 ~i~I~G~~GsGKST~ak~la~~l~~~~---~~~g~~~r~~~~   41 (712)
T PRK09518          3 IVAIDGPAGVGKSSVSRALAQYLGYAY---LDTGAMYRACAW   41 (712)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcE---eecCcEeHHHHH
Confidence            367899999999999999999999877   455558988663

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.37  E-value=0.0017  Score=54.64  Aligned_cols=22  Identities=9%  Similarity=-0.031  Sum_probs=19.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||||||||++...|.+.+
T Consensus       152 ilI~G~TGSGKTT~l~al~~~i  173 (372)
T TIGR02525       152 GLICGETGSGKSTLAASIYQHC  173 (372)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999988887654

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>cd04163 Era Era subfamily

Probab=96.37  E-value=0.0034  Score=42.65  Aligned_cols=23  Identities=9%  Similarity=-0.204  Sum_probs=19.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -+.++|++|||||+|...++...
T Consensus         5 ~i~~~G~~g~GKttl~~~l~~~~   27 (168)
T cd04163           5 FVAIVGRPNVGKSTLLNALVGQK   27 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            36789999999999999998654

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.36  E-value=0.0037  Score=53.79  Aligned_cols=32  Identities=3%  Similarity=-0.259  Sum_probs=25.7

Q ss_pred             eeeeccCCCchhHHHHHHhcC-----CCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSm   57 (115)
                      ++++||+|||||+++.+||..     ....+ |++|..
T Consensus       103 i~lvG~~GvGKTTtaaKLA~~l~~~G~kV~l-V~~D~~  139 (429)
T TIGR01425       103 IMFVGLQGSGKTTTCTKLAYYYQRKGFKPCL-VCADTF  139 (429)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEE-EcCccc
Confidence            458999999999999999843     34567 999974

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.

>PF01121 CoaE: Dephospho-CoA kinase; InterPro: IPR001977 This family contains dephospho-CoA kinases (2

Probab=96.36  E-value=0.0031  Score=47.91  Aligned_cols=61  Identities=8%  Similarity=-0.142  Sum_probs=40.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eeccCCceecCCCCHHHh-cCCCeeeecccCCCCccCHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYKGLDVITNKVTPEEA-EGIPHHLLDFLDPNTRFTVV   95 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYkgldIgTAKPs~eE~-~~IpHHLid~ldp~e~ySv~   95 (115)
                      +-|+|.-|||||+++-.|++ ++..+ |+||.+  ++|+.        ..+-. +-+.++.-++++++...+-.
T Consensus         3 IglTG~igsGKStv~~~l~~-~G~~v-idaD~i~~~l~~~--------~~~~~~~l~~~FG~~il~~~g~idR~   66 (180)
T PF01121_consen    3 IGLTGGIGSGKSTVSKILAE-LGFPV-IDADEIAHELYEP--------GSEGYKALKERFGEEILDEDGEIDRK   66 (180)
T ss_dssp             EEEEESTTSSHHHHHHHHHH-TT-EE-EEHHHHHHHCTSC--------TCHHHHHHHHHHGGGGBETTSSB-HH
T ss_pred             EEEECCCcCCHHHHHHHHHH-CCCCE-ECccHHHHHHhhc--------CHHHHHHHHHHcCccccCCCCCChHH
Confidence            45899999999999999999 99999 999964  55542        11222 22234555666766554433

7.1.24 from EC), which catalyzes the final step in CoA biosynthesis, the phosphorylation of the 3'-hydroxyl group of ribose using ATP as a phosphate donor. The crystal structures of a number of the proteins in this entry have been determined, including the structure of the protein from Haemophilus influenzae to 2.0-A resolution in a comlex with ATP. The protein consists of three domains: the nucleotide-binding domain with a five-stranded parallel beta-sheet, the substrate-binding alpha-helical domain, and the lid domain formed by a pair of alpha-helices; the overall topology of the protein resembles the structures of other nucleotide kinases [].; GO: 0004140 dephospho-CoA kinase activity, 0005524 ATP binding, 0015937 coenzyme A biosynthetic process; PDB: 1VHL_A 1N3B_A 1VIY_A 1VHT_B 1T3H_B 1UF9_C 2F6R_A 2GRJ_D 2IF2_C 1JJV_A.

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

Probab=96.35  E-value=0.0016  Score=44.71  Aligned_cols=57  Identities=11%  Similarity=-0.009  Sum_probs=34.1

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCe---eeecccCCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPH---HLLDFLDPN   89 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpH---HLid~ldp~   89 (115)
                      .|.||+|+|||.|+-.||+.+.-.+ -...      .-++-+-.|..+-..+..+   +++|-+...
T Consensus         2 ~i~G~~G~GKS~l~~~l~~~l~~~~-~~~~------~~~vy~~~~~~~~w~gY~~q~vvi~DD~~~~   61 (107)
T PF00910_consen    2 WIYGPPGIGKSTLAKELAKDLLKHI-GEPT------KDSVYTRNPGDKFWDGYQGQPVVIIDDFGQD   61 (107)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHh-ccCC------CCcEEeCCCccchhhccCCCcEEEEeecCcc
Confidence            4699999999999999998775443 1111      1233344455554444444   444544444

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

>PRK06893 DNA replication initiation factor; Validated

Probab=96.35  E-value=0.0029  Score=48.83  Aligned_cols=21  Identities=5%  Similarity=-0.108  Sum_probs=18.3

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +++.||+|+|||.|+..+|..
T Consensus        42 l~l~G~~G~GKThL~~ai~~~   62 (229)
T PRK06893         42 FYIWGGKSSGKSHLLKAVSNH   62 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999854

>PRK06921 hypothetical protein; Provisional

Probab=96.35  E-value=0.0021  Score=51.30  Aligned_cols=25  Identities=4%  Similarity=-0.307  Sum_probs=21.1

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ..++++.||+|+|||.|+..+|..+
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l  141 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANEL  141 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Confidence            4566779999999999999998764

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.35  E-value=0.0026  Score=52.32  Aligned_cols=22  Identities=5%  Similarity=-0.135  Sum_probs=19.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++|+||||||||++...|+..
T Consensus       150 ~ilI~G~tGSGKTTll~aL~~~  171 (319)
T PRK13894        150 NILVIGGTGSGKTTLVNAIINE  171 (319)
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            5779999999999999999865

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.34  E-value=0.0036  Score=46.58  Aligned_cols=23  Identities=9%  Similarity=-0.127  Sum_probs=19.8

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .++++   |+||+|||||.|++++|.
T Consensus        12 g~i~~---i~G~~GsGKT~l~~~~~~   34 (209)
T TIGR02237        12 GTITQ---IYGPPGSGKTNICMILAV   34 (209)
T ss_pred             CeEEE---EECCCCCCHHHHHHHHHH
Confidence            55665   999999999999999884

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK08727 hypothetical protein; Validated

Probab=96.34  E-value=0.0026  Score=49.30  Aligned_cols=25  Identities=8%  Similarity=-0.124  Sum_probs=19.4

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+..++|.||+|+|||.|+..++.+
T Consensus        40 ~~~~l~l~G~~G~GKThL~~a~~~~   64 (233)
T PRK08727         40 SSDWLYLSGPAGTGKTHLALALCAA   64 (233)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3445667999999999998887543

>PRK00698 tmk thymidylate kinase; Validated

Probab=96.34  E-value=0.0018  Score=47.45  Aligned_cols=23  Identities=9%  Similarity=-0.208  Sum_probs=20.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |+|.||.|||||+++-.|++.++
T Consensus         6 I~ieG~~gsGKsT~~~~L~~~l~   28 (205)
T PRK00698          6 ITIEGIDGAGKSTQIELLKELLE   28 (205)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            56899999999999999998763

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.34  E-value=0.0027  Score=53.02  Aligned_cols=27  Identities=11%  Similarity=-0.029  Sum_probs=23.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++++.||.|+|||.||..+|+..+...
T Consensus        38 ~ilL~GppGtGKTtLA~~ia~~~~~~~   64 (413)
T PRK13342         38 SMILWGPPGTGKTTLARIIAGATDAPF   64 (413)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            678899999999999999999877554

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.33  E-value=0.022  Score=43.84  Aligned_cols=28  Identities=7%  Similarity=-0.123  Sum_probs=23.6

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      =.|.+++.   |+||.|||||+|..-||.-.
T Consensus        27 i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~   54 (252)
T PRK14256         27 FPENSVTA---IIGPSGCGKSTVLRSINRMH   54 (252)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHHhcc
Confidence            35777776   99999999999999998754

>PLN02348 phosphoribulokinase

Probab=96.32  E-value=0.0029  Score=54.14  Aligned_cols=31  Identities=10%  Similarity=-0.141  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +++..++ |-|+|+.|||||+||..|++.+++
T Consensus        45 ~~~~p~I-IGIaG~SGSGKSTfA~~L~~~Lg~   75 (395)
T PLN02348         45 ADDGTVV-IGLAADSGCGKSTFMRRLTSVFGG   75 (395)
T ss_pred             cCCCCEE-EEEECCCCCCHHHHHHHHHHHHhh
Confidence            3444554 679999999999999999998863

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.31  E-value=0.015  Score=43.25  Aligned_cols=33  Identities=3%  Similarity=-0.146  Sum_probs=26.0

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.|.+++.   |+||.|||||+|..-||.-+   .|+|
T Consensus        23 ~i~~G~~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   58 (214)
T cd03292          23 SISAGEFVF---LVGPSGAGKSTLLKLIYKEELPTSGTI   58 (214)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            345777776   89999999999999998654   3655

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.30  E-value=0.0025  Score=55.44  Aligned_cols=37  Identities=5%  Similarity=-0.162  Sum_probs=30.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeecc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYK   61 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYk   61 (115)
                      ++|+.||.|+|||.+|..+|...+..+ +..|.-+++.
T Consensus       261 GILL~GPpGTGKTllAkaiA~e~~~~~-~~l~~~~l~~  297 (489)
T CHL00195        261 GLLLVGIQGTGKSLTAKAIANDWQLPL-LRLDVGKLFG  297 (489)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhCCCE-EEEEhHHhcc
Confidence            467899999999999999999999887 7766544443

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.28  E-value=0.0017  Score=47.57  Aligned_cols=24  Identities=8%  Similarity=-0.233  Sum_probs=21.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |+|.|+.|||||+++-.||+.++.
T Consensus         6 IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         6 IVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            678999999999999999998864

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.

>PTZ00451 dephospho-CoA kinase; Provisional

Probab=96.26  E-value=0.0036  Score=49.90  Aligned_cols=36  Identities=3%  Similarity=-0.268  Sum_probs=30.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYk   61 (115)
                      +-|+|.-|||||+++--|++.++..+ |+||-.  ++|+
T Consensus         4 IGlTGgIgSGKStVs~~L~~~~G~~v-iDaD~iar~l~~   41 (244)
T PTZ00451          4 IGLTGGIACGKSTVSRILREEHHIEV-IDADLVVRELQA   41 (244)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-EehHHHHHHHHc
Confidence            56799999999999999999889999 999953  5553

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.25  E-value=0.0032  Score=53.77  Aligned_cols=31  Identities=6%  Similarity=-0.124  Sum_probs=26.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|+.||.|+|||.|+..+|...+..+ +..+
T Consensus        90 giLL~GppGtGKT~la~alA~~~~~~~-~~i~  120 (495)
T TIGR01241        90 GVLLVGPPGTGKTLLAKAVAGEAGVPF-FSIS  120 (495)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHcCCCe-eecc
Confidence            567899999999999999999988776 5544

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.25  E-value=0.0025  Score=55.07  Aligned_cols=31  Identities=6%  Similarity=-0.138  Sum_probs=24.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC------CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP------DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~------~~eI~IsaDS   56 (115)
                      ++++||||||||.++..||..+      ..-+ +.+|.
T Consensus       226 i~lvGptGvGKTTtaaKLA~~~~~~~G~~V~L-it~Dt  262 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSL-YTTDN  262 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEE-ecccc
Confidence            4589999999999999999643      2345 88888

>PF13173 AAA_14: AAA domain

Probab=96.25  E-value=0.0038  Score=43.65  Aligned_cols=37  Identities=8%  Similarity=-0.240  Sum_probs=28.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC--ce-Eeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD--LF-CRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~--~e-I~IsaDSmQVYk   61 (115)
                      ++|.||.+||||.|+.++++.+.  .. +.+|.|.....+
T Consensus         5 ~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~   44 (128)
T PF13173_consen    5 IILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRR   44 (128)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHH
Confidence            34899999999999999998764  22 228888777754

>COG2087 CobU Adenosyl cobinamide kinase/adenosyl cobinamide phosphate guanylyltransferase [Coenzyme metabolism]

Probab=96.24  E-value=0.0024  Score=49.50  Aligned_cols=47  Identities=21%  Similarity=0.109  Sum_probs=38.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHh-cCCCeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEA-EGIPHHL   82 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~-~~IpHHL   82 (115)
                      .+||+|+-=||||+.|=+||.+.++.+            +=|.|++|..+|| ++|.||=
T Consensus         2 ~ilvtGgaRSGKS~~AE~la~~~~~~v------------~YvAT~~a~D~Em~~RI~~Hr   49 (175)
T COG2087           2 MILVTGGARSGKSSFAEALAGESGGQV------------LYVATGRAFDDEMQERIAHHR   49 (175)
T ss_pred             eEEEecCccCCchHHHHHHHHhhCCce------------EEEEecCCCCHHHHHHHHHHH
Confidence            478999999999999999999987776            4589999996665 4577764

>PRK13951 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=96.23  E-value=0.004  Score=53.90  Aligned_cols=33  Identities=6%  Similarity=-0.258  Sum_probs=29.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      .++|+|+.|||||+++..||+.++... +.+|..
T Consensus         2 ~I~l~G~~GsGKSTv~~~La~~lg~~~-id~D~~   34 (488)
T PRK13951          2 RIFLVGMMGSGKSTIGKRVSEVLDLQF-IDMDEE   34 (488)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCeE-EECcHH
Confidence            367899999999999999999999999 988864

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=96.23  E-value=0.0035  Score=50.70  Aligned_cols=30  Identities=3%  Similarity=-0.329  Sum_probs=27.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      |+++|+.|||||.++..||+.++... +..|
T Consensus       136 I~l~G~~GsGKStvg~~La~~Lg~~~-id~D  165 (309)
T PRK08154        136 IALIGLRGAGKSTLGRMLAARLGVPF-VELN  165 (309)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCE-EeHH
Confidence            55799999999999999999999988 7666

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.23  E-value=0.0033  Score=50.04  Aligned_cols=22  Identities=9%  Similarity=-0.081  Sum_probs=18.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||||||||++...+...+
T Consensus        83 ilisG~tGSGKTT~l~all~~i  104 (264)
T cd01129          83 ILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             EEEECCCCCcHHHHHHHHHhhh
Confidence            5599999999999988786655

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.21  E-value=0.0048  Score=49.49  Aligned_cols=30  Identities=10%  Similarity=-0.043  Sum_probs=23.2

Q ss_pred             eeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      +++||+|+|||+++.+||..+     ..-+ |.+|.
T Consensus        76 ~l~G~~G~GKTTt~akLA~~l~~~g~~V~l-i~~D~  110 (272)
T TIGR00064        76 LFVGVNGVGKTTTIAKLANKLKKQGKSVLL-AAGDT  110 (272)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHhcCCEEEE-EeCCC
Confidence            367999999999998888543     2345 88885

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=96.21  E-value=0.0039  Score=53.16  Aligned_cols=29  Identities=14%  Similarity=-0.024  Sum_probs=24.8

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .-.+||.||.|+|||.+|..||+.++..+
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~el~~~~   67 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALANDYGWEV   67 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCE
Confidence            34566899999999999999999998655

>PLN03025 replication factor C subunit; Provisional

Probab=96.21  E-value=0.0026  Score=51.21  Aligned_cols=24  Identities=8%  Similarity=-0.076  Sum_probs=21.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +++.||.|+|||.+|..+|+.+.+
T Consensus        37 lll~Gp~G~GKTtla~~la~~l~~   60 (319)
T PLN03025         37 LILSGPPGTGKTTSILALAHELLG   60 (319)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhc
Confidence            567999999999999999988744

>PRK13764 ATPase; Provisional

Probab=96.20  E-value=0.0025  Score=56.91  Aligned_cols=24  Identities=8%  Similarity=-0.101  Sum_probs=20.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      .+||+||||||||+++..|+..++
T Consensus       259 ~ILIsG~TGSGKTTll~AL~~~i~  282 (602)
T PRK13764        259 GILIAGAPGAGKSTFAQALAEFYA  282 (602)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            367999999999999999887664

>PRK05642 DNA replication initiation factor; Validated

Probab=96.19  E-value=0.0033  Score=48.87  Aligned_cols=78  Identities=14%  Similarity=-0.103  Sum_probs=41.1

Q ss_pred             EeeeeeeccCCCchhHHHHHHhc-----CCCceEeeccceeeeccCCceecCCCC-HHHhcCCCeeeecccCCCCccCHH
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTD-----GPDLFCRTYQVYLMVYKGLDVITNKVT-PEEAEGIPHHLLDFLDPNTRFTVV   95 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~-----~~~~eI~IsaDSmQVYkgldIgTAKPs-~eE~~~IpHHLid~ldp~e~ySv~   95 (115)
                      +..++|.||+|+|||.|+..++.     +..... ++++.+.-+  .      +. .+..+.++.-++|-++....-  .
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y-~~~~~~~~~--~------~~~~~~~~~~d~LiiDDi~~~~~~--~  113 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVY-LPLAELLDR--G------PELLDNLEQYELVCLDDLDVIAGK--A  113 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEE-eeHHHHHhh--h------HHHHHhhhhCCEEEEechhhhcCC--h
Confidence            34556799999999999888763     223333 666543211  0      11 122334555566666533211  2


Q ss_pred             HHHHHHHHHHhhhhh
Q psy7554          96 DYRNRALKHTGLKVD  110 (115)
Q Consensus        96 ~F~~~A~~~I~~i~~  110 (115)
                      +|.++...+++...+
T Consensus       114 ~~~~~Lf~l~n~~~~  128 (234)
T PRK05642        114 DWEEALFHLFNRLRD  128 (234)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            444445555554433

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.18  E-value=0.0037  Score=46.87  Aligned_cols=22  Identities=5%  Similarity=-0.209  Sum_probs=19.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+|+.|||||+|+..|++.+
T Consensus        27 i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         27 LWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            3469999999999999999876

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.18  E-value=0.0037  Score=48.48  Aligned_cols=23  Identities=0%  Similarity=-0.291  Sum_probs=19.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|+||+|+|||.|+..+|...
T Consensus        47 ~l~l~Gp~G~GKThLl~a~~~~~   69 (235)
T PRK08084         47 YIYLWSREGAGRSHLLHAACAEL   69 (235)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            56789999999999998888653

>PF12846 AAA_10: AAA-like domain

Probab=96.17  E-value=0.0043  Score=47.06  Aligned_cols=37  Identities=8%  Similarity=-0.226  Sum_probs=24.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC---CCceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG---PDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~---~~~eI~IsaDSmQVYkg   62 (115)
                      ++|+|+||||||.++..+.+.   .+..+ +..|--.=|..
T Consensus         4 ~~i~G~tGsGKT~~~~~l~~~~~~~g~~~-~i~D~~g~~~~   43 (304)
T PF12846_consen    4 TLILGKTGSGKTTLLKNLLEQLIRRGPRV-VIFDPKGDYSP   43 (304)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCCE-EEEcCCchHHH
Confidence            578999999999998877753   34444 44465444433

>PRK06761 hypothetical protein; Provisional

Probab=96.16  E-value=0.0039  Score=50.88  Aligned_cols=31  Identities=6%  Similarity=-0.292  Sum_probs=25.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||+++..|++.++..- ++++.
T Consensus         6 IvI~G~~GsGKTTla~~L~~~L~~~g-~~v~~   36 (282)
T PRK06761          6 IIIEGLPGFGKSTTAKMLNDILSQNG-IEVEL   36 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCcCc-eEEEE
Confidence            56899999999999999999987644 44444

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.16  E-value=0.0031  Score=46.38  Aligned_cols=32  Identities=3%  Similarity=-0.287  Sum_probs=23.9

Q ss_pred             eeeccCCCchhHHHHHHhcCCC--c--eEeecccee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPD--L--FCRTYQVYL   57 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~--~--eI~IsaDSm   57 (115)
                      +|+|+.|||||+++..|++.+.  +  .+.++.|.+
T Consensus        22 ~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~   57 (184)
T TIGR00455        22 WLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNV   57 (184)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChHH
Confidence            4899999999999999998762  1  222666654

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.16  E-value=0.0048  Score=53.05  Aligned_cols=31  Identities=3%  Similarity=-0.140  Sum_probs=24.2

Q ss_pred             eeeeccCCCchhHHHHHHhcC------CCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG------PDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~------~~~eI~IsaDS   56 (115)
                      ++++||+|||||+++.+||..      ...-+ |++|.
T Consensus       103 I~~vG~~GsGKTTtaakLA~~l~~~~G~kV~l-V~~D~  139 (433)
T PRK10867        103 IMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLL-VAADV  139 (433)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHhcCCcEEE-EEccc
Confidence            458999999999988888853      23456 99995

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.16  E-value=0.0024  Score=52.81  Aligned_cols=23  Identities=4%  Similarity=-0.211  Sum_probs=19.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++.||||+|||.||..+|..+
T Consensus       185 ~Lll~G~~GtGKThLa~aIa~~l  207 (329)
T PRK06835        185 NLLFYGNTGTGKTFLSNCIAKEL  207 (329)
T ss_pred             cEEEECCCCCcHHHHHHHHHHHH
Confidence            45669999999999999998764

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.16  E-value=0.003  Score=51.90  Aligned_cols=36  Identities=3%  Similarity=-0.205  Sum_probs=28.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-----ceEeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSmQVYk   61 (115)
                      +.|+|++|||||.++..|++.+.     ..+ |+.|+.=-|.
T Consensus         2 IgItG~SGSGKTTv~~~l~~~l~~~g~~v~v-I~~D~yyr~~   42 (277)
T cd02029           2 IAVTGSSGAGTTTVKRAFEHIFAREGIHPAV-VEGDSFHRYE   42 (277)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCceEE-EeccccccCC
Confidence            45899999999999999997553     456 9999975543

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

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

Probab=96.15  E-value=0.0036  Score=44.61  Aligned_cols=24  Identities=13%  Similarity=-0.114  Sum_probs=16.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -+++|.|+.|+|||.|..++.+.+
T Consensus        25 ~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen   25 RNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            345689999999999988877655

>PF05729 NACHT: NACHT domain

Probab=96.15  E-value=0.0027  Score=44.09  Aligned_cols=22  Identities=5%  Similarity=-0.203  Sum_probs=18.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.|+.|+|||.++..++..+
T Consensus         3 l~I~G~~G~GKStll~~~~~~~   24 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQL   24 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHH
Confidence            4689999999999998888654

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.14  E-value=0.0031  Score=52.60  Aligned_cols=27  Identities=7%  Similarity=-0.060  Sum_probs=23.4

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      -++|+.||.|+|||++|..+|+.++++
T Consensus        39 ha~lf~Gp~G~GKtt~A~~~a~~l~c~   65 (397)
T PRK14955         39 HGYIFSGLRGVGKTTAARVFAKAVNCQ   65 (397)
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            346699999999999999999988764

>PRK08181 transposase; Validated

Probab=96.13  E-value=0.004  Score=50.18  Aligned_cols=20  Identities=10%  Similarity=-0.122  Sum_probs=17.8

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++++||+|+|||.||..+|.
T Consensus       109 lll~Gp~GtGKTHLa~Aia~  128 (269)
T PRK08181        109 LLLFGPPGGGKSHLAAAIGL  128 (269)
T ss_pred             EEEEecCCCcHHHHHHHHHH
Confidence            56799999999999999885

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.13  E-value=0.0077  Score=49.48  Aligned_cols=36  Identities=11%  Similarity=-0.070  Sum_probs=26.6

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC---C--ceEeecccee
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP---D--LFCRTYQVYL   57 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~---~--~eI~IsaDSm   57 (115)
                      +.+|+.   ++||+|||||+++..||..+   +  ..+ +.+|..
T Consensus       113 ~~~vi~---lvGpnGsGKTTt~~kLA~~l~~~g~~V~L-i~~D~~  153 (318)
T PRK10416        113 KPFVIL---VVGVNGVGKTTTIGKLAHKYKAQGKKVLL-AAGDTF  153 (318)
T ss_pred             CCeEEE---EECCCCCcHHHHHHHHHHHHHhcCCeEEE-EecCcc
Confidence            345555   89999999999999988543   3  334 888874

>PRK09183 transposase/IS protein; Provisional

Probab=96.13  E-value=0.0041  Score=49.29  Aligned_cols=20  Identities=15%  Similarity=0.037  Sum_probs=17.4

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++|.||+|+|||.|+..|+.
T Consensus       105 v~l~Gp~GtGKThLa~al~~  124 (259)
T PRK09183        105 IVLLGPSGVGKTHLAIALGY  124 (259)
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            45799999999999998864

>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=96.12  E-value=0.006  Score=42.11  Aligned_cols=27  Identities=11%  Similarity=0.037  Sum_probs=22.6

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +.+++.   |+||.|||||+|...|+....
T Consensus        10 ~g~~~~---i~G~nGsGKStLl~~l~g~~~   36 (137)
T PF00005_consen   10 PGEIVA---IVGPNGSGKSTLLKALAGLLP   36 (137)
T ss_dssp             TTSEEE---EEESTTSSHHHHHHHHTTSSH
T ss_pred             CCCEEE---EEccCCCccccceeeeccccc
Confidence            556666   999999999999999987763

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 ....

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=96.11  E-value=0.0038  Score=45.90  Aligned_cols=26  Identities=4%  Similarity=-0.189  Sum_probs=22.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |.|.|+.|||||+++-.|++.++..+
T Consensus         2 I~ieG~~GsGKSTl~~~L~~~~~~~~   27 (193)
T cd01673           2 IVVEGNIGAGKSTLAKELAEHLGYEV   27 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcc
Confidence            57899999999999999998876544

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.

>KOG0741|consensus

Probab=96.10  E-value=0.0046  Score=55.81  Aligned_cols=37  Identities=14%  Similarity=-0.008  Sum_probs=30.8

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCCc---eEeeccceeee
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPDL---FCRTYQVYLMV   59 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~~---eI~IsaDSmQV   59 (115)
                      ..|+|+.||.|||||+||.++|+.-+-   -| ||++.|-=
T Consensus       538 lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKi-iSpe~miG  577 (744)
T KOG0741|consen  538 LVSVLLEGPPGSGKTALAAKIALSSDFPFVKI-ISPEDMIG  577 (744)
T ss_pred             ceEEEEecCCCCChHHHHHHHHhhcCCCeEEE-eChHHccC
Confidence            468899999999999999999988664   35 88887743

>KOG1942|consensus

Probab=96.08  E-value=0.0037  Score=53.33  Aligned_cols=25  Identities=12%  Similarity=0.057  Sum_probs=22.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .+|++||.|+|||+||+.++++++.
T Consensus        66 avLlaGppgtGKTAlAlaisqELG~   90 (456)
T KOG1942|consen   66 AVLLAGPPGTGKTALALAISQELGP   90 (456)
T ss_pred             EEEEecCCCCchhHHHHHHHHHhCC
Confidence            3567999999999999999999864

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.08  E-value=0.0043  Score=48.96  Aligned_cols=36  Identities=6%  Similarity=-0.187  Sum_probs=26.4

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcCCCceE-eeccce
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDGPDLFC-RTYQVY   56 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~~~~eI-~IsaDS   56 (115)
                      ....+++.||.|+|||.++..+|+.++..+ .+|+..
T Consensus        42 ~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~   78 (316)
T PHA02544         42 IPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD   78 (316)
T ss_pred             CCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc
Confidence            334455799999999999999999876543 255543

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.06  E-value=0.031  Score=41.56  Aligned_cols=33  Identities=9%  Similarity=-0.188  Sum_probs=26.5

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.|.+++.   |+||.|||||+|..-||--.   .|+|
T Consensus        22 ~i~~G~~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (213)
T cd03262          22 TVKKGEVVV---IIGPSGSGKSTLLRCINLLEEPDSGTI   57 (213)
T ss_pred             EECCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            345778877   89999999999999998543   4666

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.05  E-value=0.0046  Score=52.33  Aligned_cols=25  Identities=8%  Similarity=-0.234  Sum_probs=22.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      |+|+|++|||||+|+-.||+.+|..
T Consensus       222 IvI~G~~gsGKTTL~~~La~~~g~~  246 (399)
T PRK08099        222 VAILGGESSGKSTLVNKLANIFNTT  246 (399)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            6789999999999999999998764

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=96.05  E-value=0.0039  Score=48.14  Aligned_cols=92  Identities=7%  Similarity=0.037  Sum_probs=54.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC-----CCceEeeccceeeeccCCce-ecCCCC---HHHhcCCCeeeecccC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLMVYKGLDV-ITNKVT---PEEAEGIPHHLLDFLD   87 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQVYkgldI-gTAKPs---~eE~~~IpHHLid~ld   87 (115)
                      .|++.|..++|.||+|+|||.|...++.+     .+..+ +..++-++.+.+.= .-+...   .++.+.++--++|-++
T Consensus        29 ~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v-~y~~~~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~  107 (219)
T PF00308_consen   29 NPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRV-VYLSAEEFIREFADALRDGEIEEFKDRLRSADLLIIDDIQ  107 (219)
T ss_dssp             STTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-E-EEEEHHHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGG
T ss_pred             cCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccc-eeecHHHHHHHHHHHHHcccchhhhhhhhcCCEEEEecch
Confidence            36777777888999999999998777643     34456 56665555544311 111111   1344666667777665


Q ss_pred             CCCccCHHHHHHHHHHHHhhhhhc
Q psy7554          88 PNTRFTVVDYRNRALKHTGLKVDL  111 (115)
Q Consensus        88 p~e~ySv~~F~~~A~~~I~~i~~~  111 (115)
                      .-.  .-..|++.....++...++
T Consensus       108 ~l~--~~~~~q~~lf~l~n~~~~~  129 (219)
T PF00308_consen  108 FLA--GKQRTQEELFHLFNRLIES  129 (219)
T ss_dssp             GGT--THHHHHHHHHHHHHHHHHT
T ss_pred             hhc--CchHHHHHHHHHHHHHHhh
Confidence            432  2345666666666665544

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.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=96.04  E-value=0.035  Score=42.57  Aligned_cols=27  Identities=15%  Similarity=-0.020  Sum_probs=22.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.
T Consensus        25 ~~Ge~~~---i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        25 PKNQVTA---LIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhccC
Confidence            5777777   89999999999999998543

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=96.03  E-value=0.029  Score=42.74  Aligned_cols=33  Identities=6%  Similarity=-0.199  Sum_probs=26.2

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.|.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        23 ~i~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~i   58 (240)
T PRK09493         23 NIDQGEVVV---IIGPSGSGKSTLLRCINKLEEITSGDL   58 (240)
T ss_pred             EEcCCcEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            335778877   89999999999999998553   4666

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.03  E-value=0.0044  Score=56.35  Aligned_cols=24  Identities=21%  Similarity=0.025  Sum_probs=21.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|++||||+|||.||..||+.+-
T Consensus       541 ~~lf~Gp~GvGKt~lA~~LA~~l~  564 (821)
T CHL00095        541 SFLFSGPTGVGKTELTKALASYFF  564 (821)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhc
Confidence            455899999999999999999873

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.03  E-value=0.0085  Score=51.59  Aligned_cols=39  Identities=8%  Similarity=-0.162  Sum_probs=29.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC-----CceEeeccceeee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYLMV   59 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSmQV   59 (115)
                      .+..++.   ++||||||||+++..||..+     ..-+ |++|..+.
T Consensus       204 ~~~~ii~---lvGptGvGKTTt~akLA~~l~~~g~~V~l-ItaDtyR~  247 (407)
T PRK12726        204 SNHRIIS---LIGQTGVGKTTTLVKLGWQLLKQNRTVGF-ITTDTFRS  247 (407)
T ss_pred             cCCeEEE---EECCCCCCHHHHHHHHHHHHHHcCCeEEE-EeCCccCc
Confidence            3455544   89999999999999998533     3446 99997654

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.02  E-value=0.0063  Score=39.63  Aligned_cols=16  Identities=13%  Similarity=-0.080  Sum_probs=13.7

Q ss_pred             eeeeccCCCchhHHHH
Q psy7554          25 YLSCLPDSVCPHAHQV   40 (115)
Q Consensus        25 ~li~GpTasGKS~lai   40 (115)
                      .+|+||+|||||+|--
T Consensus        26 tli~G~nGsGKSTllD   41 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLD   41 (62)
T ss_pred             EEEECCCCCCHHHHHH
Confidence            5689999999999843

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.02  E-value=0.032  Score=41.92  Aligned_cols=28  Identities=11%  Similarity=-0.029  Sum_probs=23.7

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      =.|++++.   |+||.|||||+|..-|+.-.
T Consensus        30 i~~Ge~~~---i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          30 VKPGEMVL---VLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             ECCCcEEE---EECCCCCCHHHHHHHhcccC
Confidence            35778877   99999999999999998654

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including 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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.01  E-value=0.0057  Score=46.27  Aligned_cols=81  Identities=7%  Similarity=-0.019  Sum_probs=43.6

Q ss_pred             eeeeccCCCchhHHHHHHhc------CCCceEeecc--ceeeeccCCceecCCCCHHHh-cCCCeeeecccCCCC---cc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD------GPDLFCRTYQ--VYLMVYKGLDVITNKVTPEEA-EGIPHHLLDFLDPNT---RF   92 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~------~~~~eI~Isa--DSmQVYkgldIgTAKPs~eE~-~~IpHHLid~ldp~e---~y   92 (115)
                      ++|.||+|||||.|+.+++.      +.++.. ++.  ..-++.+.|.  +--...++. ..-.-+++|..+...   +.
T Consensus        22 ~li~G~~GsGKT~l~~q~l~~~~~~~ge~vly-vs~ee~~~~l~~~~~--s~g~d~~~~~~~g~l~~~d~~~~~~~~~~~   98 (226)
T PF06745_consen   22 VLISGPPGSGKTTLALQFLYNGLKNFGEKVLY-VSFEEPPEELIENMK--SFGWDLEEYEDSGKLKIIDAFPERIGWSPN   98 (226)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHHHT--EEE-EESSS-HHHHHHHHH--TTTS-HHHHHHTTSEEEEESSGGGST-TSC
T ss_pred             EEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEE-EEecCCHHHHHHHHH--HcCCcHHHHhhcCCEEEEeccccccccccc
Confidence            44999999999999998763      233434 554  3334444433  111122221 111234555555443   56


Q ss_pred             CHHHHHHHHHHHHhhh
Q psy7554          93 TVVDYRNRALKHTGLK  108 (115)
Q Consensus        93 Sv~~F~~~A~~~I~~i  108 (115)
                      +...+.....+.+++.
T Consensus        99 ~~~~l~~~i~~~i~~~  114 (226)
T PF06745_consen   99 DLEELLSKIREAIEEL  114 (226)
T ss_dssp             CHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhc
Confidence            7777777766666653

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

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

Probab=96.01  E-value=0.0053  Score=52.80  Aligned_cols=27  Identities=4%  Similarity=-0.066  Sum_probs=23.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .+|+.||+|+|||.+|..+|..++...
T Consensus       219 gVLL~GPPGTGKT~LAraIA~el~~~f  245 (438)
T PTZ00361        219 GVILYGPPGTGKTLLAKAVANETSATF  245 (438)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCCE
Confidence            356799999999999999999988755

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.00  E-value=0.0042  Score=57.09  Aligned_cols=28  Identities=21%  Similarity=0.220  Sum_probs=23.1

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|-.+|+   ++||||||||.||..||+.+
T Consensus       593 ~~p~~~~l---f~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       593 RKPLGVFL---LVGPSGVGKTETALALAELL  620 (852)
T ss_pred             CCCceEEE---EECCCCCCHHHHHHHHHHHH
Confidence            34555444   99999999999999999887

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.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.00  E-value=0.027  Score=41.30  Aligned_cols=34  Identities=3%  Similarity=-0.234  Sum_probs=26.5

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcC---CCceEe
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDG---PDLFCR   51 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~---~~~eI~   51 (115)
                      +=.+.+++.   |+||.|+|||+|..-|+.-   ..|+|.
T Consensus        22 ~i~~G~~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i~   58 (178)
T cd03229          22 NIEAGEIVA---LLGPSGSGKSTLLRCIAGLEEPDSGSIL   58 (178)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            445777777   8999999999999999854   356663

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.

>cd01394 radB RadB

Probab=95.98  E-value=0.007  Score=45.43  Aligned_cols=24  Identities=13%  Similarity=0.012  Sum_probs=20.1

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ..+++   |+||.|||||.|++.+|..
T Consensus        19 g~i~~---i~G~~GsGKT~l~~~~a~~   42 (218)
T cd01394          19 GTVTQ---VYGPPGTGKTNIAIQLAVE   42 (218)
T ss_pred             CeEEE---EECCCCCCHHHHHHHHHHH
Confidence            45555   9999999999999999854

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PLN02422 dephospho-CoA kinase

Probab=95.97  E-value=0.0067  Score=48.17  Aligned_cols=35  Identities=6%  Similarity=-0.269  Sum_probs=29.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYk   61 (115)
                      +.|+|+-|||||.++-.|+ +++..+ |++|.+  ++|+
T Consensus         4 igltG~igsGKstv~~~l~-~~g~~~-idaD~~~~~l~~   40 (232)
T PLN02422          4 VGLTGGIASGKSTVSNLFK-SSGIPV-VDADKVARDVLK   40 (232)
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeE-EehhHHHHHHHH
Confidence            5679999999999999999 579999 999965  5554

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.96  E-value=0.0063  Score=55.66  Aligned_cols=27  Identities=19%  Similarity=0.079  Sum_probs=23.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +|..+|+   ++||||+|||.+|..||+.+
T Consensus       593 ~p~~~~L---f~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       593 RPIGSFL---FLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             CCCeEEE---EEcCCCCCHHHHHHHHHHHh
Confidence            4566565   89999999999999999876

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.94  E-value=0.0045  Score=47.51  Aligned_cols=23  Identities=9%  Similarity=-0.239  Sum_probs=19.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +.|+||+|||||+|+..|+..+.
T Consensus        36 igi~G~~GsGKTTl~~~L~~~l~   58 (229)
T PRK09270         36 VGIAGPPGAGKSTLAEFLEALLQ   58 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            34899999999999999997763

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.93  E-value=0.011  Score=45.26  Aligned_cols=27  Identities=4%  Similarity=-0.166  Sum_probs=22.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.+++.   |+||+|||||+|..-||...
T Consensus        27 ~~Ge~~~---i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         27 PDNTITA---LMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccC
Confidence            4667766   89999999999999998653

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=95.93  E-value=0.0073  Score=40.15  Aligned_cols=23  Identities=9%  Similarity=-0.109  Sum_probs=19.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++++|++|||||+|...+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999888654

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.93  E-value=0.0056  Score=53.59  Aligned_cols=27  Identities=15%  Similarity=0.015  Sum_probs=23.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      -++|++||.|+|||.+|..+|+.++++
T Consensus        41 ha~Lf~GP~GtGKTTlAriLAk~Lnce   67 (484)
T PRK14956         41 HAYIFFGPRGVGKTTIARILAKRLNCE   67 (484)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCcc
Confidence            346799999999999999999999864

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.91  E-value=0.005  Score=53.17  Aligned_cols=28  Identities=11%  Similarity=0.069  Sum_probs=23.9

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +--++|++||.|+|||.+|..+|+.++.
T Consensus        35 l~~~~Lf~GPpGtGKTTlA~~lA~~l~~   62 (472)
T PRK14962         35 ISHAYIFAGPRGTGKTTVARILAKSLNC   62 (472)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3345679999999999999999998875

>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=95.91  E-value=0.0073  Score=46.00  Aligned_cols=23  Identities=9%  Similarity=-0.112  Sum_probs=19.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      |.+|++|+||||||++.--|..+
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~   23 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGK   23 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            46889999999999998887643

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 ....

>PRK08116 hypothetical protein; Validated

Probab=95.91  E-value=0.0041  Score=49.59  Aligned_cols=23  Identities=4%  Similarity=-0.185  Sum_probs=19.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++.|++|+|||.||..+|..+
T Consensus       116 gl~l~G~~GtGKThLa~aia~~l  138 (268)
T PRK08116        116 GLLLWGSVGTGKTYLAACIANEL  138 (268)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            46679999999999999998764

>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=95.90  E-value=0.0083  Score=48.13  Aligned_cols=56  Identities=14%  Similarity=0.075  Sum_probs=33.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCC-CeeeecccCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGI-PHHLLDFLDPN   89 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~I-pHHLid~ldp~   89 (115)
                      .++|+|++|||||.|...|-..+.          ..|+.+=+.|..+..+--+-| |.|+.+..+.+
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~----------~~f~~I~l~t~~~n~~~~~~i~p~~i~~~~~~e   71 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLR----------HKFDHIFLITPEYNNEYYKYIWPDHIFKVFDKE   71 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhc----------ccCCEEEEEecCCchhhhhhcchhhccccccHH
Confidence            467899999999999888864432          234444455555544433443 35555554433

This is thought to be an ATPase involved in viral DNA packaging [].

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=95.89  E-value=0.0075  Score=45.18  Aligned_cols=33  Identities=3%  Similarity=-0.244  Sum_probs=26.6

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.|.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        22 ~i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~~~~G~i   57 (222)
T cd03224          22 TVPEGEIVA---LLGRNGAGKTTLLKTIMGLLPPRSGSI   57 (222)
T ss_pred             EEcCCeEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            446888888   99999999999998888543   4655

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.

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

Probab=95.88  E-value=0.004  Score=49.47  Aligned_cols=75  Identities=5%  Similarity=-0.087  Sum_probs=40.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC---CceEeeccceeeeccCCce----ecCCCCHHH-hcCCCeeeecccCC--CCccC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYLMVYKGLDV----ITNKVTPEE-AEGIPHHLLDFLDP--NTRFT   93 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSmQVYkgldI----gTAKPs~eE-~~~IpHHLid~ldp--~e~yS   93 (115)
                      ++++.||+|+|||-||..+|.++   +-.+ +....-.+-+.|.-    ++-...... +..++=-.||-+--  ...|.
T Consensus       107 nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv-~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         107 NLVLLGPPGVGKTHLAIAIGNELLKAGISV-LFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             cEEEECCCCCcHHHHHHHHHHHHHHcCCeE-EEEEHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEecccCccCCHHH
Confidence            56679999999999988887654   2222 22211111111111    222222233 66777777777643  45555


Q ss_pred             HHHHHH
Q psy7554          94 VVDYRN   99 (115)
Q Consensus        94 v~~F~~   99 (115)
                      ...|.+
T Consensus       186 ~~~~~q  191 (254)
T COG1484         186 ADLLFQ  191 (254)
T ss_pred             HHHHHH
Confidence            555554

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.88  E-value=0.0056  Score=56.22  Aligned_cols=23  Identities=22%  Similarity=0.060  Sum_probs=20.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++++||||||||.+|..||+.+
T Consensus       600 ~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        600 SFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            44599999999999999999865

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=95.88  E-value=0.013  Score=45.53  Aligned_cols=27  Identities=7%  Similarity=-0.114  Sum_probs=23.4

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.+++.   |+||.|||||+|..-|+...
T Consensus        28 ~~Ge~~~---i~G~nGsGKSTLl~~i~G~~   54 (262)
T PRK09984         28 HHGEMVA---LLGPSGSGKSTLLRHLSGLI   54 (262)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhccC
Confidence            5777777   99999999999999998665

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=95.87  E-value=0.0043  Score=48.24  Aligned_cols=26  Identities=15%  Similarity=-0.012  Sum_probs=22.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      .+|+.||.|+|||++|..||+.+.++
T Consensus        26 alL~~Gp~G~Gktt~a~~lA~~l~~~   51 (325)
T COG0470          26 ALLFYGPPGVGKTTAALALAKELLCE   51 (325)
T ss_pred             eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence            46689999999999999999988653

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=95.86  E-value=0.0059  Score=48.97  Aligned_cols=23  Identities=0%  Similarity=-0.242  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++.||+|+|||.+|..+|+.+
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            46789999999999997777644

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.

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=95.86  E-value=0.0068  Score=42.57  Aligned_cols=16  Identities=13%  Similarity=0.075  Sum_probs=13.3

Q ss_pred             eeeeccCCCchhHHHH
Q psy7554          25 YLSCLPDSVCPHAHQV   40 (115)
Q Consensus        25 ~li~GpTasGKS~lai   40 (115)
                      ++|.||||+|||..+.
T Consensus        17 ~li~aptGsGKT~~~~   32 (169)
T PF00270_consen   17 VLISAPTGSGKTLAYI   32 (169)
T ss_dssp             EEEECSTTSSHHHHHH
T ss_pred             EEEECCCCCccHHHHH
Confidence            4579999999997755

Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....

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

Probab=95.86  E-value=0.0073  Score=54.21  Aligned_cols=24  Identities=17%  Similarity=-0.175  Sum_probs=21.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++++.||+|+|||+++-.||+++
T Consensus       204 ~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       204 NNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CceEEECCCCCCHHHHHHHHHHHH
Confidence            467789999999999999999876

>PLN02459 probable adenylate kinase

Probab=95.85  E-value=0.007  Score=49.07  Aligned_cols=40  Identities=10%  Similarity=-0.127  Sum_probs=30.6

Q ss_pred             eeccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          12 NLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        12 ~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .+..|+|-.    ++|+||.|||||++|-.||+.++..- |++..
T Consensus        23 ~~~~~~~~~----ii~~G~PGsGK~T~a~~la~~~~~~~-is~gd   62 (261)
T PLN02459         23 SLAKGRNVN----WVFLGCPGVGKGTYASRLSKLLGVPH-IATGD   62 (261)
T ss_pred             CccccCccE----EEEECCCCCCHHHHHHHHHHHhCCcE-EeCcH
Confidence            345555532    56699999999999999999998776 66543

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.84  E-value=0.013  Score=48.00  Aligned_cols=27  Identities=11%  Similarity=0.000  Sum_probs=22.4

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .|.+++.   |+||+|||||+|..-|+...
T Consensus       106 ~~Ge~v~---IvG~~GsGKSTLl~~L~g~~  132 (329)
T PRK14257        106 KRNKVTA---FIGPSGCGKSTFLRNLNQLN  132 (329)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccc
Confidence            4566666   89999999999999998654

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.84  E-value=0.0054  Score=53.38  Aligned_cols=26  Identities=15%  Similarity=-0.045  Sum_probs=23.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      ++|++||.|+|||.+|..+|+.++++
T Consensus        40 a~Lf~Gp~G~GKTt~A~~lAk~l~c~   65 (509)
T PRK14958         40 AYLFTGTRGVGKTTISRILAKCLNCE   65 (509)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            45599999999999999999999864

>PLN02842 nucleotide kinase

Probab=95.83  E-value=0.0045  Score=54.43  Aligned_cols=30  Identities=3%  Similarity=-0.236  Sum_probs=26.9

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      +|.||.|||||++|..||++++... |+++.
T Consensus         1 ~I~G~PGSGKSTqa~~Lak~lg~~h-Is~gd   30 (505)
T PLN02842          1 MISGAPASGKGTQCELIVHKFGLVH-ISTGD   30 (505)
T ss_pred             CeeCCCCCCHHHHHHHHHHHhCCCE-EEccH
Confidence            5899999999999999999999888 77654

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.83  E-value=0.0089  Score=45.03  Aligned_cols=23  Identities=4%  Similarity=-0.253  Sum_probs=20.2

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHh
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA   43 (115)
                      +.+++.   |+||.|||||.|+..+|
T Consensus        18 ~g~i~~---i~G~~GsGKT~l~~~l~   40 (235)
T cd01123          18 TGSITE---IFGEFGSGKTQLCHQLA   40 (235)
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHH
Confidence            466776   99999999999999997

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional

Probab=95.83  E-value=0.0065  Score=56.31  Aligned_cols=38  Identities=11%  Similarity=-0.032  Sum_probs=31.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld   64 (115)
                      -+.|.||.|||||++|-.||++++... |+.+.  +||.+.
T Consensus        36 ~i~idG~~gsGKst~~~~la~~l~~~~-~~~g~--~yRa~a   73 (863)
T PRK12269         36 IIALDGPAGSGKSSVCRLLASRLGAQC-LNTGS--FYRAFT   73 (863)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcE-EeHHH--HHHHHH
Confidence            478999999999999999999999877 55554  577663

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=95.82  E-value=0.0078  Score=41.37  Aligned_cols=22  Identities=14%  Similarity=0.110  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+.+||||+|..++..+
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3678999999999999999854

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.

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.82  E-value=0.046  Score=42.00  Aligned_cols=27  Identities=7%  Similarity=-0.129  Sum_probs=23.0

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      =.+.+++.   |+||.|||||+|..-||--
T Consensus        27 i~~Ge~~~---i~G~nGsGKSTLl~~l~G~   53 (251)
T PRK14270         27 IYENKITA---LIGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHHhc
Confidence            35778877   8999999999999999854

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.82  E-value=0.0068  Score=48.34  Aligned_cols=28  Identities=4%  Similarity=-0.184  Sum_probs=24.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ..|+|.||=|+|||+||-.||++++...
T Consensus         5 ~~IvI~G~IG~GKSTLa~~La~~l~~~~   32 (216)
T COG1428           5 MVIVIEGMIGAGKSTLAQALAEHLGFKV   32 (216)
T ss_pred             cEEEEecccccCHHHHHHHHHHHhCCce
Confidence            3578899999999999999999998643

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.82  E-value=0.0063  Score=51.80  Aligned_cols=32  Identities=9%  Similarity=-0.114  Sum_probs=24.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-------CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDSm   57 (115)
                      ++++||||||||.++..||..+       ...+ |.+|..
T Consensus       224 i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~l-i~~D~~  262 (424)
T PRK05703        224 VALVGPTGVGKTTTLAKLAARYALLYGKKKVAL-ITLDTY  262 (424)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEE-EECCcc
Confidence            4489999999999888776432       3456 899984

>cd01860 Rab5_related Rab5-related subfamily

Probab=95.82  E-value=0.0082  Score=41.80  Aligned_cols=22  Identities=9%  Similarity=-0.019  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+++||||+|...|...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKN   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4678999999999999998865

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

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=95.81  E-value=0.0067  Score=55.49  Aligned_cols=24  Identities=8%  Similarity=0.203  Sum_probs=19.5

Q ss_pred             CCceeEeeeeeeccCCCchhHH--HHHHh
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAH--QVDLT   43 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~l--ai~LA   43 (115)
                      ..+.|++   |+||||||||++  |+.+|
T Consensus        23 f~~gi~l---I~G~nGsGKSSIldAI~~A   48 (908)
T COG0419          23 FDSGIFL---IVGPNGAGKSSILDAITFA   48 (908)
T ss_pred             CCCCeEE---EECCCCCcHHHHHHHHHHH
Confidence            4566777   999999999999  56665

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.80  E-value=0.042  Score=42.15  Aligned_cols=26  Identities=8%  Similarity=-0.068  Sum_probs=21.9

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      =.+.+++.   |+||+|||||+|..-||.
T Consensus        26 i~~Ge~~~---i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14262         26 IFKNQITA---IIGPSGCGKTTLLRSINR   51 (250)
T ss_pred             ecCCCEEE---EECCCCCCHHHHHHHHhc
Confidence            34667766   899999999999999994

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

Probab=95.80  E-value=0.008  Score=50.84  Aligned_cols=27  Identities=7%  Similarity=-0.081  Sum_probs=23.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++|+.||.|+|||.||..+|...+...
T Consensus       181 gvLL~GppGTGKT~LAkalA~~l~~~f  207 (398)
T PTZ00454        181 GVLLYGPPGTGKTMLAKAVAHHTTATF  207 (398)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhcCCCE
Confidence            466799999999999999999988765

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=95.78  E-value=0.046  Score=42.39  Aligned_cols=26  Identities=12%  Similarity=-0.043  Sum_probs=22.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+.+++.   |+||+|||||+|..-|+.-
T Consensus        37 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         37 AKNQVTA---FIGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcc
Confidence            4666666   8999999999999999855

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.77  E-value=0.058  Score=41.40  Aligned_cols=27  Identities=7%  Similarity=-0.031  Sum_probs=22.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.+++.   |+||.|+|||+|..-|+.-.
T Consensus        28 ~~Ge~~~---l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         28 PQNGVFA---LMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccC
Confidence            4777777   89999999999999888653

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.76  E-value=0.0092  Score=41.25  Aligned_cols=23  Identities=13%  Similarity=0.026  Sum_probs=20.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++++|+.+||||+|..+++.+.
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47889999999999999998653

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.76  E-value=0.009  Score=53.23  Aligned_cols=36  Identities=11%  Similarity=-0.074  Sum_probs=26.7

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCC-------CceEeeccceee
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVYLM   58 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDSmQ   58 (115)
                      .+++.   ++||||+|||.++..||..+       ..-+ |++|+..
T Consensus       350 G~vIa---LVGPtGvGKTTtaakLAa~la~~~~gkkVaL-IdtDtyR  392 (559)
T PRK12727        350 GGVIA---LVGPTGAGKTTTIAKLAQRFAAQHAPRDVAL-VTTDTQR  392 (559)
T ss_pred             CCEEE---EECCCCCCHHHHHHHHHHHHHHhcCCCceEE-Eeccccc
Confidence            45554   88999999999998888532       2346 8899844

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.76  E-value=0.01  Score=51.09  Aligned_cols=32  Identities=3%  Similarity=-0.244  Sum_probs=25.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSm   57 (115)
                      ++++|++|||||+++..||..+     ...+ |++|..
T Consensus        98 I~lvG~~GsGKTTtaakLA~~L~~~g~kV~l-V~~D~~  134 (437)
T PRK00771         98 IMLVGLQGSGKTTTAAKLARYFKKKGLKVGL-VAADTY  134 (437)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCeEEE-ecCCCC
Confidence            4579999999999999988544     3456 899964

>CHL00181 cbbX CbbX; Provisional

Probab=95.75  E-value=0.0073  Score=48.71  Aligned_cols=23  Identities=4%  Similarity=-0.156  Sum_probs=20.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++.||+|+|||.+|..+|+.+
T Consensus        61 ~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999998754

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

Probab=95.75  E-value=0.0094  Score=51.33  Aligned_cols=67  Identities=13%  Similarity=0.021  Sum_probs=44.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC-------CceEeecccee--------eecc---CCceecCCCCHHH-----
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVYL--------MVYK---GLDVITNKVTPEE-----   74 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDSm--------QVYk---gldIgTAKPs~eE-----   74 (115)
                      |.-|+.   ++||||+|||+--.+||.++       +.-| |..|+.        +.|-   ++|+--++++.|-     
T Consensus       202 ~~~vi~---LVGPTGVGKTTTlAKLAar~~~~~~~~kVai-ITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~  277 (407)
T COG1419         202 QKRVIA---LVGPTGVGKTTTLAKLAARYVMLKKKKKVAI-ITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIE  277 (407)
T ss_pred             cCcEEE---EECCCCCcHHHHHHHHHHHHHhhccCcceEE-EEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHH
Confidence            345555   79999999998777777544       4567 899984        3354   3466666654432     


Q ss_pred             -hcCCCeeeecccCC
Q psy7554          75 -AEGIPHHLLDFLDP   88 (115)
Q Consensus        75 -~~~IpHHLid~ldp   88 (115)
                       ++...|=|+|-.--
T Consensus       278 ~l~~~d~ILVDTaGr  292 (407)
T COG1419         278 ALRDCDVILVDTAGR  292 (407)
T ss_pred             HhhcCCEEEEeCCCC
Confidence             45567777776543

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.75  E-value=0.014  Score=44.84  Aligned_cols=27  Identities=7%  Similarity=-0.188  Sum_probs=22.5

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      =.|.+++.   |+||.|||||+|..-||.-
T Consensus        28 i~~Ge~~~---I~G~nGsGKSTLl~~i~G~   54 (251)
T PRK14244         28 IYKREVTA---FIGPSGCGKSTFLRCFNRM   54 (251)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHHhh
Confidence            34677776   8999999999999999854

>KOG0744|consensus

Probab=95.74  E-value=0.0073  Score=51.79  Aligned_cols=21  Identities=14%  Similarity=-0.037  Sum_probs=19.7

Q ss_pred             eeeccCCCchhHHHHHHhcCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~   46 (115)
                      |+.||.|+|||.|...|||++
T Consensus       181 LlhGPPGTGKTSLCKaLaQkL  201 (423)
T KOG0744|consen  181 LLHGPPGTGKTSLCKALAQKL  201 (423)
T ss_pred             EEeCCCCCChhHHHHHHHHhh
Confidence            479999999999999999987

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=95.74  E-value=0.0072  Score=51.41  Aligned_cols=24  Identities=4%  Similarity=-0.137  Sum_probs=21.4

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      |..++|.||+|+|||.|+..+|..
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~  153 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Confidence            778889999999999999888865

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.74  E-value=0.0065  Score=52.97  Aligned_cols=26  Identities=15%  Similarity=-0.015  Sum_probs=22.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      ++|++||.|+|||.+|..+|+.++++
T Consensus        40 a~Lf~Gp~G~GKTt~A~~lAk~l~c~   65 (527)
T PRK14969         40 AYLFTGTRGVGKTTLARILAKSLNCE   65 (527)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            45599999999999999999999764

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.73  E-value=0.048  Score=42.49  Aligned_cols=25  Identities=8%  Similarity=-0.020  Sum_probs=21.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .+.+++.   |+||+|||||+|..-||.
T Consensus        45 ~~Ge~~~---i~G~nGsGKSTLl~~l~G   69 (268)
T PRK14248         45 EKHAVTA---LIGPSGCGKSTFLRSINR   69 (268)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHh
Confidence            5677776   899999999999998885

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.73  E-value=0.0076  Score=52.85  Aligned_cols=25  Identities=12%  Similarity=-0.037  Sum_probs=23.2

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceE
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |++||+|+|||+...-||++++.+|
T Consensus        49 lLtGP~G~GKtttv~~La~elg~~v   73 (519)
T PF03215_consen   49 LLTGPSGCGKTTTVKVLAKELGFEV   73 (519)
T ss_pred             EEECCCCCCHHHHHHHHHHHhCCee
Confidence            5899999999999999999998876

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=95.73  E-value=0.061  Score=41.61  Aligned_cols=28  Identities=14%  Similarity=-0.054  Sum_probs=23.4

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      =.|.+++.   |+||.|||||+|..-||.-.
T Consensus        27 i~~Ge~~~---i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         27 IEPRSVTA---FIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             EcCCcEEE---EECCCCCCHHHHHHHHhccC
Confidence            35778877   89999999999999998643

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=95.72  E-value=0.0065  Score=53.11  Aligned_cols=26  Identities=12%  Similarity=-0.022  Sum_probs=22.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      ++|++||.|+|||.+|..+|+.++++
T Consensus        45 a~Lf~Gp~G~GKTT~ArilAk~Lnc~   70 (507)
T PRK06645         45 GYLLTGIRGVGKTTSARIIAKAVNCS   70 (507)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCc
Confidence            44599999999999999999998764

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=95.72  E-value=0.0098  Score=45.94  Aligned_cols=26  Identities=4%  Similarity=-0.040  Sum_probs=20.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+.++++   |+||+|+|||.++.++|..
T Consensus        28 ~~g~~~~---i~g~~G~GKT~l~~~~~~~   53 (271)
T cd01122          28 RKGELII---LTAGTGVGKTTFLREYALD   53 (271)
T ss_pred             cCCcEEE---EEcCCCCCHHHHHHHHHHH
Confidence            3455665   9999999999998887654

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK10436 hypothetical protein; Provisional

Probab=95.72  E-value=0.0068  Score=52.40  Aligned_cols=21  Identities=10%  Similarity=-0.054  Sum_probs=15.9

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +||+||||||||+....+-+.
T Consensus       221 iLvtGpTGSGKTTtL~a~l~~  241 (462)
T PRK10436        221 ILVTGPTGSGKTVTLYSALQT  241 (462)
T ss_pred             EEEECCCCCChHHHHHHHHHh
Confidence            559999999999876544333

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=95.72  E-value=0.0068  Score=53.14  Aligned_cols=22  Identities=9%  Similarity=-0.130  Sum_probs=17.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +||+||||||||++...+.+.+
T Consensus       319 ilv~G~tGSGKTTtl~a~l~~~  340 (564)
T TIGR02538       319 VLVTGPTGSGKTVSLYTALNIL  340 (564)
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            4599999999998865555444

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.72  E-value=0.07  Score=40.86  Aligned_cols=27  Identities=7%  Similarity=-0.084  Sum_probs=22.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .|.+++.   |+||.|+|||+|..-||..+
T Consensus        28 ~~Ge~~~---i~G~nGsGKSTLl~~i~G~~   54 (252)
T PRK14272         28 QRGTVNA---LIGPSGCGKTTFLRAINRMH   54 (252)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccC
Confidence            4667766   89999999999999999764

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=95.72  E-value=0.0079  Score=52.08  Aligned_cols=23  Identities=9%  Similarity=-0.060  Sum_probs=18.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+||||||||++...+-..++
T Consensus       245 ilitGptGSGKTTtL~a~L~~l~  267 (486)
T TIGR02533       245 ILVTGPTGSGKTTTLYAALSRLN  267 (486)
T ss_pred             EEEEcCCCCCHHHHHHHHHhccC
Confidence            45999999999999876655553

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PRK05973 replicative DNA helicase; Provisional

Probab=95.71  E-value=0.0083  Score=47.78  Aligned_cols=24  Identities=13%  Similarity=0.058  Sum_probs=19.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      |..+++   |.|++|+|||.|++++|.
T Consensus        63 ~Gsl~L---IaG~PG~GKT~lalqfa~   86 (237)
T PRK05973         63 PGDLVL---LGARPGHGKTLLGLELAV   86 (237)
T ss_pred             CCCEEE---EEeCCCCCHHHHHHHHHH
Confidence            444555   999999999999998875

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.71  E-value=0.0036  Score=50.83  Aligned_cols=26  Identities=4%  Similarity=-0.199  Sum_probs=22.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++++|+.|||||.+|.+||+.+.-+|
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~~i   29 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQEI   29 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHHhh
Confidence            57899999999999999999886554

>cd04136 Rap_like Rap-like subfamily

Probab=95.70  E-value=0.0095  Score=41.35  Aligned_cols=22  Identities=18%  Similarity=0.149  Sum_probs=19.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++|+|+++||||+|..++...
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3678999999999999998854

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.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.69  E-value=0.0053  Score=51.90  Aligned_cols=15  Identities=13%  Similarity=0.009  Sum_probs=12.4

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      +|++||||||||+--
T Consensus       128 ILVTGpTGSGKSTTl  142 (353)
T COG2805         128 ILVTGPTGSGKSTTL  142 (353)
T ss_pred             EEEeCCCCCcHHHHH
Confidence            569999999999643

>PRK07952 DNA replication protein DnaC; Validated

Probab=95.69  E-value=0.0057  Score=48.66  Aligned_cols=65  Identities=3%  Similarity=-0.003  Sum_probs=37.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC---CceEeeccceeeeccCCcee--cCCCC----HHHhcCCCeeeecccCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYLMVYKGLDVI--TNKVT----PEEAEGIPHHLLDFLDPN   89 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSmQVYkgldIg--TAKPs----~eE~~~IpHHLid~ldp~   89 (115)
                      ++++.||+|+|||.|+..+|..+   +..+ +..+.-++...+.-.  .+..+    .+++..+..-+||-+...
T Consensus       101 ~~~l~G~~GtGKThLa~aia~~l~~~g~~v-~~it~~~l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~  174 (244)
T PRK07952        101 SFIFSGKPGTGKNHLAAAICNELLLRGKSV-LIITVADIMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQ  174 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCeE-EEEEHHHHHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCC
Confidence            56789999999999999998765   3333 333333332222111  11111    233567777888877654

>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=95.68  E-value=0.014  Score=39.37  Aligned_cols=21  Identities=14%  Similarity=-0.154  Sum_probs=18.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|.|+|++|||+|--.|...
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            568999999999999999964

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 ....

>KOG3308|consensus

Probab=95.68  E-value=0.0079  Score=48.21  Aligned_cols=35  Identities=11%  Similarity=-0.271  Sum_probs=29.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-ceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-LFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-~eI~IsaDSmQVYkg   62 (115)
                      +=|.|.|.||||+||-.|++-|. +.+ |+.|-  +||-
T Consensus         7 vgiSG~TnsGKTTLak~l~~~f~~~~l-IhqDD--FyKp   42 (225)
T KOG3308|consen    7 VGISGCTNSGKTTLAKSLHRFFPGCSL-IHQDD--FYKP   42 (225)
T ss_pred             EEeecccCCCHhHHHHHHHHHccCCee-ecccc--ccCc
Confidence            45799999999999999999985 567 99995  5653

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.68  E-value=0.0094  Score=45.02  Aligned_cols=23  Identities=9%  Similarity=-0.057  Sum_probs=19.7

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      ..|++   |.||+|||||.|+..+|.
T Consensus        23 g~i~~---i~G~~GsGKT~l~~~la~   45 (225)
T PRK09361         23 GTITQ---IYGPPGSGKTNICLQLAV   45 (225)
T ss_pred             CeEEE---EECCCCCCHHHHHHHHHH
Confidence            45655   999999999999999985

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.68  E-value=0.0089  Score=47.16  Aligned_cols=20  Identities=0%  Similarity=-0.318  Sum_probs=17.3

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++|+||+|+|||.|+.++|.
T Consensus        39 ~lI~G~pGtGKT~l~~qf~~   58 (259)
T TIGR03878        39 INITGVSDTGKSLMVEQFAV   58 (259)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            34999999999999998764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.67  E-value=0.014  Score=49.47  Aligned_cols=34  Identities=12%  Similarity=-0.143  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEeec
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRTY   53 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~Is   53 (115)
                      .|.+.+.   |+||+|||||+|+.-|+.-.   .|+|.++
T Consensus       359 ~~G~~va---IvG~SGsGKSTLl~lL~g~~~p~~G~I~i~  395 (529)
T TIGR02868       359 PPGERVA---ILGPSGSGKSTLLMLLTGLLDPLQGEVTLD  395 (529)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCcEEEEC
Confidence            4556655   89999999999998887554   4666443

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=95.66  E-value=0.0091  Score=40.72  Aligned_cols=20  Identities=15%  Similarity=-0.064  Sum_probs=18.0

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++++|++|+|||+|...|++
T Consensus         2 i~l~G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhc
Confidence            46799999999999999994

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.66  E-value=0.011  Score=43.02  Aligned_cols=23  Identities=13%  Similarity=0.131  Sum_probs=18.3

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .++.+   |.||+|+|||.++.++|.
T Consensus        32 g~l~~---i~g~~g~GKT~~~~~l~~   54 (193)
T PF13481_consen   32 GELTL---IAGPPGSGKTTLALQLAA   54 (193)
T ss_dssp             TSEEE---EEECSTSSHHHHHHHHHH
T ss_pred             CeEEE---EEeCCCCCHHHHHHHHHH
Confidence            44444   899999999999887774

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.66  E-value=0.0096  Score=47.54  Aligned_cols=20  Identities=5%  Similarity=-0.351  Sum_probs=17.7

Q ss_pred             eeeccCCCchhHHHHHHhcC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~   45 (115)
                      .|+||.|||||.|+..+|-.
T Consensus        99 ei~G~~g~GKT~l~~~~~~~  118 (310)
T TIGR02236        99 EVFGEFGSGKTQICHQLAVN  118 (310)
T ss_pred             EEECCCCCCHHHHHHHHHHH
Confidence            49999999999999999843

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.65  E-value=0.0079  Score=49.24  Aligned_cols=24  Identities=17%  Similarity=-0.015  Sum_probs=20.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |++|+|+||||||++-..+....+
T Consensus       145 siii~G~t~sGKTt~lnall~~Ip  168 (312)
T COG0630         145 SIIICGGTASGKTTLLNALLDFIP  168 (312)
T ss_pred             cEEEECCCCCCHHHHHHHHHHhCC
Confidence            688999999999999888876654

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.65  E-value=0.04  Score=44.28  Aligned_cols=32  Identities=3%  Similarity=-0.372  Sum_probs=24.3

Q ss_pred             eeeccCCCchhHHHHHHhcC-----CCceEeeccceee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLM   58 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQ   58 (115)
                      .|+||+|||||+|...|+..     ....+ |+.|.-.
T Consensus        38 ~i~G~~G~GKttl~~~l~~~~~~~~~~v~~-i~~D~~~   74 (300)
T TIGR00750        38 GITGTPGAGKSTLLEALGMELRRRGLKVAV-IAVDPSS   74 (300)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCeEEE-EecCCCC
Confidence            37899999999999887754     34456 8888533

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.65  E-value=0.0093  Score=53.36  Aligned_cols=31  Identities=6%  Similarity=-0.151  Sum_probs=25.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      .++|+.||+|+|||.||..+|...+... ++.
T Consensus       488 ~giLL~GppGtGKT~lakalA~e~~~~f-i~v  518 (733)
T TIGR01243       488 KGVLLFGPPGTGKTLLAKAVATESGANF-IAV  518 (733)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhcCCCE-EEE
Confidence            3567899999999999999999887665 443

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=95.65  E-value=0.0059  Score=52.29  Aligned_cols=29  Identities=3%  Similarity=-0.131  Sum_probs=24.2

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++..|..++|.||+|+|||.|+..+|..+
T Consensus       137 ~~~~~npl~L~G~~G~GKTHLl~Ai~~~l  165 (445)
T PRK12422        137 KGFPFNPIYLFGPEGSGKTHLMQAAVHAL  165 (445)
T ss_pred             cCCCCceEEEEcCCCCCHHHHHHHHHHHH
Confidence            34567888899999999999999988643

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=95.64  E-value=0.01  Score=37.28  Aligned_cols=65  Identities=6%  Similarity=-0.140  Sum_probs=41.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceEeeccceeeeccCCceecCCCC--HHHhcCCCeeeecccCCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYLMVYKGLDVITNKVT--PEEAEGIPHHLLDFLDPNTR   91 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSmQVYkgldIgTAKPs--~eE~~~IpHHLid~ldp~e~   91 (115)
                      +++.|..|+|||.++..||..+   +-.+ ...|...+.....-... +.  ........++++=.++++..
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v-~~~~d~iivD~~~~~~~-~~~~~~~~~~~~~~vi~v~~~~~~   71 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKRV-LLIDDYVLIDTPPGLGL-LVLLCLLALLAADLVIIVTTPEAL   71 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeE-EEECCEEEEeCCCCccc-hhhhhhhhhhhCCEEEEecCCchh
Confidence            4578999999999999998775   4566 66775555544422211 11  02344567778777777754

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

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.63  E-value=0.011  Score=50.01  Aligned_cols=33  Identities=6%  Similarity=-0.247  Sum_probs=28.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      .+|+.||.|+|||.||..+|...+... ++.|.-
T Consensus       278 giLl~GpPGtGKT~lAkava~~~~~~f-i~v~~~  310 (494)
T COG0464         278 GVLLYGPPGTGKTLLAKAVALESRSRF-ISVKGS  310 (494)
T ss_pred             eeEEECCCCCCHHHHHHHHHhhCCCeE-EEeeCH
Confidence            667899999999999999999888887 777665

>cd03114 ArgK-like The function of this protein family is unkown

Probab=95.63  E-value=0.022  Score=41.51  Aligned_cols=31  Identities=3%  Similarity=-0.358  Sum_probs=24.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      +.++|+.|||||.++..++..+     ...+ +.+|-
T Consensus         2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~i-i~~D~   37 (148)
T cd03114           2 IGITGVPGAGKSTLIDALITALRARGKRVAV-LAIDP   37 (148)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEE-EEeCC
Confidence            4579999999999999888654     2345 78884

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=95.62  E-value=0.011  Score=45.87  Aligned_cols=25  Identities=12%  Similarity=0.161  Sum_probs=21.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +|.++|+   |.|++|+|||++++++|.
T Consensus        17 ~~g~L~v---i~a~pg~GKT~~~l~ia~   41 (259)
T PF03796_consen   17 RPGELTV---IAARPGVGKTAFALQIAL   41 (259)
T ss_dssp             -TT-EEE---EEESTTSSHHHHHHHHHH
T ss_pred             CcCcEEE---EEecccCCchHHHHHHHH
Confidence            7888888   999999999999998885

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=95.62  E-value=0.016  Score=45.30  Aligned_cols=27  Identities=7%  Similarity=-0.057  Sum_probs=23.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++++.   |+||+|||||+|..-||.-.
T Consensus        44 ~~Ge~~~---I~G~nGsGKSTLl~~l~Gl~   70 (267)
T PRK14237         44 EKNKITA---LIGPSGSGKSTYLRSLNRMN   70 (267)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHhcc
Confidence            5677777   89999999999999998654

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

Probab=95.62  E-value=0.01  Score=51.44  Aligned_cols=32  Identities=6%  Similarity=-0.104  Sum_probs=26.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEe-ecc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCR-TYQ   54 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~-Isa   54 (115)
                      -|.|+-||.|+|||+||.-||+..+...+ +||
T Consensus        49 ~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sA   81 (436)
T COG2256          49 HSMILWGPPGTGKTTLARLIAGTTNAAFEALSA   81 (436)
T ss_pred             ceeEEECCCCCCHHHHHHHHHHhhCCceEEecc
Confidence            36677999999999999999999987653 565

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=95.62  E-value=0.026  Score=42.07  Aligned_cols=33  Identities=9%  Similarity=-0.207  Sum_probs=19.0

Q ss_pred             eeeeeccCCCchhHHHH----HHhcC---CCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQV----DLTDG---PDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai----~LA~~---~~~eI~IsaDSm   57 (115)
                      .++|+|+||||||.+..    .++..   -+..+ .-+|..
T Consensus        40 h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l-~iiD~k   79 (205)
T PF01580_consen   40 HLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQL-YIIDPK   79 (205)
T ss_dssp             SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEE-EEE-TT
T ss_pred             eEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEE-EEEcCC
Confidence            57899999999997644    44443   23444 445654

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.61  E-value=0.01  Score=46.24  Aligned_cols=25  Identities=8%  Similarity=-0.267  Sum_probs=22.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |.|+|+.|+|||+++-.|+ +++-.+
T Consensus         3 I~ITGTPGvGKTT~~~~L~-~lg~~~   27 (180)
T COG1936           3 IAITGTPGVGKTTVCKLLR-ELGYKV   27 (180)
T ss_pred             EEEeCCCCCchHHHHHHHH-HhCCce
Confidence            6799999999999999999 777666

>cd02030 NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is a family of proteins that are highly similar to deoxyribonucleoside kinases (dNK)

Probab=95.61  E-value=0.0088  Score=45.76  Aligned_cols=26  Identities=4%  Similarity=-0.224  Sum_probs=23.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |.|-|..|||||+++-.|++.++.+.
T Consensus         2 I~iEG~~GsGKSTl~~~L~~~l~~~~   27 (219)
T cd02030           2 ITVDGNIASGKGKLAKELAEKLGMKY   27 (219)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCe
Confidence            56899999999999999999988765

Members of this family have been identified as one of the subunits of NADH:Ubiquinone oxioreductase (complex I), a multi-protein complex located in the inner mitochondrial membrane. The main function of the complex is to transport electrons from NADH to ubiquinone, which is accompanied by the translocation of protons from the mitochondrial matrix to the inter membrane space.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=95.61  E-value=0.012  Score=43.88  Aligned_cols=31  Identities=3%  Similarity=-0.167  Sum_probs=25.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        24 ~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~v   57 (213)
T cd03301          24 ADGEFVV---LLGPSGCGKTTTLRMIAGLEEPTSGRI   57 (213)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            5777877   89999999999999998654   4666

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=95.61  E-value=0.0099  Score=48.03  Aligned_cols=25  Identities=20%  Similarity=-0.019  Sum_probs=22.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      +++-||+|+|||.|+..+|+.++..
T Consensus        46 vll~G~PG~gKT~la~~lA~~l~~~   70 (329)
T COG0714          46 VLLEGPPGVGKTLLARALARALGLP   70 (329)
T ss_pred             EEEECCCCccHHHHHHHHHHHhCCC
Confidence            5679999999999999999999854

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.61  E-value=0.0093  Score=53.37  Aligned_cols=31  Identities=6%  Similarity=-0.039  Sum_probs=25.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      .+++.||+|+|||.|+..+|..++..+ +..+
T Consensus       214 giLL~GppGtGKT~laraia~~~~~~~-i~i~  244 (733)
T TIGR01243       214 GVLLYGPPGTGKTLLAKAVANEAGAYF-ISIN  244 (733)
T ss_pred             eEEEECCCCCChHHHHHHHHHHhCCeE-EEEe
Confidence            456799999999999999999988766 4433

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.

>PRK04296 thymidine kinase; Provisional

Probab=95.60  E-value=0.007  Score=45.54  Aligned_cols=22  Identities=0%  Similarity=-0.269  Sum_probs=19.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+|+||.|+|||++++.++.+.
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~   26 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNY   26 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHH
Confidence            4689999999999999998664

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.60  E-value=0.022  Score=41.92  Aligned_cols=31  Identities=3%  Similarity=-0.344  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-||...   .|+|
T Consensus        24 ~~G~~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (182)
T cd03215          24 RAGEIVG---IAGLVGNGQTELAEALFGLRPPASGEI   57 (182)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            4677776   89999999999999998654   4666

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. In members of 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.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.60  E-value=0.01  Score=44.80  Aligned_cols=19  Identities=0%  Similarity=-0.179  Sum_probs=16.4

Q ss_pred             eeeeccCCCchhHHHHHHh
Q psy7554          25 YLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA   43 (115)
                      ++|.||+|+|||.|+..++
T Consensus        23 ~~i~G~~G~GKT~l~~~~~   41 (229)
T TIGR03881        23 VAVTGEPGTGKTIFCLHFA   41 (229)
T ss_pred             EEEECCCCCChHHHHHHHH
Confidence            3489999999999988765

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.59  E-value=0.011  Score=44.75  Aligned_cols=33  Identities=9%  Similarity=-0.133  Sum_probs=26.2

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-||.-+   .|+|
T Consensus        23 ~i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~~~~G~i   58 (241)
T cd03256          23 SINPGEFVA---LIGPSGAGKSTLLRCLNGLVEPTSGSV   58 (241)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhCCcCCCCceE
Confidence            445777777   99999999999999998543   4666

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. 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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=95.59  E-value=0.012  Score=44.86  Aligned_cols=31  Identities=13%  Similarity=-0.095  Sum_probs=25.2

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .|.+++.   |+||.|||||+|..-|+.-.   .|.|
T Consensus        25 ~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~p~~G~i   58 (236)
T TIGR03864        25 RPGEFVA---LLGPNGAGKSTLFSLLTRLYVAQEGQI   58 (236)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCcCCCceEE
Confidence            5777777   89999999999999998543   3666

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.58  E-value=0.019  Score=44.05  Aligned_cols=26  Identities=8%  Similarity=-0.089  Sum_probs=22.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+.+++.   |+||.|||||+|..-||--
T Consensus        28 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl   53 (251)
T PRK14251         28 EEKELTA---LIGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhhc
Confidence            4667776   8999999999999999854

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=95.58  E-value=0.0075  Score=51.03  Aligned_cols=29  Identities=7%  Similarity=-0.032  Sum_probs=24.5

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      +--++|+.||.|+|||.+|..+|+.+.++
T Consensus        35 l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~   63 (394)
T PRK07940         35 MTHAWLFTGPPGSGRSVAARAFAAALQCT   63 (394)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            44567799999999999999999987653

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.58  E-value=0.013  Score=48.77  Aligned_cols=66  Identities=11%  Similarity=-0.018  Sum_probs=39.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc-----eEeeccceeeeccCCceecCCCCH---HHhcCCCee-----eecccCCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL-----FCRTYQVYLMVYKGLDVITNKVTP---EEAEGIPHH-----LLDFLDPNT   90 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~-----eI~IsaDSmQVYkgldIgTAKPs~---eE~~~IpHH-----Lid~ldp~e   90 (115)
                      +|+.||.|+|||.++..||+-++.     .+.+++++.|....+.-++...-.   --...+||+     |+|-++.+.
T Consensus        32 vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~  110 (334)
T PRK13407         32 VLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIER  110 (334)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcccccccCCcccccCCccccCCCCCCcceeecchhhhh
Confidence            668999999999999999998842     111355566655433222221100   002347777     888666553

>PF13245 AAA_19: Part of AAA domain

Probab=95.58  E-value=0.007  Score=40.04  Aligned_cols=19  Identities=5%  Similarity=-0.151  Sum_probs=15.4

Q ss_pred             eeccCCCchhHHHHHHhcC
Q psy7554          27 SCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~   45 (115)
                      |.||.|||||.++++++..
T Consensus        15 v~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   15 VQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            7999999999777666543

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.57  E-value=0.012  Score=44.16  Aligned_cols=25  Identities=4%  Similarity=-0.214  Sum_probs=20.8

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.+|+.   |.||+|+|||.|+..+|..
T Consensus        18 ~g~v~~---I~G~~GsGKT~l~~~ia~~   42 (226)
T cd01393          18 TGRITE---IFGEFGSGKTQLCLQLAVE   42 (226)
T ss_pred             CCcEEE---EeCCCCCChhHHHHHHHHH
Confidence            355666   9999999999999999753

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>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=95.57  E-value=0.006  Score=49.13  Aligned_cols=33  Identities=9%  Similarity=-0.016  Sum_probs=24.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSmQ   58 (115)
                      ++|+|..|||||.+|.+|++.+     ...| |+-|++.
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~-i~~~~~~   41 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVI-ISDDSLG   41 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHHTT--EEE-E-THHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEE-Ecccccc
Confidence            6799999999999999999853     4456 8888887

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.57  E-value=0.013  Score=42.96  Aligned_cols=32  Identities=6%  Similarity=-0.315  Sum_probs=25.5

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++.   |.||+|||||+|..-||.-.   .|+|
T Consensus        25 i~~Ge~~~---i~G~nGsGKStLl~~l~G~~~~~~G~i   59 (178)
T cd03247          25 LKQGEKIA---LLGRSGSGKSTLLQLLTGDLKPQQGEI   59 (178)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhccCCCCCCEE
Confidence            34677777   89999999999999998654   4666

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.

>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=95.56  E-value=0.01  Score=45.55  Aligned_cols=21  Identities=0%  Similarity=-0.165  Sum_probs=18.7

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +.|.|+.|+|||+||.++++.
T Consensus        22 v~I~G~~G~GKT~LA~~~~~~   42 (287)
T PF00931_consen   22 VAIVGMGGIGKTTLARQVARD   42 (287)
T ss_dssp             EEEEESTTSSHHHHHHHHHCH
T ss_pred             EEEEcCCcCCcceeeeecccc
Confidence            348999999999999999965

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.56  E-value=0.0084  Score=52.91  Aligned_cols=36  Identities=11%  Similarity=-0.238  Sum_probs=27.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc------eEeeccceeeeccCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL------FCRTYQVYLMVYKGL   63 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~------eI~IsaDSmQVYkgl   63 (115)
                      ++++|+.|||||++|..||+.++.      .+ +..|  .+-++|
T Consensus       395 Ivl~Gl~GSGKSTia~~La~~L~~~~g~~~~~-lD~D--~vr~~l  436 (568)
T PRK05537        395 VFFTGLSGAGKSTIAKALMVKLMEMRGRPVTL-LDGD--VVRKHL  436 (568)
T ss_pred             EEEECCCCChHHHHHHHHHHHhhhccCceEEE-eCCc--HHHHhc
Confidence            567999999999999999999874      44 5444  445555

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=95.55  E-value=0.0098  Score=44.40  Aligned_cols=21  Identities=10%  Similarity=-0.004  Sum_probs=18.1

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++||+|+|||+|+-.|-..
T Consensus         4 imliG~~g~GKTTL~q~L~~~   24 (143)
T PF10662_consen    4 IMLIGPSGSGKTTLAQALNGE   24 (143)
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            678999999999999888643

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

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.55  E-value=0.019  Score=44.24  Aligned_cols=26  Identities=8%  Similarity=-0.110  Sum_probs=22.3

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      =.|.+++.   |+||.|||||+|..-||.
T Consensus        29 i~~Ge~~~---i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         29 IPKNRVTA---LIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             ECCCcEEE---EECCCCCCHHHHHHHHhc
Confidence            35777776   899999999999999984

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.55  E-value=0.019  Score=44.08  Aligned_cols=27  Identities=7%  Similarity=-0.089  Sum_probs=22.7

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      =.+.+++.   |+||.|||||+|..-|+.-
T Consensus        28 i~~Ge~~~---l~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14255         28 FNQNEITA---LIGPSGCGKSTYLRTLNRM   54 (252)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhcc
Confidence            35777776   8999999999999999863

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=95.54  E-value=0.012  Score=44.56  Aligned_cols=32  Identities=0%  Similarity=-0.255  Sum_probs=26.2

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+++++.   |+||.|||||+|..-||.-+   .|+|
T Consensus        28 i~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~i   62 (233)
T cd03258          28 VPKGEIFG---IIGRSGAGKSTLIRCINGLERPTSGSV   62 (233)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            35777777   89999999999999998664   4666

Other members of this system include the MetP permease and the MetQ substrate binding protein. 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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=95.53  E-value=0.0083  Score=44.24  Aligned_cols=26  Identities=19%  Similarity=0.133  Sum_probs=22.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      ++|+.||.|+|||.++..+|+.+.++
T Consensus        16 ~~L~~G~~G~gkt~~a~~~~~~l~~~   41 (188)
T TIGR00678        16 AYLFAGPEGVGKELLALALAKALLCE   41 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHcCC
Confidence            44499999999999999999887653

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.

>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=95.53  E-value=0.012  Score=44.04  Aligned_cols=33  Identities=6%  Similarity=-0.243  Sum_probs=26.1

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        26 ~i~~G~~~~---l~G~nGsGKSTLl~~i~Gl~~~~~G~i   61 (218)
T cd03255          26 SIEKGEFVA---IVGPSGSGKSTLLNILGGLDRPTSGEV   61 (218)
T ss_pred             EEcCCCEEE---EEcCCCCCHHHHHHHHhCCcCCCceeE
Confidence            335777777   89999999999999998654   4665

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.

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.53  E-value=0.021  Score=43.88  Aligned_cols=27  Identities=11%  Similarity=-0.059  Sum_probs=23.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .|.+++.   |+||.|||||+|..-||...
T Consensus        28 ~~G~~~~---i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14249         28 PERQITA---IIGPSGCGKSTLLRALNRMN   54 (251)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccc
Confidence            4677776   89999999999999998754

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.53  E-value=0.012  Score=50.53  Aligned_cols=63  Identities=21%  Similarity=0.178  Sum_probs=40.1

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcC-------CCceEeeccceee--------ecc---CCceecCCCCH------HH
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDG-------PDLFCRTYQVYLM--------VYK---GLDVITNKVTP------EE   74 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~-------~~~eI~IsaDSmQ--------VYk---gldIgTAKPs~------eE   74 (115)
                      .+++.   ++||||+|||++...||..       ..+.+ |.+|...        .|.   ++++-+.+...      .+
T Consensus       191 g~vi~---lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~-i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~  266 (420)
T PRK14721        191 GGVYA---LIGPTGVGKTTTTAKLAARAVIRHGADKVAL-LTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHE  266 (420)
T ss_pred             CcEEE---EECCCCCCHHHHHHHHHHHHHHhcCCCeEEE-EecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHH
Confidence            45555   8999999999999988853       23456 7788844        222   34555444432      23


Q ss_pred             hcCCCeeeecc
Q psy7554          75 AEGIPHHLLDF   85 (115)
Q Consensus        75 ~~~IpHHLid~   85 (115)
                      ++...+-|||.
T Consensus       267 l~~~d~VLIDT  277 (420)
T PRK14721        267 LRGKHMVLIDT  277 (420)
T ss_pred             hcCCCEEEecC
Confidence            45556677776

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.52  E-value=0.012  Score=44.69  Aligned_cols=33  Identities=6%  Similarity=-0.168  Sum_probs=26.1

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-||.-+   .|+|
T Consensus        24 ~i~~Ge~~~---l~G~nGsGKSTLl~~l~Gl~~~~~G~i   59 (243)
T TIGR02315        24 NINPGEFVA---IIGPSGAGKSTLLRCINRLVEPSSGSI   59 (243)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhCCcCCCccEE
Confidence            335677777   99999999999999988543   4666

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.52  E-value=0.0081  Score=53.04  Aligned_cols=26  Identities=15%  Similarity=-0.033  Sum_probs=22.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      -++|+.||.|+|||.+|..+|+.+++
T Consensus        39 ha~Lf~Gp~GvGKTTlAr~lAk~L~c   64 (546)
T PRK14957         39 HAYLFTGTRGVGKTTLGRLLAKCLNC   64 (546)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34569999999999999999998864

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=95.52  E-value=0.013  Score=44.17  Aligned_cols=33  Identities=9%  Similarity=-0.125  Sum_probs=25.9

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-||.-+   .|+|
T Consensus        22 ~i~~Ge~~~---i~G~nGsGKSTLl~~i~G~~~~~~G~i   57 (220)
T cd03265          22 RVRRGEIFG---LLGPNGAGKTTTIKMLTTLLKPTSGRA   57 (220)
T ss_pred             EECCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            345777777   89999999999999998643   3555

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. 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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.51  E-value=0.014  Score=43.51  Aligned_cols=31  Identities=10%  Similarity=-0.151  Sum_probs=25.2

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|+|||+|..-|+.-.   .|+|
T Consensus        25 ~~G~~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~i   58 (211)
T cd03225          25 KKGEFVL---IVGPNGSGKSTLLRLLNGLLGPTSGEV   58 (211)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhcCCCCCCceE
Confidence            4677777   89999999999999998654   4666

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.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.51  E-value=0.014  Score=43.41  Aligned_cols=31  Identities=3%  Similarity=-0.212  Sum_probs=25.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .|++++.   |+||.|||||+|..-||...   .|+|
T Consensus        24 ~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (195)
T PRK13541         24 LPSAITY---IKGANGCGKSSLLRMIAGIMQPSSGNI   57 (195)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            5777777   89999999999999998754   3666

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=95.49  E-value=0.0099  Score=52.90  Aligned_cols=26  Identities=8%  Similarity=-0.050  Sum_probs=23.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      ++|++||.|+|||.+|..||+.++++
T Consensus        48 a~L~~Gp~GvGKTt~Ar~lAk~L~c~   73 (598)
T PRK09111         48 AFMLTGVRGVGKTTTARILARALNYE   73 (598)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhCcC
Confidence            56699999999999999999998754

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=95.49  E-value=0.007  Score=48.50  Aligned_cols=23  Identities=4%  Similarity=-0.192  Sum_probs=18.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||+|+|||.++..+++.+
T Consensus        42 ~i~I~G~~GtGKT~l~~~~~~~l   64 (365)
T TIGR02928        42 NVFIYGKTGTGKTAVTKYVMKEL   64 (365)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            34569999999999999888653

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.49  E-value=0.013  Score=43.13  Aligned_cols=33  Identities=6%  Similarity=-0.125  Sum_probs=25.7

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-.   .|.|
T Consensus        14 ~i~~Ge~~~---i~G~nGsGKSTLl~~i~G~~~~~~G~i   49 (190)
T TIGR01166        14 AAERGEVLA---LLGANGAGKSTLLLHLNGLLRPQSGAV   49 (190)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceeE
Confidence            345778877   99999999999998888543   3555

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.

>PRK11784 tRNA 2-selenouridine synthase; Provisional

Probab=95.49  E-value=0.015  Score=48.50  Aligned_cols=48  Identities=6%  Similarity=-0.132  Sum_probs=38.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCC---ceecCCCCHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGL---DVITNKVTPEE   74 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgl---dIgTAKPs~eE   74 (115)
                      +++.|+||||||.+.-.|++. +..+ |.+-+..=|+|=   .++.++||.+.
T Consensus       144 ivl~G~TGsGKT~iL~~L~~~-~~~v-lDlE~~aehrGS~fG~~~~~qpsQ~~  194 (345)
T PRK11784        144 VVLGGNTGSGKTELLQALANA-GAQV-LDLEGLANHRGSSFGRLGGPQPSQKD  194 (345)
T ss_pred             EecCCCCcccHHHHHHHHHhc-CCeE-EECCchhhhccccccCCCCCCcchHH
Confidence            468999999999999999765 4457 888888888883   56678888765

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.48  E-value=0.076  Score=40.88  Aligned_cols=27  Identities=7%  Similarity=-0.055  Sum_probs=22.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.+++.   |+||+|||||+|..-||.-.
T Consensus        31 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         31 LKNSITA---LIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccc
Confidence            4667776   89999999999999998643

>PF13479 AAA_24: AAA domain

Probab=95.48  E-value=0.015  Score=44.43  Aligned_cols=30  Identities=13%  Similarity=0.072  Sum_probs=22.4

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      +.++|.||.|+|||.+|..+   -+..+ |++|.
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~---~k~l~-id~E~   33 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL---PKPLF-IDTEN   33 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC---CCeEE-EEeCC
Confidence            46789999999999999888   22233 66543

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.48  E-value=0.0081  Score=52.48  Aligned_cols=25  Identities=12%  Similarity=-0.121  Sum_probs=21.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      ++|++||.|+|||++|.-+|+.++.
T Consensus        37 a~Lf~Gp~G~GKTT~ArilAk~LnC   61 (491)
T PRK14964         37 SILLVGASGVGKTTCARIISLCLNC   61 (491)
T ss_pred             eEEEECCCCccHHHHHHHHHHHHcC
Confidence            4559999999999999999998754

>cd00880 Era_like Era (E

Probab=95.47  E-value=0.009  Score=39.67  Aligned_cols=20  Identities=5%  Similarity=-0.223  Sum_probs=17.6

Q ss_pred             eeccCCCchhHHHHHHhcCC
Q psy7554          27 SCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~~   46 (115)
                      |+|++|||||+|...|....
T Consensus         1 i~G~~gsGKstl~~~l~~~~   20 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQE   20 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCcc
Confidence            58999999999999998763

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=95.47  E-value=0.0098  Score=48.22  Aligned_cols=23  Identities=9%  Similarity=-0.022  Sum_probs=19.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||+|+|||.++..+++.+
T Consensus        57 ~~lI~G~~GtGKT~l~~~v~~~l   79 (394)
T PRK00411         57 NVLIYGPPGTGKTTTVKKVFEEL   79 (394)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            34579999999999999998755

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=95.47  E-value=0.018  Score=49.15  Aligned_cols=36  Identities=11%  Similarity=-0.223  Sum_probs=27.6

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEeec
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRTY   53 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~Is   53 (115)
                      +=.|.+.+.   |+||+|||||+|..-|+.-.   .|+|.++
T Consensus       362 ~i~~Ge~i~---IvG~sGsGKSTLlklL~gl~~p~~G~I~i~  400 (576)
T TIGR02204       362 TVRPGETVA---LVGPSGAGKSTLFQLLLRFYDPQSGRILLD  400 (576)
T ss_pred             EecCCCEEE---EECCCCCCHHHHHHHHHhccCCCCCEEEEC
Confidence            445667666   99999999999999888654   4676454

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>TIGR00959 ffh signal recognition particle protein

Probab=95.47  E-value=0.015  Score=49.98  Aligned_cols=31  Identities=6%  Similarity=-0.228  Sum_probs=24.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCC------CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP------DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~------~~eI~IsaDS   56 (115)
                      ++++||+|||||+++.+||..+      ...+ |++|.
T Consensus       102 i~~vG~~GsGKTTtaakLA~~l~~~~g~kV~l-V~~D~  138 (428)
T TIGR00959       102 ILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLL-VACDL  138 (428)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHhCCCeEEE-Eeccc
Confidence            4589999999999988888552      2346 99996

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

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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=95.47  E-value=0.014  Score=44.36  Aligned_cols=33  Identities=3%  Similarity=-0.237  Sum_probs=25.9

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        22 ~i~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~p~~G~i   57 (235)
T cd03261          22 DVRRGEILA---IIGPSGSGKSTLLRLIVGLLRPDSGEV   57 (235)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            345677776   89999999999999998654   4666

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.

>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=95.46  E-value=0.017  Score=41.37  Aligned_cols=30  Identities=10%  Similarity=-0.035  Sum_probs=24.7

Q ss_pred             ccCCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          14 LTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        14 ~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++-.|.+++.   |+||+|+|||+|..-|+..+
T Consensus        20 ~~i~~g~~~~---i~G~nGsGKStll~~l~g~~   49 (157)
T cd00267          20 LTLKAGEIVA---LVGPNGSGKSTLLRAIAGLL   49 (157)
T ss_pred             EEEcCCCEEE---EECCCCCCHHHHHHHHhCCC
Confidence            4456778877   99999999999999998654

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.

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

Probab=95.46  E-value=0.0099  Score=54.04  Aligned_cols=27  Identities=11%  Similarity=0.007  Sum_probs=23.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++++.||+|+|||.||..+|+..+...
T Consensus        54 slLL~GPpGtGKTTLA~aIA~~~~~~f   80 (725)
T PRK13341         54 SLILYGPPGVGKTTLARIIANHTRAHF   80 (725)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCcc
Confidence            678899999999999999998887643

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.46  E-value=0.013  Score=39.66  Aligned_cols=21  Identities=5%  Similarity=-0.167  Sum_probs=18.4

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +.|+||.++|||+|...|...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            467999999999999999765

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.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=95.45  E-value=0.014  Score=44.00  Aligned_cols=31  Identities=3%  Similarity=-0.284  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-||.-.   .|+|
T Consensus        34 ~~Ge~~~---i~G~nGsGKSTLl~~i~Gl~~p~~G~i   67 (228)
T PRK10584         34 KRGETIA---LIGESGSGKSTLLAILAGLDDGSSGEV   67 (228)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHcCCCCCCeeE
Confidence            5677777   99999999999999998654   4666

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=95.45  E-value=0.013  Score=47.06  Aligned_cols=24  Identities=13%  Similarity=0.029  Sum_probs=18.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +|++||+|+|||.+....=+.++.
T Consensus        36 vLl~G~~GtGKT~li~~~l~~l~~   59 (272)
T PF12775_consen   36 VLLVGPSGTGKTSLIQNFLSSLDS   59 (272)
T ss_dssp             EEEESSTTSSHHHHHHHHHHCSTT
T ss_pred             EEEECCCCCchhHHHHhhhccCCc
Confidence            456999999999998776666543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.45  E-value=0.0085  Score=46.61  Aligned_cols=24  Identities=4%  Similarity=-0.011  Sum_probs=20.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++|+|+.|||||++..++|+.+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHH
Confidence            467899999999999999999654

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.44  E-value=0.014  Score=43.49  Aligned_cols=31  Identities=3%  Similarity=-0.165  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .|.+++.   |+||.|||||+|..-||.-.   .|+|
T Consensus        24 ~~G~~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (210)
T cd03269          24 EKGEIFG---LLGPNGAGKTTTIRMILGIILPDSGEV   57 (210)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            4677776   89999999999999998643   4665

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. 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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.44  E-value=0.01  Score=55.62  Aligned_cols=29  Identities=14%  Similarity=0.012  Sum_probs=24.7

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      +--.+|++||.|+|||.+|..+|+.++++
T Consensus        37 l~HAyLFtGPpGtGKTTLARiLAk~Lnce   65 (944)
T PRK14949         37 LHHAYLFTGTRGVGKTSLARLFAKGLNCE   65 (944)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhccCc
Confidence            33445699999999999999999999875

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=95.44  E-value=0.015  Score=43.91  Aligned_cols=29  Identities=7%  Similarity=-0.170  Sum_probs=23.7

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-.
T Consensus        22 ~i~~Ge~~~---i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          22 DIPKGEITA---LIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHHhhc
Confidence            335777777   89999999999998888654

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=95.43  E-value=0.015  Score=41.33  Aligned_cols=25  Identities=8%  Similarity=0.042  Sum_probs=21.3

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++-++++|+.++|||+|..++...
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~   26 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSED   26 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhC
Confidence            3456889999999999999999854

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

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.43  E-value=0.008  Score=44.35  Aligned_cols=22  Identities=9%  Similarity=-0.079  Sum_probs=18.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+|++|||||+|+.+|++.+
T Consensus         2 i~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         2 LQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            3579999999999988888754

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.

>PHA02624 large T antigen; Provisional

Probab=95.42  E-value=0.013  Score=53.10  Aligned_cols=47  Identities=17%  Similarity=0.006  Sum_probs=35.6

Q ss_pred             eccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeecc----ceeeeccC
Q psy7554          13 LLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ----VYLMVYKG   62 (115)
Q Consensus        13 ~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~Isa----DSmQVYkg   62 (115)
                      ++.|.|+.=++  ++.||-+||||.|+..|++.++|.+ +|+    |..|+.-+
T Consensus       424 ~l~giPKk~~i--l~~GPpnTGKTtf~~sLl~~L~G~v-lsVNsPt~ks~FwL~  474 (647)
T PHA02624        424 IVENVPKRRYW--LFKGPVNSGKTTLAAALLDLCGGKS-LNVNCPPDKLNFELG  474 (647)
T ss_pred             HHhcCCCCeEE--EEECCCCCCHHHHHHHHHHHcCCeE-EEeeCCcchhHHHhh
Confidence            46777774333  5899999999999999999998888 665    44554433

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.42  E-value=0.014  Score=43.55  Aligned_cols=32  Identities=3%  Similarity=-0.287  Sum_probs=25.6

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++.   |+||.|||||+|..-||.-.   .|+|
T Consensus        23 i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~i   57 (205)
T cd03226          23 LYAGEIIA---LTGKNGAGKTTLAKILAGLIKESSGSI   57 (205)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            35777777   89999999999999998654   4666

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most 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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=95.41  E-value=0.012  Score=46.81  Aligned_cols=31  Identities=13%  Similarity=0.107  Sum_probs=25.3

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .|.....||   +.||.|+|||.+|..+|+.+.+
T Consensus        32 ~~~~~~~~L---l~G~~G~GKt~~a~~la~~l~~   62 (355)
T TIGR02397        32 NGRIAHAYL---FSGPRGTGKTSIARIFAKALNC   62 (355)
T ss_pred             cCCCCeEEE---EECCCCCCHHHHHHHHHHHhcC
Confidence            455555555   9999999999999999988754

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.

>PLN02796 D-glycerate 3-kinase

Probab=95.41  E-value=0.012  Score=49.50  Aligned_cols=33  Identities=6%  Similarity=-0.221  Sum_probs=26.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-----ceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSmQ   58 (115)
                      +-|+||+|||||+|+..|+..+.     ... |+.|..-
T Consensus       103 IGI~G~sGSGKSTLa~~L~~lL~~~g~~~g~-IsiDdfY  140 (347)
T PLN02796        103 IGISAPQGCGKTTLVFALVYLFNATGRRAAS-LSIDDFY  140 (347)
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcccCCceeE-EEECCcc
Confidence            56899999999999999987664     234 7888754

>CHL00176 ftsH cell division protein; Validated

Probab=95.41  E-value=0.011  Score=52.88  Aligned_cols=32  Identities=6%  Similarity=-0.124  Sum_probs=26.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+.||+|+|||.||..+|...+... ++.+.
T Consensus       218 gVLL~GPpGTGKT~LAralA~e~~~p~-i~is~  249 (638)
T CHL00176        218 GVLLVGPPGTGKTLLAKAIAGEAEVPF-FSISG  249 (638)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCe-eeccH
Confidence            466799999999999999999988776 55543

>TIGR01587 cas3_core CRISPR-associated helicase Cas3

Probab=95.40  E-value=0.011  Score=47.24  Aligned_cols=19  Identities=5%  Similarity=-0.059  Sum_probs=15.5

Q ss_pred             eeeeccCCCchhHHHHHHh
Q psy7554          25 YLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA   43 (115)
                      ++|.+|||||||..+...+
T Consensus         2 vvi~apTGsGKT~~~~~~~   20 (358)
T TIGR01587         2 LVIEAPTGYGKTEAALLWA   20 (358)
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            4689999999998766655

This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=95.40  E-value=0.015  Score=43.51  Aligned_cols=31  Identities=3%  Similarity=-0.239  Sum_probs=24.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        27 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~~~~G~i   60 (216)
T TIGR00960        27 TKGEMVF---LVGHSGAGKSTFLKLILGIEKPTRGKI   60 (216)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            4667776   89999999999999998654   4665

>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends

Probab=95.40  E-value=0.021  Score=43.28  Aligned_cols=34  Identities=12%  Similarity=0.156  Sum_probs=24.9

Q ss_pred             eeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554           9 YQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus         9 ~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -.+++--+.+++++.   |.||+|||||.|.-.|+-.
T Consensus        18 ~~i~~~~~~~~~~~~---i~G~NGsGKSTll~~i~~~   51 (213)
T cd03279          18 QVIDFTGLDNNGLFL---ICGPTGAGKSTILDAITYA   51 (213)
T ss_pred             eEEeCCCCCccCEEE---EECCCCCCHHHHHHHheee
Confidence            345544455567776   9999999999998877743

They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.

>cd04110 Rab35 Rab35 subfamily

Probab=95.39  E-value=0.019  Score=42.56  Aligned_cols=23  Identities=13%  Similarity=0.095  Sum_probs=20.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+.+||||+|...+...
T Consensus         7 ~kivvvG~~~vGKTsli~~l~~~   29 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFADN   29 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            56899999999999999999864

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

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=95.39  E-value=0.015  Score=44.47  Aligned_cols=32  Identities=6%  Similarity=-0.205  Sum_probs=25.5

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++.   |+||.|||||+|..-||.-.   .|+|
T Consensus        25 i~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   59 (242)
T PRK11124         25 CPQGETLV---LLGPSGAGKSSLLRVLNLLEMPRSGTL   59 (242)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            35677777   89999999999999998653   4555

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.39  E-value=0.014  Score=40.76  Aligned_cols=21  Identities=14%  Similarity=0.167  Sum_probs=18.4

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|+.+||||+|..++...
T Consensus         3 i~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        3 LVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999999753

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd01870 RhoA_like RhoA-like subfamily

Probab=95.38  E-value=0.014  Score=41.24  Aligned_cols=23  Identities=0%  Similarity=-0.078  Sum_probs=19.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|+|+.+||||+|...+....
T Consensus         3 ki~iiG~~~~GKTsl~~~~~~~~   25 (175)
T cd01870           3 KLVIVGDGACGKTCLLIVFSKDQ   25 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36789999999999999999753

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. 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. RhoA and RhoC are observed only in geranyl

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=95.37  E-value=0.015  Score=43.81  Aligned_cols=31  Identities=3%  Similarity=-0.209  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|.|
T Consensus        28 ~~G~~~~---i~G~nGsGKSTLl~~l~Gl~~~~~G~i   61 (220)
T cd03293          28 EEGEFVA---LVGPSGCGKSTLLRIIAGLERPTSGEV   61 (220)
T ss_pred             eCCcEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            4667776   89999999999999998653   4665

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.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.37  E-value=0.0096  Score=53.28  Aligned_cols=31  Identities=13%  Similarity=0.008  Sum_probs=26.1

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      +.+--++|+.||.|+|||.+|..+|+.++++
T Consensus        35 ~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~   65 (620)
T PRK14954         35 DRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ   65 (620)
T ss_pred             CCCCeeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            3454567799999999999999999999874

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=95.37  E-value=0.015  Score=40.19  Aligned_cols=20  Identities=10%  Similarity=-0.006  Sum_probs=17.8

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++++|+++||||+|...+..
T Consensus         3 i~~~G~~~~GKTsl~~~l~~   22 (164)
T cd04139           3 VIVVGAGGVGKSALTLQFMY   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            57899999999999999874

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

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.36  E-value=0.064  Score=42.76  Aligned_cols=63  Identities=16%  Similarity=0.142  Sum_probs=40.1

Q ss_pred             eeccCCCchhHHHHHHhc---CCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCC----CccCHHHHHH
Q psy7554          27 SCLPDSVCPHAHQVDLTD---GPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPN----TRFTVVDYRN   99 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~---~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~----e~ySv~~F~~   99 (115)
                      |+||+|||||+|---|+-   --.|.+        .+.|-|+  .+.+.+++...+-.-++++-.+    ..+||.+...
T Consensus        36 I~GpSGSGKSTLLniig~ld~pt~G~v--------~i~g~d~--~~l~~~~~~~~R~~~iGfvFQ~~nLl~~ltv~ENv~  105 (226)
T COG1136          36 IVGPSGSGKSTLLNLLGGLDKPTSGEV--------LINGKDL--TKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLENVE  105 (226)
T ss_pred             EECCCCCCHHHHHHHHhcccCCCCceE--------EECCEEc--CcCCHHHHHHHHHHhEEEECccCCCCCCCCHHHHHH
Confidence            799999999999665542   223444        2233222  2335667776776777777655    6677777776

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=95.35  E-value=0.016  Score=44.02  Aligned_cols=32  Identities=6%  Similarity=-0.222  Sum_probs=25.0

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.|.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        30 i~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   64 (225)
T PRK10247         30 LRAGEFKL---ITGPSGCGKSTLLKIVASLISPTSGTL   64 (225)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhcccCCCCCeE
Confidence            34677776   99999999999999888533   4666

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.35  E-value=0.011  Score=54.01  Aligned_cols=25  Identities=16%  Similarity=-0.000  Sum_probs=22.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      ++|++||.|+|||.+|..+|+.+++
T Consensus        39 AyLF~GPpGvGKTTlAriLAK~LnC   63 (702)
T PRK14960         39 AYLFTGTRGVGKTTIARILAKCLNC   63 (702)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4459999999999999999999875

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=95.35  E-value=0.044  Score=44.84  Aligned_cols=27  Identities=4%  Similarity=-0.197  Sum_probs=22.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.+++.   |+|++|||||+|+.-|+.-+
T Consensus        40 ~~Ge~~~---ivG~sGsGKSTL~~~l~Gl~   66 (330)
T PRK09473         40 RAGETLG---IVGESGSGKSQTAFALMGLL   66 (330)
T ss_pred             cCCCEEE---EECCCCchHHHHHHHHHcCC
Confidence            4667776   89999999999999998654

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=95.35  E-value=0.018  Score=44.74  Aligned_cols=63  Identities=10%  Similarity=-0.192  Sum_probs=45.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce--eeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY--LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVD   96 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS--mQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~   96 (115)
                      |-++|-.|||||++|--+++ +|..+ |+||.  .|+|..-       ++.-...+.|...++++.+..++...
T Consensus         5 IglTG~igsGKStva~~~~~-~G~~v-idaD~v~r~~~~~~-------~~~~~~i~~~fG~~i~~~dg~~~r~~   69 (201)
T COG0237           5 IGLTGGIGSGKSTVAKILAE-LGFPV-IDADDVAREVVEPG-------GEALQEIAERFGLEILDEDGGLDRRK   69 (201)
T ss_pred             EEEecCCCCCHHHHHHHHHH-cCCeE-EEccHHHHHHHhcc-------chHHHHHHHHcCCcccCCCchhHHHH
Confidence            45799999999999999998 88899 99995  5777653       22223345677777777665555443

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=95.34  E-value=0.022  Score=48.91  Aligned_cols=33  Identities=9%  Similarity=-0.218  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      .|++.+-   |+||||||||+|+.-|.+-+   .|+|.|
T Consensus       353 ~~Ge~va---iVG~sGsGKSTl~~LL~r~~~~~~G~I~i  388 (567)
T COG1132         353 EPGEKVA---IVGPSGSGKSTLIKLLLRLYDPTSGEILI  388 (567)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccCCCCCCeEEE
Confidence            4556665   79999999999998888655   467744

>PRK13768 GTPase; Provisional

Probab=95.34  E-value=0.02  Score=45.16  Aligned_cols=33  Identities=9%  Similarity=-0.197  Sum_probs=24.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC-----CceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSm   57 (115)
                      .+++.||.|||||+++..++..+     +..+ |+.|.-
T Consensus         4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~-i~~D~~   41 (253)
T PRK13768          4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAI-VNLDPA   41 (253)
T ss_pred             EEEEECCCCccHHHHHHHHHHHHHhcCCceEE-EECCCc
Confidence            36789999999999888777543     3445 888863

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.34  E-value=0.016  Score=43.26  Aligned_cols=31  Identities=6%  Similarity=-0.144  Sum_probs=24.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        26 ~~G~~~~---l~G~nGsGKSTLl~~i~Gl~~~~~G~i   59 (214)
T TIGR02673        26 RKGEFLF---LTGPSGAGKTTLLKLLYGALTPSRGQV   59 (214)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            4667766   89999999999999888653   4666

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd01868 Rab11_like Rab11-like

Probab=95.33  E-value=0.018  Score=40.41  Aligned_cols=23  Identities=9%  Similarity=-0.057  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+.+||||+|..++..+
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~   26 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRN   26 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999999744

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.33  E-value=0.016  Score=44.47  Aligned_cols=28  Identities=0%  Similarity=-0.210  Sum_probs=23.4

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +=.|.+++.   |+||+|||||+|..-||.-
T Consensus        24 ~i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl   51 (246)
T PRK14269         24 QIEQNKITA---LIGASGCGKSTFLRCFNRM   51 (246)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhcc
Confidence            335778877   9999999999999999854

>PRK10908 cell division protein FtsE; Provisional

Probab=95.32  E-value=0.017  Score=43.55  Aligned_cols=33  Identities=3%  Similarity=-0.233  Sum_probs=26.0

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-|+...   .|+|
T Consensus        24 ~i~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   59 (222)
T PRK10908         24 HMRPGEMAF---LTGHSGAGKSTLLKLICGIERPSAGKI   59 (222)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            335777777   89999999999999998654   3555

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.32  E-value=0.017  Score=42.82  Aligned_cols=31  Identities=3%  Similarity=-0.257  Sum_probs=24.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|+|||+|..-||.-+   .|+|
T Consensus        22 ~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   55 (206)
T TIGR03608        22 EKGKMYA---IIGESGSGKSTLLNIIGLLEKFDSGQV   55 (206)
T ss_pred             eCCcEEE---EECCCCCCHHHHHHHHhcCCCCCCeEE
Confidence            4667766   89999999999999998654   4655

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd00876 Ras Ras family

Probab=95.32  E-value=0.016  Score=39.74  Aligned_cols=21  Identities=14%  Similarity=0.137  Sum_probs=18.2

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|+||.+||||.|.-.+...
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999888643

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

>KOG3354|consensus

Probab=95.31  E-value=0.011  Score=46.15  Aligned_cols=32  Identities=9%  Similarity=-0.158  Sum_probs=27.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++++|+.|||||+++-.|+++++..- +-+|-.
T Consensus        15 i~vmGvsGsGKSTigk~L~~~l~~~F-~dgDd~   46 (191)
T KOG3354|consen   15 IVVMGVSGSGKSTIGKALSEELGLKF-IDGDDL   46 (191)
T ss_pred             EEEEecCCCChhhHHHHHHHHhCCcc-cccccC
Confidence            34699999999999999999999877 666643

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=95.30  E-value=0.016  Score=44.27  Aligned_cols=32  Identities=3%  Similarity=-0.242  Sum_probs=25.4

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        25 i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~~~~G~i   59 (239)
T cd03296          25 IPSGELVA---LLGPSGSGKTTLLRLIAGLERPDSGTI   59 (239)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            35677777   89999999999999998654   4665

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). 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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=95.30  E-value=0.0081  Score=51.39  Aligned_cols=44  Identities=11%  Similarity=-0.037  Sum_probs=30.1

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC-----CceEeeccceeeeccC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYLMVYKG   62 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSmQVYkg   62 (115)
                      |...|..++|.|++|+|||.|+..++..+     +..+ +...+.++.+.
T Consensus       137 ~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v-~yv~~~~f~~~  185 (450)
T PRK14087        137 PGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKV-SYMSGDEFARK  185 (450)
T ss_pred             cCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeE-EEEEHHHHHHH
Confidence            44567788899999999999998887632     3444 44444444444

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=95.30  E-value=0.028  Score=43.44  Aligned_cols=27  Identities=4%  Similarity=-0.287  Sum_probs=22.1

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      =.|.+++.   |+||.|+|||+|..-|+.-
T Consensus        26 i~~Ge~~~---l~G~nGsGKSTLl~~l~Gl   52 (254)
T PRK10418         26 LQRGRVLA---LVGGSGSGKSLTCAAALGI   52 (254)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhCC
Confidence            34666666   8999999999999988854

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=95.29  E-value=0.018  Score=42.76  Aligned_cols=31  Identities=6%  Similarity=-0.136  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.++|.   |+||.|||||+|..-|+...   .|+|
T Consensus        24 ~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (198)
T TIGR01189        24 NAGEALQ---VTGPNGIGKTTLLRILAGLLRPDSGEV   57 (198)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCCCCCccEE
Confidence            4677777   89999999999999888654   4666

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.29  E-value=0.018  Score=43.20  Aligned_cols=31  Identities=6%  Similarity=-0.151  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        26 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~~~~G~i   59 (220)
T cd03263          26 YKGEIFG---LLGHNGAGKTTTLKMLTGELRPTSGTA   59 (220)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            4667766   89999999999999998543   4666

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.

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

Probab=95.29  E-value=0.011  Score=51.59  Aligned_cols=25  Identities=12%  Similarity=-0.250  Sum_probs=21.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      +++.||+|+|||.+|..||+.+.++
T Consensus       197 iil~GppGtGKT~lA~~la~~l~~~  221 (459)
T PRK11331        197 IILQGPPGVGKTFVARRLAYLLTGE  221 (459)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Confidence            4459999999999999999988663

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.29  E-value=0.015  Score=44.91  Aligned_cols=20  Identities=5%  Similarity=-0.230  Sum_probs=17.1

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++|.||+|||||.||.+++.
T Consensus        24 ~lI~G~pGsGKT~la~~~l~   43 (237)
T TIGR03877        24 VLLSGGPGTGKSIFSQQFLW   43 (237)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            44999999999999988664

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=95.29  E-value=0.013  Score=47.95  Aligned_cols=27  Identities=7%  Similarity=-0.200  Sum_probs=23.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      -++|+|+.|||||.|+..|++.++..+
T Consensus       164 ~~~~~G~~~~gkstl~~~l~~~~~~~~  190 (325)
T TIGR01526       164 TVAILGGESTGKSTLVNKLAAVFNTTS  190 (325)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCCE
Confidence            456899999999999999998876544

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=95.29  E-value=0.016  Score=45.67  Aligned_cols=29  Identities=10%  Similarity=-0.087  Sum_probs=23.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+|+.|+|||.+|..|+.  ...+ ++.|.
T Consensus        15 ~liyG~~G~GKtt~a~~~~~--~~~~-~~~d~   43 (220)
T TIGR01618        15 YLIYGKPGTGKTSTIKYLPG--KTLV-LSFDM   43 (220)
T ss_pred             EEEECCCCCCHHHHHHhcCC--CCEE-Eeccc
Confidence            56899999999999999962  2445 77775

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=95.29  E-value=0.0094  Score=48.69  Aligned_cols=23  Identities=4%  Similarity=-0.203  Sum_probs=18.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++.||+|+|||.|+..+|..+
T Consensus       158 gl~L~G~~G~GKThLa~Aia~~l  180 (306)
T PRK08939        158 GLYLYGDFGVGKSYLLAAIANEL  180 (306)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            34459999999999988888654

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=95.27  E-value=0.021  Score=40.14  Aligned_cols=23  Identities=13%  Similarity=0.078  Sum_probs=19.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .-++++|+.+||||+|..++..+
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999999753

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

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.26  E-value=0.018  Score=42.84  Aligned_cols=31  Identities=6%  Similarity=-0.148  Sum_probs=25.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        24 ~~G~~~~---i~G~nGsGKSTLl~~l~Gl~~~~~G~i   57 (208)
T cd03268          24 KKGEIYG---FLGPNGAGKTTTMKIILGLIKPDSGEI   57 (208)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCcCCCceEE
Confidence            4667776   89999999999999988543   4666

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>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=95.26  E-value=0.018  Score=42.06  Aligned_cols=31  Identities=6%  Similarity=-0.160  Sum_probs=24.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-||...   .|.|
T Consensus        26 ~~Ge~~~---i~G~nGsGKStLl~~l~G~~~~~~G~i   59 (173)
T cd03246          26 EPGESLA---IIGPSGSGKSTLARLILGLLRPTSGRV   59 (173)
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHHhccCCCCCeE
Confidence            3556665   89999999999999998643   4655

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

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.26  E-value=0.025  Score=42.19  Aligned_cols=24  Identities=8%  Similarity=-0.213  Sum_probs=20.2

Q ss_pred             eeccCCCchhHHHHHHhcCC---CceE
Q psy7554          27 SCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      |+||.|||||+|..-|+.-+   .|+|
T Consensus        30 i~G~nGsGKSTLl~~l~Gl~~~~~G~i   56 (211)
T cd03264          30 LLGPNGAGKTTLMRILATLTPPSSGTI   56 (211)
T ss_pred             EECCCCCCHHHHHHHHhCCCCCCccEE
Confidence            89999999999999998543   4666

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. 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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.26  E-value=0.012  Score=53.64  Aligned_cols=27  Identities=15%  Similarity=-0.033  Sum_probs=23.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      -++|++||.|+|||.+|..||+.++++
T Consensus        39 Ha~Lf~GP~GvGKTTlAriLAk~LnC~   65 (709)
T PRK08691         39 HAYLLTGTRGVGKTTIARILAKSLNCE   65 (709)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhccc
Confidence            345699999999999999999998764

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=95.26  E-value=0.011  Score=53.08  Aligned_cols=26  Identities=8%  Similarity=0.073  Sum_probs=22.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      -++|+.||.|+|||.+|..+|+.+++
T Consensus        39 hA~Lf~GP~GvGKTTlA~~lAk~L~C   64 (605)
T PRK05896         39 HAYIFSGPRGIGKTSIAKIFAKAINC   64 (605)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            45669999999999999999998864

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=95.26  E-value=0.016  Score=40.50  Aligned_cols=21  Identities=10%  Similarity=-0.134  Sum_probs=18.5

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -++++|+++||||+|...+..
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~   22 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHS   22 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            467899999999999998864

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.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=95.26  E-value=0.017  Score=43.56  Aligned_cols=33  Identities=3%  Similarity=-0.210  Sum_probs=26.0

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +-.|.+++.   |+||.|||||+|..-||.-.   .|+|
T Consensus        22 ~i~~Ge~~~---l~G~nGsGKSTLl~~l~Gl~~p~~G~i   57 (232)
T cd03218          22 SVKQGEIVG---LLGPNGAGKTTTFYMIVGLVKPDSGKI   57 (232)
T ss_pred             EecCCcEEE---EECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            345777777   89999999999999998543   4666

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd04155 Arl3 Arl3 subfamily

Probab=95.25  E-value=0.017  Score=40.83  Aligned_cols=22  Identities=14%  Similarity=-0.055  Sum_probs=19.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++|+||.|||||+|...+...
T Consensus        16 ~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          16 RILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             EEEEEccCCCCHHHHHHHHhcC
Confidence            3678999999999999999875

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=95.25  E-value=0.027  Score=44.06  Aligned_cols=39  Identities=10%  Similarity=0.021  Sum_probs=29.9

Q ss_pred             eeeeeccC--CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554           9 YQVNLLTG--TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus         9 ~~~~~~~~--~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +.++...|  .+.+++.   |+||.|||||+|..-||.-.   .|+|
T Consensus        13 ~~l~~~~~~i~~Ge~~~---i~G~NGsGKSTLlk~L~G~~~p~~G~i   56 (246)
T cd03237          13 FTLEVEGGSISESEVIG---ILGPNGIGKTTFIKMLAGVLKPDEGDI   56 (246)
T ss_pred             EEEEEecCCcCCCCEEE---EECCCCCCHHHHHHHHhCCCcCCCCeE
Confidence            45556555  5778877   89999999999999998654   3655

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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 of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=95.25  E-value=0.015  Score=50.84  Aligned_cols=34  Identities=6%  Similarity=-0.221  Sum_probs=30.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      -.+|||    +|.-|||||+++..||++++-.. |-.|.
T Consensus         6 ~~~i~L----iG~~GaGKttvg~~LA~~L~~~f-iD~D~   39 (542)
T PRK14021          6 RPQAVI----IGMMGAGKTRVGKEVAQMMRLPF-ADADV   39 (542)
T ss_pred             CccEEE----ECCCCCCHHHHHHHHHHHhCCCE-EEchH
Confidence            356777    99999999999999999999999 88886

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.25  E-value=0.019  Score=43.11  Aligned_cols=33  Identities=3%  Similarity=-0.295  Sum_probs=25.9

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.|.+++.   |+||.|||||+|..-||...   .|+|
T Consensus        27 ~i~~G~~~~---i~G~nGsGKSTLl~~i~G~~~~~~G~i   62 (221)
T TIGR02211        27 SIGKGEIVA---IVGSSGSGKSTLLHLLGGLDNPTSGEV   62 (221)
T ss_pred             EEcCCcEEE---EECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            335677776   89999999999999998654   4665

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=95.24  E-value=0.095  Score=40.17  Aligned_cols=26  Identities=15%  Similarity=-0.006  Sum_probs=22.3

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      =.|.+++.   |+||.|||||+|..-|+-
T Consensus        26 i~~Ge~~~---i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14240         26 IEENQVTA---LIGPSGCGKSTFLRTLNR   51 (250)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhc
Confidence            35777776   899999999999999985

>cd04135 Tc10 TC10 subfamily

Probab=95.24  E-value=0.017  Score=40.78  Aligned_cols=22  Identities=5%  Similarity=-0.013  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|+.++|||+|...+..+
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~   23 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYAND   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4788999999999999988754

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

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=95.23  E-value=0.019  Score=43.04  Aligned_cols=31  Identities=3%  Similarity=-0.369  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+...   .|+|
T Consensus        28 ~~G~~~~---i~G~nGsGKSTLl~~i~G~~~~~~G~i   61 (220)
T cd03245          28 RAGEKVA---IIGRVGSGKSTLLKLLAGLYKPTSGSV   61 (220)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCcCCCCCeE
Confidence            5777777   89999999999999888653   4666

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=95.22  E-value=0.1  Score=40.89  Aligned_cols=26  Identities=8%  Similarity=-0.106  Sum_probs=22.4

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .|.+++.   |+||.|||||+|..-||.-
T Consensus        49 ~~Ge~~~---I~G~nGsGKSTLl~~laGl   74 (272)
T PRK14236         49 PKNRVTA---FIGPSGCGKSTLLRCFNRM   74 (272)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHhc
Confidence            4677777   9999999999999999855

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.21  E-value=0.017  Score=43.18  Aligned_cols=33  Identities=6%  Similarity=-0.113  Sum_probs=26.1

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        21 ~i~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~p~~G~i   56 (213)
T cd03235          21 EVKPGEFLA---IVGPNGAGKSTLLKAILGLLKPTSGSI   56 (213)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHcCCCCCCCCEE
Confidence            335777777   89999999999999988654   4666

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=95.21  E-value=0.02  Score=41.86  Aligned_cols=34  Identities=12%  Similarity=-0.144  Sum_probs=26.6

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      =.|.+++.   |+||.|||||+|..-|+..+   .|+|.+
T Consensus        24 i~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   60 (166)
T cd03223          24 IKPGDRLL---ITGPSGTGKSSLFRALAGLWPWGSGRIGM   60 (166)
T ss_pred             ECCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence            35777777   99999999999999988664   466633

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>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=95.20  E-value=0.025  Score=42.28  Aligned_cols=35  Identities=11%  Similarity=0.001  Sum_probs=25.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC---Cc-eEeecccee
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP---DL-FCRTYQVYL   57 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~---~~-eI~IsaDSm   57 (115)
                      ..+||.|++||||+.+|..+.+.-   ++ .|.|||-++
T Consensus        23 ~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~   61 (168)
T PF00158_consen   23 LPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAAL   61 (168)
T ss_dssp             S-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS
T ss_pred             CCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhh
Confidence            467889999999999999998643   33 444777544

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 ....

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=95.20  E-value=0.089  Score=41.30  Aligned_cols=28  Identities=11%  Similarity=-0.104  Sum_probs=22.9

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      =.+.+++.   |+||.|||||+|..-|+.-+
T Consensus        47 i~~Ge~~~---I~G~nGsGKSTLl~~i~Gl~   74 (271)
T PRK14238         47 IHENEVTA---IIGPSGCGKSTYIKTLNRMV   74 (271)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHHhhc
Confidence            34667776   89999999999999998643

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=95.20  E-value=0.018  Score=43.65  Aligned_cols=33  Identities=6%  Similarity=-0.161  Sum_probs=25.9

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        22 ~i~~Ge~~~---l~G~nGsGKSTLl~~l~Gl~~~~~G~i   57 (236)
T cd03219          22 SVRPGEIHG---LIGPNGAGKTTLFNLISGFLRPTSGSV   57 (236)
T ss_pred             EecCCcEEE---EECCCCCCHHHHHHHHcCCCCCCCceE
Confidence            335777776   89999999999999998543   4666

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.20  E-value=0.019  Score=42.12  Aligned_cols=36  Identities=11%  Similarity=-0.082  Sum_probs=26.4

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccce---eeecc
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY---LMVYK   61 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDS---mQVYk   61 (115)
                      ++.|+-|+|||.|+..+++.++..-.|+.-+   ++.|.
T Consensus        26 ~l~G~lGaGKTtl~~~l~~~lg~~~~v~SPTf~lv~~Y~   64 (133)
T TIGR00150        26 LLKGDLGAGKTTLVQGLLQGLGIQGNVTSPTFTLVNEYN   64 (133)
T ss_pred             EEEcCCCCCHHHHHHHHHHHcCCCCcccCCCeeeeeecc
Confidence            3799999999999999999987532144433   44464

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.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=95.20  E-value=0.018  Score=43.54  Aligned_cols=33  Identities=9%  Similarity=-0.223  Sum_probs=26.8

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-||.-.   .|+|
T Consensus        22 ~i~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (230)
T TIGR03410        22 EVPKGEVTC---VLGRNGVGKTTLLKTLMGLLPVKSGSI   57 (230)
T ss_pred             EECCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCCEE
Confidence            335778887   99999999999999998554   5776

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.19  E-value=0.019  Score=42.95  Aligned_cols=31  Identities=6%  Similarity=-0.141  Sum_probs=24.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        24 ~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~p~~G~i   57 (213)
T cd03259          24 EPGEFLA---LLGPSGCGKTTLLRLIAGLERPDSGEI   57 (213)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCCCCCCeEE
Confidence            4667766   89999999999999898643   4555

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.18  E-value=0.021  Score=46.09  Aligned_cols=26  Identities=19%  Similarity=0.040  Sum_probs=23.0

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +.+++|.||+|||||+|...|+..+.
T Consensus       111 ~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       111 VLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            46789999999999999999997763

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.

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=95.18  E-value=0.019  Score=44.01  Aligned_cols=31  Identities=10%  Similarity=-0.181  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        29 ~~Ge~~~---l~G~nGsGKSTLl~~l~Gl~~~~~G~i   62 (255)
T PRK11300         29 REQEIVS---LIGPNGAGKTTVFNCLTGFYKPTGGTI   62 (255)
T ss_pred             cCCeEEE---EECCCCCCHHHHHHHHhCCcCCCcceE
Confidence            4677777   89999999999999998654   4666

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=95.18  E-value=0.011  Score=48.69  Aligned_cols=30  Identities=17%  Similarity=0.042  Sum_probs=25.3

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +.+--++|+.||.|+||+.+|..+|+.+.+
T Consensus        19 ~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC   48 (328)
T PRK05707         19 GRHPHAYLLHGPAGIGKRALAERLAAALLC   48 (328)
T ss_pred             CCcceeeeeECCCCCCHHHHHHHHHHHHcC
Confidence            445556779999999999999999998764

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=95.17  E-value=0.015  Score=40.72  Aligned_cols=21  Identities=14%  Similarity=-0.104  Sum_probs=18.3

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|+.++|||+|...|...
T Consensus         2 i~~vG~~~~GKstLi~~l~~~   22 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTL   22 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhh
Confidence            678999999999999888654

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>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=95.17  E-value=0.017  Score=45.53  Aligned_cols=32  Identities=9%  Similarity=-0.028  Sum_probs=21.8

Q ss_pred             eeccCCCchhHHHHHHhcC-----CCceEeeccceeee
Q psy7554          27 SCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLMV   59 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQV   59 (115)
                      |+||-|||||++...+.+-     .+..| ||-|.-.-
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~-vNLDPa~~   37 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYI-VNLDPAVE   37 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEE-EE--TT-S
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceE-EEcchHhc
Confidence            5899999999999888853     34556 99987554

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.17  E-value=0.02  Score=43.88  Aligned_cols=26  Identities=15%  Similarity=-0.077  Sum_probs=22.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .|.+++.   |+||.|||||+|..-|+.-
T Consensus        27 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl   52 (249)
T PRK14253         27 PARQVTA---LIGPSGCGKSTLLRCLNRM   52 (249)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHhh
Confidence            5778887   9999999999999999854

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=95.16  E-value=0.02  Score=43.29  Aligned_cols=31  Identities=3%  Similarity=-0.263  Sum_probs=25.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-||...   .|+|
T Consensus        26 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~i   59 (234)
T cd03251          26 PAGETVA---LVGPSGSGKSTLVNLIPRFYDVDSGRI   59 (234)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhccccCCCCEE
Confidence            4677777   89999999999999888554   4666

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.

>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=95.15  E-value=0.02  Score=41.16  Aligned_cols=31  Identities=3%  Similarity=-0.152  Sum_probs=25.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|+|||+|..-|+.-.   .|+|
T Consensus        24 ~~Ge~~~---i~G~nGsGKStLl~~l~G~~~~~~G~i   57 (144)
T cd03221          24 NPGDRIG---LVGRNGAGKSTLLKLIAGELEPDEGIV   57 (144)
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHcCCCCCCceEE
Confidence            5777877   89999999999999888654   4666

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.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=95.15  E-value=0.02  Score=43.79  Aligned_cols=31  Identities=10%  Similarity=-0.145  Sum_probs=24.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-||..+   .|+|
T Consensus        27 ~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   60 (250)
T PRK11264         27 KPGEVVA---IIGPSGSGKTTLLRCINLLEQPEAGTI   60 (250)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCeEE
Confidence            4667766   89999999999999998654   4665

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.15  E-value=0.021  Score=42.83  Aligned_cols=31  Identities=6%  Similarity=-0.229  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+++++.   |+||.|||||+|..-||...   .|+|
T Consensus        28 ~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   61 (221)
T cd03244          28 KPGEKVG---IVGRTGSGKSSLLLALFRLVELSSGSI   61 (221)
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHHcCCCCCCCEE
Confidence            4677777   89999999999999888543   4666

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.15  E-value=0.012  Score=51.34  Aligned_cols=26  Identities=15%  Similarity=0.079  Sum_probs=22.4

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      -++|++||.|+|||.+|..+|+.++.
T Consensus        37 ha~Lf~GppGtGKTTlA~~lA~~l~c   62 (504)
T PRK14963         37 HAYLFSGPRGVGKTTTARLIAMAVNC   62 (504)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            34569999999999999999998753

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=95.15  E-value=0.02  Score=43.00  Aligned_cols=33  Identities=3%  Similarity=-0.227  Sum_probs=26.2

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |.||.|||||+|..-|+.-.   .|+|
T Consensus        20 ~i~~Ge~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i   55 (213)
T TIGR01277        20 NVADGEIVA---IMGPSGAGKSTLLNLIAGFIEPASGSI   55 (213)
T ss_pred             EEeCCcEEE---EECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            334777777   89999999999999998654   4666

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=95.14  E-value=0.019  Score=43.23  Aligned_cols=35  Identities=9%  Similarity=-0.204  Sum_probs=27.0

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      +=.+.+++.   |+||.|||||+|..-||...   .|+|.+
T Consensus        25 ~i~~G~~~~---i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   62 (229)
T cd03254          25 SIKPGETVA---IVGPTGAGKTTLINLLMRFYDPQKGQILI   62 (229)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhcCcCCCCCEEEE
Confidence            345677776   89999999999999998654   466633

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar 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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.13  E-value=0.015  Score=50.87  Aligned_cols=34  Identities=12%  Similarity=-0.011  Sum_probs=26.2

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcCC----C---ceEeecccee
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDGP----D---LFCRTYQVYL   57 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~~----~---~eI~IsaDSm   57 (115)
                      +|+.   ++||||+|||+++.+||..+    +   .-+ |.+|..
T Consensus       257 ~Vi~---LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~L-I~~Dt~  297 (484)
T PRK06995        257 GVFA---LMGPTGVGKTTTTAKLAARCVMRHGASKVAL-LTTDSY  297 (484)
T ss_pred             cEEE---EECCCCccHHHHHHHHHHHHHHhcCCCeEEE-EeCCcc
Confidence            5665   89999999999999999533    2   235 888884

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.13  E-value=0.019  Score=43.65  Aligned_cols=32  Identities=3%  Similarity=-0.332  Sum_probs=24.6

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        32 i~~Ge~~~---l~G~nGsGKSTLl~~l~Gl~~~~~G~i   66 (233)
T PRK11629         32 IGEGEMMA---IVGSSGSGKSTLLHLLGGLDTPTSGDV   66 (233)
T ss_pred             EcCCcEEE---EECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            34666666   89999999999999998653   3555

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=95.12  E-value=0.019  Score=44.17  Aligned_cols=25  Identities=16%  Similarity=0.015  Sum_probs=21.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .+.+++.   |+||+|||||+|..-|+.
T Consensus        30 ~~Ge~~~---i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14242         30 EQNQVTA---LIGPSGCGKSTFLRCLNR   54 (253)
T ss_pred             eCCCEEE---EECCCCCCHHHHHHHHHh
Confidence            5667776   899999999999999984

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

Probab=95.12  E-value=0.022  Score=41.54  Aligned_cols=31  Identities=10%  Similarity=-0.197  Sum_probs=25.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .|.+++.   |+||.|||||+|..-||--.   .|+|
T Consensus        26 ~~G~~~~---l~G~nGsGKstLl~~i~G~~~~~~G~i   59 (171)
T cd03228          26 KPGEKVA---IVGPSGSGKSTLLKLLLRLYDPTSGEI   59 (171)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHcCCCCCCCEE
Confidence            4677776   89999999999998888654   4666

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.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.12  E-value=0.021  Score=43.88  Aligned_cols=31  Identities=6%  Similarity=-0.116  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-||.-+   .|+|
T Consensus        27 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~i   60 (241)
T PRK14250         27 EGGAIYT---IVGPSGAGKSTLIKLINRLIDPTEGSI   60 (241)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            4667766   89999999999999998654   4666

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.12  E-value=0.11  Score=40.35  Aligned_cols=28  Identities=11%  Similarity=-0.117  Sum_probs=22.9

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-
T Consensus        34 ~i~~Ge~~~---i~G~nGsGKSTLl~~i~Gl   61 (258)
T PRK14268         34 QIPKNSVTA---LIGPSGCGKSTFIRCLNRM   61 (258)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHhcC
Confidence            345667766   8999999999999999854

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=95.12  E-value=0.022  Score=39.57  Aligned_cols=23  Identities=9%  Similarity=0.049  Sum_probs=19.4

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|++++|||+|...+...
T Consensus         3 ~ki~i~G~~~~GKtsl~~~~~~~   25 (164)
T cd04145           3 YKLVVVGGGGVGKSALTIQFIQS   25 (164)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhC
Confidence            35789999999999998887643

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

>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A

Probab=95.11  E-value=0.017  Score=41.38  Aligned_cols=21  Identities=5%  Similarity=-0.091  Sum_probs=16.0

Q ss_pred             eeeccCCCchhHHHHHHhcCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~   46 (115)
                      +|+||+|+|||.+.-.|.-.+
T Consensus        23 vi~G~Ng~GKStil~ai~~~L   43 (202)
T PF13476_consen   23 VIYGPNGSGKSTILEAIRYAL   43 (202)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            489999999999955554333

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=95.10  E-value=0.028  Score=48.19  Aligned_cols=33  Identities=6%  Similarity=-0.338  Sum_probs=25.6

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC---CceEeec
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRTY   53 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~Is   53 (115)
                      |.|.+.   |+||+|||||+|..-|+.-+   .|+|.++
T Consensus       368 ~G~~~a---IvG~sGsGKSTLl~ll~gl~~p~~G~I~i~  403 (582)
T PRK11176        368 AGKTVA---LVGRSGSGKSTIANLLTRFYDIDEGEILLD  403 (582)
T ss_pred             CCCEEE---EECCCCCCHHHHHHHHHhccCCCCceEEEC
Confidence            555555   99999999999999998765   4666444

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=95.10  E-value=0.038  Score=42.04  Aligned_cols=34  Identities=3%  Similarity=-0.175  Sum_probs=26.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEeec
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRTY   53 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~Is   53 (115)
                      .+.+++.   |+||.|||||+|..-||...   .|+|.++
T Consensus         4 ~~Ge~~~---l~G~nGsGKSTLl~~l~G~~~~~~G~i~~~   40 (223)
T TIGR03771         4 DKGELLG---LLGPNGAGKTTLLRAILGLIPPAKGTVKVA   40 (223)
T ss_pred             CCCcEEE---EECCCCCCHHHHHHHHhCCCCCCCceEEEC
Confidence            3667777   89999999999999999654   4666443

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=95.10  E-value=0.01  Score=44.67  Aligned_cols=38  Identities=8%  Similarity=-0.239  Sum_probs=26.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC---ceEeeccceeeeccCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD---LFCRTYQVYLMVYKGL   63 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~---~eI~IsaDSmQVYkgl   63 (115)
                      +.|+|..|||||+||..|.+++.   -.+ +-.|+=.+=++|
T Consensus         5 IwltGlsGsGKtTlA~~L~~~L~~~g~~~-~~LDgD~lR~~l   45 (156)
T PF01583_consen    5 IWLTGLSGSGKTTLARALERRLFARGIKV-YLLDGDNLRHGL   45 (156)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTS-E-EEEEHHHHCTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCcE-EEecCcchhhcc
Confidence            45799999999999999998762   222 334544444554

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 ....

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=95.10  E-value=0.022  Score=43.13  Aligned_cols=26  Identities=8%  Similarity=-0.098  Sum_probs=22.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+++++.   |+||.|||||+|..-|+.-
T Consensus        31 ~~Ge~~~---l~G~nGsGKSTLlk~l~G~   56 (226)
T cd03234          31 ESGQVMA---ILGSSGSGKTTLLDAISGR   56 (226)
T ss_pred             cCCeEEE---EECCCCCCHHHHHHHHhCc
Confidence            5777877   8999999999999988854

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=95.09  E-value=0.021  Score=43.59  Aligned_cols=31  Identities=0%  Similarity=-0.315  Sum_probs=25.4

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus         9 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~i   42 (230)
T TIGR01184         9 QQGEFIS---LIGHSGCGKSTLLNLISGLAQPTSGGV   42 (230)
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            4677777   89999999999999998654   4666

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=95.09  E-value=0.02  Score=43.50  Aligned_cols=33  Identities=9%  Similarity=-0.244  Sum_probs=26.4

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||.|||||+|..-||-..   .|+|
T Consensus        25 ~i~~Ge~~~---l~G~nGsGKSTLl~~i~G~~~~~~G~i   60 (238)
T cd03249          25 TIPPGKTVA---LVGSSGCGKSTVVSLLERFYDPTSGEI   60 (238)
T ss_pred             EecCCCEEE---EEeCCCCCHHHHHHHHhccCCCCCCEE
Confidence            335778887   99999999999999998553   4666

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=95.08  E-value=0.019  Score=41.71  Aligned_cols=21  Identities=10%  Similarity=-0.027  Sum_probs=14.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      .+|.||.|+|||.+...++..
T Consensus        20 ~~i~GpPGTGKT~~l~~~i~~   40 (236)
T PF13086_consen   20 TLIQGPPGTGKTTTLASIIAQ   40 (236)
T ss_dssp             EEEE-STTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            458999999999875555433

>cd01865 Rab3 Rab3 subfamily

Probab=95.08  E-value=0.024  Score=40.13  Aligned_cols=23  Identities=17%  Similarity=0.062  Sum_probs=20.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++++|+.+||||+|..++....
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~~   25 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADDS   25 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998653

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

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=95.08  E-value=0.013  Score=48.70  Aligned_cols=25  Identities=12%  Similarity=0.016  Sum_probs=22.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .+||.||.|+||+.+|..+|+.+.+
T Consensus        47 a~L~~G~~G~GKttlA~~lA~~Llc   71 (351)
T PRK09112         47 ALLFEGPEGIGKATLAFHLANHILS   71 (351)
T ss_pred             eEeeECCCCCCHHHHHHHHHHHHcC
Confidence            4569999999999999999998765

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.08  E-value=0.019  Score=47.86  Aligned_cols=29  Identities=7%  Similarity=-0.113  Sum_probs=22.0

Q ss_pred             eeeccCCCchhHHHHHHh---cCCCceEeeccc
Q psy7554          26 LSCLPDSVCPHAHQVDLT---DGPDLFCRTYQV   55 (115)
Q Consensus        26 li~GpTasGKS~lai~LA---~~~~~eI~IsaD   55 (115)
                      .|.||.|||||.|++.++   ++.++.+ +..|
T Consensus        59 eI~Gp~GsGKTtLal~~~~~~~~~g~~~-vyId   90 (325)
T cd00983          59 EIYGPESSGKTTLALHAIAEAQKLGGTV-AFID   90 (325)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcCCCE-EEEC
Confidence            399999999999999987   3445555 4444

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.06  E-value=0.1  Score=40.77  Aligned_cols=29  Identities=7%  Similarity=-0.133  Sum_probs=23.8

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +=.|.+++.   |+||.|+|||+|..-|+.-+
T Consensus        30 ~i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~   58 (261)
T PRK14263         30 PIRKNEITG---FIGPSGCGKSTVLRSLNRMN   58 (261)
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHHccc
Confidence            345778877   89999999999999888543

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=95.06  E-value=0.013  Score=52.95  Aligned_cols=29  Identities=10%  Similarity=-0.093  Sum_probs=23.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .+.+|.+   ++||+|+|||.|+..||+.+.-
T Consensus       101 ~~~~IL~---LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455        101 EKKQILY---LLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             CCCceEE---EecCCCCCchHHHHHHHHHHHh
Confidence            3555544   7999999999999999986654

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=95.06  E-value=0.02  Score=39.34  Aligned_cols=22  Identities=5%  Similarity=-0.171  Sum_probs=19.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++|++++|||+|..++....
T Consensus         3 v~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         3 IMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             EEEECCCCCCHHHHHHHHcCCc
Confidence            5789999999999999997653

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.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=95.06  E-value=0.023  Score=42.42  Aligned_cols=32  Identities=3%  Similarity=-0.235  Sum_probs=25.3

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.|.+++.   |.||.|||||+|..-|+.-.   .|+|
T Consensus        21 i~~Ge~~~---l~G~nGsGKSTLl~~l~gl~~~~~G~i   55 (211)
T cd03298          21 FAQGEITA---IVGPSGSGKSTLLNLIAGFETPQSGRV   55 (211)
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            35777777   89999999999999888544   4665

Probably responsible for the translocation of thiamine across the membrane. 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.

>PRK14974 cell division protein FtsY; Provisional

Probab=95.06  E-value=0.024  Score=47.19  Aligned_cols=31  Identities=3%  Similarity=-0.210  Sum_probs=22.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      ++++||+|||||+++..||..+     ...+ +++|.
T Consensus       143 i~~~G~~GvGKTTtiakLA~~l~~~g~~V~l-i~~Dt  178 (336)
T PRK14974        143 IVFVGVNGTGKTTTIAKLAYYLKKNGFSVVI-AAGDT  178 (336)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE-ecCCc
Confidence            4589999999999777777433     2345 88884

>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown

Probab=95.05  E-value=0.012  Score=44.50  Aligned_cols=39  Identities=8%  Similarity=-0.246  Sum_probs=27.0

Q ss_pred             eeeeccCCCchhHHHHHHhcC----CCceEeeccceeeeccCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG----PDLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~----~~~eI~IsaDSmQVYkgld   64 (115)
                      +.|.|.||||||.++..|.++    .+..+ |--|-.-=|..+.
T Consensus        26 ~~I~G~TGsGKS~~~~~ll~~l~~~~~~~~-ii~D~~GEY~~~~   68 (229)
T PF01935_consen   26 IAIFGTTGSGKSNTVKVLLEELLKKKGAKV-IIFDPHGEYASLF   68 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCCCE-EEEcCCCcchhhh
Confidence            468999999999887666644    44555 5566665565555

It contains several conserved aspartates and histidines that could be metal ligands.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=95.05  E-value=0.0099  Score=51.30  Aligned_cols=53  Identities=9%  Similarity=-0.235  Sum_probs=39.3

Q ss_pred             ceeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeecc
Q psy7554           8 HYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYK   61 (115)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYk   61 (115)
                      |---|.+.-.+-.+=+.++|.||.|+|||-+|..+|++++... |..++-+++.
T Consensus       134 hi~kn~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~-i~vsa~eL~s  186 (413)
T PLN00020        134 HIAKNFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEP-IVMSAGELES  186 (413)
T ss_pred             HHHhhhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCe-EEEEHHHhhc
Confidence            4444555433345666778999999999999999999999987 7776655553

>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=95.05  E-value=0.024  Score=41.48  Aligned_cols=31  Identities=6%  Similarity=-0.166  Sum_probs=24.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-||...   .|.|
T Consensus        24 ~~Ge~~~---i~G~nGsGKStLl~~l~G~~~~~~G~i   57 (173)
T cd03230          24 EKGEIYG---LLGPNGAGKTTLIKIILGLLKPDSGEI   57 (173)
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhCCCCCCCeEE
Confidence            4666666   89999999999999998653   4555

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.05  E-value=0.02  Score=43.31  Aligned_cols=23  Identities=4%  Similarity=-0.073  Sum_probs=19.1

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      ..+++   |.|++|+|||.++..+|.
T Consensus        16 g~~~l---i~G~~G~GKt~~~~~~~~   38 (224)
T TIGR03880        16 GHVIV---VIGEYGTGKTTFSLQFLY   38 (224)
T ss_pred             CeEEE---EECCCCCCHHHHHHHHHH
Confidence            44555   899999999999998874

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=95.04  E-value=0.019  Score=41.68  Aligned_cols=34  Identities=18%  Similarity=0.001  Sum_probs=24.4

Q ss_pred             eeeccCCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          11 VNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        11 ~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ||| ++.|.+==..++|+|++++|||+|...|...
T Consensus         8 ~~~-~~~~~~~~~~i~ivG~~~~GKStlin~l~~~   41 (179)
T TIGR03598         8 VKL-KQLPPDDGPEIAFAGRSNVGKSSLINALTNR   41 (179)
T ss_pred             ccH-hhCCCCCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            443 3444332335789999999999999999865

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.04  E-value=0.017  Score=50.94  Aligned_cols=30  Identities=10%  Similarity=0.048  Sum_probs=22.3

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .+|.-++|   ++||||||||..-..+-+.++.
T Consensus       255 ~~p~GliL---vTGPTGSGKTTTLY~~L~~ln~  284 (500)
T COG2804         255 NRPQGLIL---VTGPTGSGKTTTLYAALSELNT  284 (500)
T ss_pred             hCCCeEEE---EeCCCCCCHHHHHHHHHHHhcC
Confidence            45666666   9999999999886666665543

>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=95.04  E-value=0.024  Score=41.67  Aligned_cols=31  Identities=6%  Similarity=-0.170  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|+|
T Consensus        23 ~~G~~~~---l~G~nGsGKStLl~~i~G~~~~~~G~v   56 (180)
T cd03214          23 EAGEIVG---ILGPNGAGKSTLLKTLAGLLKPSSGEI   56 (180)
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            4677777   89999999999988888643   4666

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.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=95.03  E-value=0.023  Score=42.74  Aligned_cols=35  Identities=9%  Similarity=-0.154  Sum_probs=27.0

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      +=.+.+++.   |+||.|||||+|..-|+.-+   .|+|.+
T Consensus        30 ~i~~Ge~~~---l~G~nGsGKSTLl~~i~G~~~~~~G~i~~   67 (224)
T TIGR02324        30 TVNAGECVA---LSGPSGAGKSTLLKSLYANYLPDSGRILV   67 (224)
T ss_pred             EECCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCCeEEE
Confidence            335777777   99999999999999998654   466633

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	115
2qgn_A	322	Crystal Structure Of Trna Isopentenylpyrophosphate		2e-08
3d3q_A	340	Crystal Structure Of Trna Delta(2)-Isopentenylpyrop		7e-08
3foz_A	316	Structure Of E. Coli Isopentenyl-Trna Transferase I		6e-06
3a8t_A	339	Plant Adenylate Isopentenyltransferase In Complex W		7e-06
2zm5_A	316	Crystal Structure Of Trna Modification Enzyme Miaa		2e-05

>pdb|2QGN|A Chain A, Crystal Structure Of Trna Isopentenylpyrophosphate Transferase (Bh2366) From Bacillus Halodurans, Northeast Structural Genomics Consortium Target Bhr41. Length = 322

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 32/44 (72%)
Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRA 101
            VY+G D+ T K+T EE +G+PHHL+D  DP+  F+V D+++ A
Sbjct: 38  QVYRGXDIGTAKITAEEXDGVPHHLIDIKDPSESFSVADFQDLA 81

>pdb|3D3Q|A Chain A, Crystal Structure Of Trna Delta(2)-Isopentenylpyrophosphate Transferase (Se0981) From Staphylococcus Epidermidis. Northeast Structural Genomics Consortium Target Ser100 Length = 340

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 32/47 (68%)
Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH 104
            VY+G D+ T KVT EE EGIPH+ +D L P+  F+  +++ RA K+
Sbjct: 42  QVYQGXDIGTAKVTTEEXEGIPHYXIDILPPDASFSAYEFKKRAEKY 88

>pdb|3FOZ|A Chain A, Structure Of E. Coli Isopentenyl-Trna Transferase In Complex With E. Coli Trna(Phe) Length = 316

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           ++YKG+D+ T K   EE    PH LLD  DP+  ++  D+R  AL
Sbjct: 45  LIYKGMDIGTAKPNAEELLAAPHRLLDIRDPSQAYSAADFRRDAL 89

>pdb|3A8T|A Chain A, Plant Adenylate Isopentenyltransferase In Complex With Atp Length = 339

Iteration: 1
 Score = 45.8 bits (107), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 57  LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRALK 103
           + VYKGLD+ TNK++  +  G+PHHLL  +DP     T  D+R+ A K
Sbjct: 74  MQVYKGLDITTNKISVPDRGGVPHHLLGEVDPARGELTPADFRSLAGK 121

>pdb|2ZM5|A Chain A, Crystal Structure Of Trna Modification Enzyme Miaa In The Complex With Trna(Phe) Length = 316

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 26/45 (57%)
Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
           ++YKG D+ T K   EE    PH LLD  DP+  ++  D+R  AL
Sbjct: 45  LIYKGXDIGTAKPNAEELLAAPHRLLDIRDPSQAYSAADFRRDAL 89

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	115
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	4e-20
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	2e-18
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	6e-17
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	7e-17
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	2e-16
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	5e-16
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	3e-14

>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* Length = 409

 Score = 82.8 bits (205), Expect = 4e-20
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 59  VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           VYK + +ITNK   +E EGIPHH+++ +D +  +    +    + 
Sbjct: 38  VYKDIPIITNKHPLQEREGIPHHVMNHVDWSEEYYSHRFETECMN 82

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus} Length = 339

 Score = 77.3 bits (190), Expect = 2e-18
 Identities = 22/46 (47%), Positives = 30/46 (65%), Gaps = 1/46 (2%)

Query: 59  VYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRALK 103
           VYKGLD+ TNK++  +  G+PHHLL  +DP     T  D+R+ A K
Sbjct: 76  VYKGLDITTNKISVPDRGGVPHHLLGEVDPARGELTPADFRSLAGK 121

>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 Length = 316

 Score = 73.3 bits (181), Expect = 6e-17
 Identities = 19/46 (41%), Positives = 27/46 (58%)

Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           ++YKG+D+ T K   EE    PH LLD  DP+  ++  D+R  AL 
Sbjct: 45  LIYKGMDIGTAKPNAEELLAAPHRLLDIRDPSQAYSAADFRRDALA 90

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A Length = 323

 Score = 72.9 bits (180), Expect = 7e-17
 Identities = 15/46 (32%), Positives = 26/46 (56%)

Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
           ++Y+G+D+ T K + E     PH L+D  DP   ++  ++R  AL 
Sbjct: 40  LIYRGMDIGTAKPSRELLARYPHRLIDIRDPAESYSAAEFRADALA 85

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A Length = 322

 Score = 71.8 bits (177), Expect = 2e-16
 Identities = 21/46 (45%), Positives = 33/46 (71%)

Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
            VY+G+D+ T K+T EE +G+PHHL+D  DP+  F+V D+++ A  
Sbjct: 38  QVYRGMDIGTAKITAEEMDGVPHHLIDIKDPSESFSVADFQDLATP 83

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228} Length = 340

 Score = 71.1 bits (175), Expect = 5e-16
 Identities = 22/46 (47%), Positives = 33/46 (71%)

Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
            VY+G+D+ T KVT EE EGIPH+++D L P+  F+  +++ RA K
Sbjct: 42  QVYQGMDIGTAKVTTEEMEGIPHYMIDILPPDASFSAYEFKKRAEK 87

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A Length = 253

 Score = 65.2 bits (159), Expect = 3e-14
 Identities = 5/46 (10%), Positives = 11/46 (23%)

Query: 58  MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
                +   + +    E +      LD           +  +R L 
Sbjct: 36  QCCPQIATGSGRPLESELQSTRRIYLDSRPLTEGILDAESAHRRLI 81

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	115
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	99.98
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	99.97
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	99.97
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	99.97
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	99.94
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	99.93
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	99.83
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	99.82
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	98.49
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	98.3
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	98.23
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	98.14
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	98.03
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.96
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.94
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.93
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.91
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.9
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.87
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.85
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.85
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.85
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.83
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.83
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.81
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.81
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.81
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.8
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.79
1via_A	175	Shikimate kinase; structural genomics, transferase	97.79
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.78
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.78
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.77
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.76
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.76
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.76
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.75
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.71
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.7
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.68
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.68
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.67
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.67
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.67
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.67
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.67
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.66
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.64
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.63
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.63
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	97.62
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.61
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.61
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.61
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.59
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	97.58
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.57
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.56
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.55
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.55
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.54
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.53
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.53
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.52
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.49
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.47
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	97.45
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.45
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.44
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	97.42
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.41
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	97.4
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.37
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	97.36
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.36
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.35
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.35
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.34
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.34
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	97.32
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.31
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	97.31
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.3
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.28
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.28
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.27
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.27
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.26
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.25
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.24
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	97.24
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.24
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.23
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.21
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.21
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.21
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.2
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.18
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.17
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.17
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.17
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.15
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.14
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.13
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	97.09
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.08
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.08
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.07
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.07
3bos_A	242	Putative DNA replication factor; P-loop containing	97.06
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.06
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.02
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.02
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.02
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.01
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.01
3co5_A	143	Putative two-component system transcriptional RES	97.0
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.97
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.97
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.96
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.95
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.95
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.95
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.93
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.89
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.89
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.88
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.87
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.85
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.83
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.81
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.8
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.79
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.78
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.74
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.73
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.71
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.69
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.69
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.68
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.67
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.67
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.65
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.65
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.64
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.62
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	96.59
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.59
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.57
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.57
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.56
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.56
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.55
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.55
2qgz_A	308	Helicase loader, putative primosome component; str	96.55
3pvs_A	447	Replication-associated recombination protein A; ma	96.54
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.52
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.52
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	96.51
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.51
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.5
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.49
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.49
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.46
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.46
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.45
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.45
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.43
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	96.43
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.42
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.42
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.39
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.38
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.37
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.35
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.35
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.34
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.33
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.27
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.25
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.24
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.22
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.2
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.19
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.12
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.11
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.09
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.06
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	96.05
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.04
2chq_A	319	Replication factor C small subunit; DNA-binding pr	96.02
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.02
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.01
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	96.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	95.99
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.99
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.98
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.95
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	95.95
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.93
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.92
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.91
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.9
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.9
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	95.9
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.87
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.87
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.87
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.86
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.85
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	95.83
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.83
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.82
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.82
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.81
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.8
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.79
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	95.79
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.79
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.78
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.78
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.76
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.76
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.75
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.75
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.71
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.71
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.71
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.69
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.68
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.68
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.62
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.62
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.62
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.61
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.61
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.59
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.57
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.57
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.57
2fna_A	357	Conserved hypothetical protein; structural genomic	95.56
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.55
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.55
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.53
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.53
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.52
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.51
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.5
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.49
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	95.47
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.47
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.45
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.45
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.45
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.44
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.44
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.43
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.43
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.42
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.41
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	95.4
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.39
2og2_A	359	Putative signal recognition particle receptor; nuc	95.38
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.38
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.38
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.36
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.36
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.36
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.34
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.34
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.32
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.31
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.29
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.29
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.28
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.28
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.27
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.27
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.27
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.26
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.26
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.24
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.23
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.23
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.23
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	95.21
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.2
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.2
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.2
3b6e_A	216	Interferon-induced helicase C domain-containing P;	95.19
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.18
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.17
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.17
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.17
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.17
3auy_A	371	DNA double-strand break repair RAD50 ATPase; DNA r	95.16
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.14
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.13
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.13
1g6h_A	257	High-affinity branched-chain amino acid transport	95.13
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.11
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.11
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.08
2xxa_A	433	Signal recognition particle protein; protein trans	95.08
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.08
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.06
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.06
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	95.04
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.04
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.04
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.04
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.03
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.03
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.02
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.02
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.0
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.0
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.97
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.94
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	94.94
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.94
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	94.92
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	94.92
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.91
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.9
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.88
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.87
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.87
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.87
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.86
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.84
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.84
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.82
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.81
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.8
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.78
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.78
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.78
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.76
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	94.75
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.75
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.74
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.74
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.74
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.73
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.73
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.73
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.73
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.73
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.73
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.72
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.71
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	94.7
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.69
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.68
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.68
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	94.67
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.66
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	94.64
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.64
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	94.63
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.63
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.62
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.62
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.61
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.6
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.59
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	94.58
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.58
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.57
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	94.56
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.56
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.55
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.53
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.52
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.5
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.47
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.47
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.45
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.45
1u94_A	356	RECA protein, recombinase A; homologous recombinat	94.43
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	94.42
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.4
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	94.39
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.38
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.37
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.37
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.34
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.34
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.33
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	94.32
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.32
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.31
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	94.28
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.28
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.28
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.27
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	94.27
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.26
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.25
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.25
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.23
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	94.2
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.19
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.18
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.16
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.14
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	94.12
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.12
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	94.12
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.1
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.1
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	94.09
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.09
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	94.08
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.08
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.07
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.07
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	94.06
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.05
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	94.04
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.01
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.01
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	93.97
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	93.96
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	93.94
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	93.93
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	93.91
1xp8_A	366	RECA protein, recombinase A; recombination, radior	93.89
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	93.87
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	93.86
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.84
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.83
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	93.83
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.82
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.81
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.79
3llu_A	196	RAS-related GTP-binding protein C; structural geno	93.77
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	93.74
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.74
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	93.73
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	93.72
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.71
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	93.71
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	93.68
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	93.67
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.66
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	93.6
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	93.59
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	93.59
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.5
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.49
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.47
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.47
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.46
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	93.46
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.43
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	93.41
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.41
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	93.35
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.34
3io5_A	333	Recombination and repair protein; storage dimer, i	93.32
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.31
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.3
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.3
3h1t_A	590	Type I site-specific restriction-modification syst	93.23
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	93.23
3rc3_A	677	ATP-dependent RNA helicase SUPV3L1, mitochondrial;	93.22
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.21
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	93.21
1e69_A	322	Chromosome segregation SMC protein; structural mai	93.2
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	93.18
3bor_A	237	Human initiation factor 4A-II; translation initiat	93.15
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	93.15
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	93.12
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.07
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	93.04
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	93.04
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.03
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	93.02
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	93.01
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	93.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	92.98
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	92.98
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	92.95
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	92.93
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	92.9
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.89
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	92.88
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.87
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	92.85
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	92.84
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.82
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	92.78
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.72
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	92.64
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	92.55

>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=99.98  E-value=4.1e-33  Score=227.54  Aligned_cols=87  Identities=29%  Similarity=0.393  Sum_probs=84.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||++||++++++| ||+|||||||+|+||||||+++|+++|||||||+++|++.||+++|+++|.++
T Consensus         6 i~i~GptgsGKt~la~~La~~~~~~i-is~Ds~QvYr~~~igTakp~~~E~~gvphhlid~~~~~e~~s~~~F~~~a~~~   84 (322)
T 3exa_A            6 VAIVGPTAVGKTKTSVMLAKRLNGEV-ISGDSMQVYRGMDIGTAKITAEEMDGVPHHLIDIKDPSESFSVADFQDLATPL   84 (322)
T ss_dssp             EEEECCTTSCHHHHHHHHHHTTTEEE-EECCGGGGBTTCCTTTTCCCHHHHTTCCEESSSCBCTTSCCCHHHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHHHhCccce-eecCcccceeeeeecCCCCCHHHHcCCCEEEeccCChhhhccHHHHHHHHHHH
Confidence            56899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhcc
Q psy7554         105 TGLKVDLT  112 (115)
Q Consensus       105 I~~i~~~~  112 (115)
                      |++++++.
T Consensus        85 i~~i~~~g   92 (322)
T 3exa_A           85 ITEIHERG   92 (322)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHhCC
Confidence            99999873

>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=99.97  E-value=6e-33  Score=225.99  Aligned_cols=86  Identities=26%  Similarity=0.324  Sum_probs=84.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||++||++++++| ||+|||||||+|+||||||+++|+++|||||+|+++|++.||+++|+++|.++
T Consensus        13 i~i~GptgsGKt~la~~La~~~~~~i-is~Ds~qvY~~~~igTakp~~~E~~~v~hhlid~~~~~e~~s~~~f~~~a~~~   91 (316)
T 3foz_A           13 IFLMGPTASGKTALAIELRKILPVEL-ISVDSALIYKGMDIGTAKPNAEELLAAPHRLLDIRDPSQAYSAADFRRDALAE   91 (316)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSCEEE-EECCTTTTBTTCCTTTTCCCHHHHHHSCEETSSCBCTTSCCCHHHHHHHHHHH
T ss_pred             EEEECCCccCHHHHHHHHHHhCCCcE-EecccccccccccccCCCCCHHHHcCCCEEEeccCCccccccHHHHHHHHHHH
Confidence            46899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhc
Q psy7554         105 TGLKVDL  111 (115)
Q Consensus       105 I~~i~~~  111 (115)
                      |++++++
T Consensus        92 i~~i~~~   98 (316)
T 3foz_A           92 MADITAA   98 (316)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhC
Confidence            9999887

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=99.97  E-value=1.2e-32  Score=225.43  Aligned_cols=86  Identities=29%  Similarity=0.364  Sum_probs=83.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCC-CCccCHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRALK  103 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp-~e~ySv~~F~~~A~~  103 (115)
                      ++|+||||||||+||++||++++++| ||+|||||||+|+||||||+++|++++||||+|+++| .+.|++++|+++|.+
T Consensus        43 IvI~GPTgsGKTtLa~~LA~~l~~ei-Is~Ds~qvYr~mdIgTakp~~eE~~gvphhlidi~~~~~e~~s~~~F~~~a~~  121 (339)
T 3a8t_A           43 LVLMGATGTGKSRLSIDLAAHFPLEV-INSDKMQVYKGLDITTNKISVPDRGGVPHHLLGEVDPARGELTPADFRSLAGK  121 (339)
T ss_dssp             EEEECSTTSSHHHHHHHHHTTSCEEE-EECCSSTTBSSCTTTTTCCCSGGGTTCCEESSSCBCGGGCCCCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCcE-EcccccccccceeeecCCCCHHHHcCCCEeeccccCcccCccCHHHHHHHHHH
Confidence            56899999999999999999999999 9999999999999999999999999999999999999 899999999999999


Q ss_pred             HHhhhhhc
Q psy7554         104 HTGLKVDL  111 (115)
Q Consensus       104 ~I~~i~~~  111 (115)
                      +|++++++
T Consensus       122 ~i~~i~~~  129 (339)
T 3a8t_A          122 AVSEITGR  129 (339)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhc
Confidence            99999876

>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=99.97  E-value=4.2e-31  Score=221.07  Aligned_cols=86  Identities=20%  Similarity=0.245  Sum_probs=84.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||.+||++++++| ||+|||||||+|+||||||+.+|+.+|||||+|++++.+.||+++|.++|.++
T Consensus         5 i~i~GptgsGKttla~~La~~~~~~i-is~Ds~QvYr~l~i~T~kp~~~E~~gv~hhlid~~~~~~~~s~~~F~~~a~~~   83 (409)
T 3eph_A            5 IVIAGTTGVGKSQLSIQLAQKFNGEV-INSDSMQVYKDIPIITNKHPLQEREGIPHHVMNHVDWSEEYYSHRFETECMNA   83 (409)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHTEEE-EECCTTTTBSSCTTTTTCCCGGGTTTCCEESCSCBCTTSCCCHHHHHHHHHHH
T ss_pred             EEEECcchhhHHHHHHHHHHHCCCeE-eecCccceecccccccCCCCHHHHcCchhhcCCccChHhHhhHHHHHHHHHHH
Confidence            45899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhc
Q psy7554         105 TGLKVDL  111 (115)
Q Consensus       105 I~~i~~~  111 (115)
                      |++++++
T Consensus        84 i~~i~~~   90 (409)
T 3eph_A           84 IEDIHRR   90 (409)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHhc
Confidence            9999987

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=99.94  E-value=1.4e-27  Score=193.92  Aligned_cols=86  Identities=21%  Similarity=0.291  Sum_probs=83.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||..||+++++++ |++||+|+||+|+|||+||+.+|++++||||+|+++|.+.|++++|++.+.++
T Consensus         8 i~i~GptGsGKTtla~~La~~l~~~i-is~Ds~qvy~~~~igTakp~~~e~~gvph~lid~~~~~~~~~~~~F~~~a~~~   86 (323)
T 3crm_A            8 IFLMGPTAAGKTDLAMALADALPCEL-ISVDSALIYRGMDIGTAKPSRELLARYPHRLIDIRDPAESYSAAEFRADALAA   86 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSCEEE-EEECTTTTBTTCCTTTTCCCHHHHHHSCEETSSCBCTTSCCCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCcE-EeccchhhhcCCCcccCCCCHHHHcCCCEEEeeccCcccccCHHHHHHHHHHH
Confidence            56899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhc
Q psy7554         105 TGLKVDL  111 (115)
Q Consensus       105 I~~i~~~  111 (115)
                      |++++++
T Consensus        87 i~~i~~~   93 (323)
T 3crm_A           87 MAKATAR   93 (323)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHc
Confidence            9999876

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=99.93  E-value=1.9e-26  Score=188.43  Aligned_cols=86  Identities=27%  Similarity=0.372  Sum_probs=83.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCccCHHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH  104 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~ySv~~F~~~A~~~  104 (115)
                      ++|+||||||||+||.+||+.++++| ||+||+||||+|+|+|+||+.+|++++||||+|++++.+.|++++|.+.+.+.
T Consensus        10 I~I~GptgSGKTtla~~La~~l~~~i-is~Ds~qvYr~~~i~Takp~~eE~~~v~hhl~di~~~~~~~~~~dF~~~a~~~   88 (340)
T 3d3q_A           10 IVIVGPTASGKTELSIEVAKKFNGEI-ISGDSMQVYQGMDIGTAKVTTEEMEGIPHYMIDILPPDASFSAYEFKKRAEKY   88 (340)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTEEE-EECCSSTTBTTCCTTTTCCCTTTTTTCCEESSSCBCTTSCCCHHHHHHHHHHH
T ss_pred             EEEECCCcCcHHHHHHHHHHHcCCce-eccccccccccccccccCCCHHHHHHHHHHHHHHhCCccccCHHHHHHHHHHH
Confidence            66899999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             Hhhhhhc
Q psy7554         105 TGLKVDL  111 (115)
Q Consensus       105 I~~i~~~  111 (115)
                      ++++..+
T Consensus        89 i~~i~~~   95 (340)
T 3d3q_A           89 IKDITRR   95 (340)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhC
Confidence            9988764

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=99.83  E-value=2.7e-21  Score=148.32  Aligned_cols=85  Identities=7%  Similarity=-0.070  Sum_probs=80.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCC-ccCHHHHHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNT-RFTVVDYRNRALK  103 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e-~ySv~~F~~~A~~  103 (115)
                      ++|+||+|||||+||..||+.++.++ |+.|++|+|++++++|++|+.+|+.+++||+++..+|.+ .|++..|.+.+.+
T Consensus         4 i~I~G~~GSGKSTla~~La~~~~~~~-i~~D~~~~~~~~~~~t~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~   82 (253)
T 2ze6_A            4 HLIYGPTCSGKTDMAIQIAQETGWPV-VALDRVQCCPQIATGSGRPLESELQSTRRIYLDSRPLTEGILDAESAHRRLIF   82 (253)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCCE-EECCSGGGCGGGTTTTTCCCGGGGTTCCEECSCCCCGGGCSCCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHhcCCCeE-EeccHHhccCCCccccCCCCHHHHhCCCeEEEeeeccccccccHHHHHHHHHH
Confidence            57899999999999999999999999 999999999999999999999999999999999999987 8999999999999


Q ss_pred             HHhhhhhc
Q psy7554         104 HTGLKVDL  111 (115)
Q Consensus       104 ~I~~i~~~  111 (115)
                      ++ +++++
T Consensus        83 ~i-~~~~~   89 (253)
T 2ze6_A           83 EV-DWRKS   89 (253)
T ss_dssp             HH-HTTTT
T ss_pred             HH-HHHhC
Confidence            99 77654

>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=99.82  E-value=5.3e-22  Score=153.71  Aligned_cols=69  Identities=17%  Similarity=0.114  Sum_probs=65.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc---eecCCCCHHHhcCCCeee----ecccCCCCccCHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD---VITNKVTPEEAEGIPHHL----LDFLDPNTRFTVVDY   97 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld---IgTAKPs~eE~~~IpHHL----id~ldp~e~ySv~~F   97 (115)
                      ++|+||||||||+||++||++.+ +| ||.||+|||++++   ||||||+      +||||    +|++++.+.|+++.|
T Consensus        37 ilI~GpsGsGKStLA~~La~~g~-~i-IsdDs~~v~~~~~~~liGtak~~------i~h~lEiRGigiid~~~~f~~~~f  108 (205)
T 2qmh_A           37 VLITGDSGVGKSETALELVQRGH-RL-IADDRVDVYQQDEQTIVGAAPPI------LSHLLEIRGLGIIDVMNLFGAGAV  108 (205)
T ss_dssp             EEEECCCTTTTHHHHHHHHTTTC-EE-EESSEEEEEECSTTCEEEECCSS------STTEEEETTTEEEEHHHHHCTTSB
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC-eE-EecchhheeecCCceEEEECCcc------ccccccccceeEEcccccCCHHHH
Confidence            46899999999999999999988 99 9999999999999   9999997      99999    999999999999999


Q ss_pred             HHHH
Q psy7554          98 RNRA  101 (115)
Q Consensus        98 ~~~A  101 (115)
                      ++++
T Consensus       109 ~~~a  112 (205)
T 2qmh_A          109 REDT  112 (205)
T ss_dssp             CSCC
T ss_pred             HhcC
Confidence            8765

>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=98.49  E-value=8.5e-08  Score=70.43  Aligned_cols=52  Identities=12%  Similarity=0.066  Sum_probs=43.2

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeeccc
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFL   86 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~l   86 (115)
                      +|+||+|||||+|+..|++.+...         ++...+..|.+|...|..++.||+++.-
T Consensus        12 ~l~GpsGsGKsTl~~~L~~~~~~~---------~~~~~~~~tr~~~~~e~~g~~y~~~~~~   63 (208)
T 3tau_A           12 VLSGPSGVGKGTVREAVFKDPETS---------FDYSISMTTRLPREGEQDGVDYYFRSRE   63 (208)
T ss_dssp             EEECCTTSCHHHHHHHHHHSTTCC---------CEECCCEESSCCCTTCCBTTTBEECCHH
T ss_pred             EEECcCCCCHHHHHHHHHhhCCCc---------EEEEEecccccCcCcccCCceeEEecHH
Confidence            489999999999999999887642         3455567899999999999999987643

>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=98.30  E-value=3.7e-07  Score=69.01  Aligned_cols=52  Identities=15%  Similarity=0.055  Sum_probs=41.9

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeeccc
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFL   86 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~l   86 (115)
                      +|+||+|||||+|...|++.+...+ ..+.        ...|.+|...|..+++||+++.-
T Consensus        23 vl~GPSGaGKsTL~~~L~~~~~~~~-~~~v--------s~TTR~p~~gE~~G~~y~fvs~~   74 (197)
T 3ney_A           23 VLIGASGVGRSHIKNALLSQNPEKF-VYPV--------PYTTRPPRKSEEDGKEYHFISTE   74 (197)
T ss_dssp             EEECCTTSSHHHHHHHHHHHCTTTE-ECCC--------CEECSCCCTTCCTTSSCEECCHH
T ss_pred             EEECcCCCCHHHHHHHHHhhCCccE-Eeee--------cccccCCcCCeeccccceeccHH
Confidence            4799999999999999998876544 3333        35699999999999999998643

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=98.23  E-value=7.9e-07  Score=63.72  Aligned_cols=52  Identities=10%  Similarity=-0.063  Sum_probs=37.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDF   85 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~   85 (115)
                      ++|+||+|||||+|+..|++.+...         ++..+...|.+|...|..++.||+++.
T Consensus         8 i~i~GpsGsGKSTL~~~L~~~~~~~---------~~~~i~~ttr~~~~ge~~g~~~~~~~~   59 (180)
T 1kgd_A            8 LVLLGAHGVGRRHIKNTLITKHPDR---------FAYPIPHTTRPPKKDEENGKNYYFVSH   59 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTTT---------EECCCCEECSCC---CCBTTTBEECCH
T ss_pred             EEEECCCCCCHHHHHHHHHhhCCcc---------EEEeeeccCCCCCccccCCCeeEEeCH
Confidence            3489999999999999998865421         122345678888888889999998753

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=98.14  E-value=5.3e-07  Score=63.66  Aligned_cols=32  Identities=3%  Similarity=-0.327  Sum_probs=29.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||+|||||++|..||++++... ++.|.+
T Consensus         8 i~l~G~~GsGKst~a~~La~~l~~~~-i~~d~~   39 (185)
T 3trf_A            8 IYLIGLMGAGKTSVGSQLAKLTKRIL-YDSDKE   39 (185)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EEChHH
Confidence            56799999999999999999999999 999986

>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=98.03  E-value=1.5e-06  Score=65.13  Aligned_cols=25  Identities=12%  Similarity=-0.092  Sum_probs=22.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++|+|+++||||++|.+||++ +..+
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~   26 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQV   26 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSE
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCe
Confidence            679999999999999999988 6555

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.96  E-value=4.1e-06  Score=58.02  Aligned_cols=32  Identities=6%  Similarity=0.010  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhc-CCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD-GPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~-~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||++|..|++ .++... |+.|..
T Consensus         5 I~i~G~~GsGKST~a~~L~~~~~~~~~-i~~d~~   37 (181)
T 1ly1_A            5 ILTIGCPGSGKSTWAREFIAKNPGFYN-INRDDY   37 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSTTEEE-ECHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHhhcCCcEE-ecHHHH
Confidence            56899999999999999999 788888 888753

>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=97.94  E-value=3.2e-06  Score=58.17  Aligned_cols=32  Identities=9%  Similarity=-0.036  Sum_probs=28.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+++..||++++..+ ++.|..
T Consensus         4 i~l~G~~GsGKsT~~~~L~~~l~~~~-i~~d~~   35 (173)
T 3kb2_A            4 IILEGPDCCFKSTVAAKLSKELKYPI-IKGSSF   35 (173)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHCCCE-EECCCH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCee-ecCccc
Confidence            57899999999999999999999888 888853

>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=97.93  E-value=5.9e-06  Score=61.59  Aligned_cols=51  Identities=10%  Similarity=-0.051  Sum_probs=40.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||+|||||+|.-+|.+++...+         ..-..-.|-+|-+.|..++.||+++
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~~~~~---------~~svs~TTR~pR~gE~~G~dY~Fvs   54 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEYPDSF---------GFSVSSTTRTPRAGEVNGKDYNFVS   54 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTTTE---------EECCCEECSCCCTTCCBTTTBEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCCe---------EEEEEEeccCCCCCCcCCceeEeec
Confidence            57899999999999999987765433         1234566888888899999999986

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.91  E-value=3.7e-06  Score=60.51  Aligned_cols=32  Identities=3%  Similarity=-0.209  Sum_probs=29.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+++..|++.++..+ ++.|.+
T Consensus        21 I~l~G~~GsGKSTla~~L~~~lg~~~-i~~d~~   52 (202)
T 3t61_A           21 IVVMGVSGSGKSSVGEAIAEACGYPF-IEGDAL   52 (202)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHTCCE-EEGGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCEE-EeCCcC
Confidence            45799999999999999999999888 888875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.90  E-value=3.5e-06  Score=58.91  Aligned_cols=32  Identities=3%  Similarity=-0.206  Sum_probs=28.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||++|..||+.++... |+.|.+
T Consensus         6 I~l~G~~GsGKsT~a~~L~~~~~~~~-i~~d~~   37 (196)
T 1tev_A            6 VFVLGGPGAGKGTQCARIVEKYGYTH-LSAGEL   37 (196)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EeHHHH
Confidence            56899999999999999999999888 888864

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.87  E-value=1.1e-05  Score=57.38  Aligned_cols=54  Identities=13%  Similarity=0.233  Sum_probs=39.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      +.+++.   |+||+|||||+|+..|+..+.          +++-.....+.+|...++.++.+++.+
T Consensus         6 ~g~ii~---l~Gp~GsGKSTl~~~L~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~   59 (205)
T 3tr0_A            6 KANLFI---ISAPSGAGKTSLVRALVKALA----------EIKISISHTTRPKRPGDQEGVDYFFID   59 (205)
T ss_dssp             CCCEEE---EECCTTSCHHHHHHHHHHHSS----------SEEECCCEECSCCCTTCCBTTTBEECC
T ss_pred             CCcEEE---EECcCCCCHHHHHHHHHhhCC----------CeEEeceeccCCCchhHhcCceEEecc
Confidence            345544   899999999999999987653          234444566777777777778777654

>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=97.85  E-value=3.8e-06  Score=58.30  Aligned_cols=32  Identities=3%  Similarity=-0.174  Sum_probs=29.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||++|..||+.++..+ ++.|.+
T Consensus         5 I~l~G~~GsGKsT~a~~La~~lg~~~-id~d~~   36 (173)
T 1e6c_A            5 IFMVGARGCGMTTVGRELARALGYEF-VDTDIF   36 (173)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-EcccHH
Confidence            56899999999999999999999988 888864

>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=97.85  E-value=4.2e-06  Score=59.05  Aligned_cols=32  Identities=3%  Similarity=-0.299  Sum_probs=29.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||++|..||++++..+ ++.|.+
T Consensus         5 I~l~G~~GsGKsT~a~~La~~lg~~~-id~D~~   36 (184)
T 2iyv_A            5 AVLVGLPGSGKSTIGRRLAKALGVGL-LDTDVA   36 (184)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCE-EeCchH
Confidence            56899999999999999999999999 888864

>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=97.85  E-value=5.8e-06  Score=59.89  Aligned_cols=31  Identities=0%  Similarity=-0.244  Sum_probs=28.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||++|-.||++++..+ |++|.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~-i~~d~   33 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKYGIPH-ISTGD   33 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCCE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-EeHHH
Confidence            67899999999999999999999888 88864

>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=97.83  E-value=7.2e-06  Score=55.69  Aligned_cols=29  Identities=7%  Similarity=-0.240  Sum_probs=25.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|+||.|||||++|..| ++++... ++.|
T Consensus         4 I~l~G~~GsGKsT~a~~L-~~~g~~~-i~~~   32 (179)
T 3lw7_A            4 ILITGMPGSGKSEFAKLL-KERGAKV-IVMS   32 (179)
T ss_dssp             EEEECCTTSCHHHHHHHH-HHTTCEE-EEHH
T ss_pred             EEEECCCCCCHHHHHHHH-HHCCCcE-EEHh
Confidence            568999999999999999 8899888 7765

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.83  E-value=4.2e-06  Score=59.13  Aligned_cols=32  Identities=6%  Similarity=-0.195  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||++|..||+.++... ++.|.+
T Consensus        15 I~l~G~~GsGKsT~a~~L~~~l~~~~-i~~d~~   46 (199)
T 2bwj_A           15 IFIIGGPGSGKGTQCEKLVEKYGFTH-LSTGEL   46 (199)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EcHHHH
Confidence            56899999999999999999999888 888754

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.81  E-value=1.2e-05  Score=58.23  Aligned_cols=50  Identities=12%  Similarity=0.101  Sum_probs=35.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLL   83 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLi   83 (115)
                      ++|+||+|||||+|+..|++.+++.+         +....-.|-+|...|..+..++++
T Consensus        15 i~l~G~sGsGKsTl~~~L~~~~~~~~---------~~~~~~ttR~~~~~e~~g~~~~~~   64 (204)
T 2qor_A           15 LVVCGPSGVGKGTLIKKVLSEFPSRF---------RFSISCTTRNKREKETNGVDYYFV   64 (204)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHCTTTE---------EECCEEECSCCCTTCCBTTTEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCccce---------eeeeeecCCCCCCCCCCCcceeeC
Confidence            45799999999999999999886422         112345677776666666666665

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.81  E-value=5.6e-06  Score=59.80  Aligned_cols=31  Identities=0%  Similarity=-0.209  Sum_probs=27.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||.|||||++|-.||++++... +++|.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~~~~~-i~~d~   33 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKYEIPH-ISTGD   33 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-eeHHH
Confidence            67899999999999999999999888 87764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.81  E-value=6.1e-06  Score=59.64  Aligned_cols=32  Identities=0%  Similarity=-0.247  Sum_probs=28.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||+|||||+++..||+.++... ++.|..
T Consensus        28 i~l~G~~GsGKsTl~~~La~~l~~~~-i~~d~~   59 (199)
T 3vaa_A           28 IFLTGYMGAGKTTLGKAFARKLNVPF-IDLDWY   59 (199)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCCE-EEHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCCCE-EcchHH
Confidence            45799999999999999999999988 888874

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.80  E-value=8.5e-06  Score=58.31  Aligned_cols=31  Identities=3%  Similarity=-0.213  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+|+.|||||+++..||+.++... |++|.
T Consensus        18 I~l~G~~GsGKsT~~~~L~~~~g~~~-i~~d~   48 (203)
T 1ukz_A           18 IFVLGGPGAGKGTQCEKLVKDYSFVH-LSAGD   48 (203)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCceE-EeHHH
Confidence            66899999999999999999999888 99885

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.79  E-value=6.9e-06  Score=60.35  Aligned_cols=32  Identities=9%  Similarity=-0.183  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |+|+||.|||||+++..||+.++... |+.|.+
T Consensus        10 I~l~G~~GsGKsT~a~~La~~l~~~~-i~~d~~   41 (227)
T 1zd8_A           10 AVIMGAPGSGKGTVSSRITTHFELKH-LSSGDL   41 (227)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHSSSEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-EechHH
Confidence            56899999999999999999999888 888753

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.79  E-value=5.7e-06  Score=58.25  Aligned_cols=32  Identities=13%  Similarity=-0.081  Sum_probs=28.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||++|..||++++... ++.|.+
T Consensus         7 i~i~G~~GsGKsTla~~La~~l~~~~-~d~d~~   38 (175)
T 1via_A            7 IVFIGFMGSGKSTLARALAKDLDLVF-LDSDFL   38 (175)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEE-EEHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCCCE-EcccHH
Confidence            66899999999999999999999888 888764

>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=97.78  E-value=6.8e-06  Score=57.35  Aligned_cols=31  Identities=0%  Similarity=-0.251  Sum_probs=28.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+|+.|||||+++..||+.++... +++|.
T Consensus         9 I~l~G~~GsGKsT~~~~L~~~l~~~~-i~~d~   39 (194)
T 1qf9_A            9 VFVLGGPGSGKGTQCANIVRDFGWVH-LSAGD   39 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-eeHHH
Confidence            56899999999999999999999888 88875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.78  E-value=7.3e-06  Score=57.62  Aligned_cols=31  Identities=6%  Similarity=-0.150  Sum_probs=27.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++++||.|||||+++..||+.++... +++|.
T Consensus         7 I~l~G~~GsGKST~~~~La~~l~~~~-i~~d~   37 (186)
T 3cm0_A            7 VIFLGPPGAGKGTQASRLAQELGFKK-LSTGD   37 (186)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEE-ECHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-ecHHH
Confidence            66899999999999999999998888 88874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.77  E-value=1.3e-05  Score=58.94  Aligned_cols=54  Identities=17%  Similarity=0.169  Sum_probs=35.4

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHh-cCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLT-DGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA-~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      +.+++.   |+||+|||||+|+..|+ ..+..          ++.+.++.|.+|...+..++.++..+
T Consensus        26 ~G~ii~---l~Gp~GsGKSTl~~~L~~~~~~~----------~~~~~~~~~~~~~~g~~~g~~~~~~~   80 (231)
T 3lnc_A           26 VGVILV---LSSPSGCGKTTVANKLLEKQKNN----------IVKSVSVTTRAARKGEKEGKDYYFVD   80 (231)
T ss_dssp             CCCEEE---EECSCC----CHHHHHHC----C----------EEECCCEESSCCCTTCCBTTTBEECC
T ss_pred             CCCEEE---EECCCCCCHHHHHHHHHhcCCCC----------cccccccCCCCCCccccCCCeEEEec
Confidence            445554   89999999999999999 54432          45677888999988877777777653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.76  E-value=7.5e-06  Score=57.68  Aligned_cols=31  Identities=0%  Similarity=-0.278  Sum_probs=28.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||.|||||+++..||+.++... ++.|.
T Consensus        12 I~l~G~~GsGKsT~~~~La~~l~~~~-i~~d~   42 (196)
T 2c95_A           12 IFVVGGPGSGKGTQCEKIVQKYGYTH-LSTGD   42 (196)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EcHHH
Confidence            56799999999999999999999888 88875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.76  E-value=1.1e-05  Score=56.07  Aligned_cols=32  Identities=6%  Similarity=-0.164  Sum_probs=27.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+|+..||+.++... +..|..
T Consensus         7 i~l~G~~GsGKSTl~~~La~~l~~~~-id~d~~   38 (173)
T 1kag_A            7 IFLVGPMGAGKSTIGRQLAQQLNMEF-YDSDQE   38 (173)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHTTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EeccHH
Confidence            45799999999999999999998877 877753

>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=97.76  E-value=7.2e-06  Score=57.64  Aligned_cols=32  Identities=9%  Similarity=-0.078  Sum_probs=28.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||+++..||+.++... ++.|.+
T Consensus         8 I~l~G~~GsGKST~~~~L~~~l~~~~-i~~D~~   39 (193)
T 2rhm_A            8 IIVTGHPATGKTTLSQALATGLRLPL-LSKDAF   39 (193)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE-ecHHHH
Confidence            56899999999999999999998888 888865

>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=97.75  E-value=8.7e-06  Score=57.39  Aligned_cols=32  Identities=16%  Similarity=-0.056  Sum_probs=28.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||.++..||+.++... ++.|.+
T Consensus        14 i~i~G~~GsGKst~~~~l~~~~~~~~-~~~d~~   45 (180)
T 3iij_A           14 ILLTGTPGVGKTTLGKELASKSGLKY-INVGDL   45 (180)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEE-EEHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCeE-EEHHHH
Confidence            45799999999999999999999988 888753

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.71  E-value=1e-05  Score=56.02  Aligned_cols=32  Identities=3%  Similarity=-0.383  Sum_probs=28.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |+|+|+.|||||++|..||+.++..+ ++.|.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l~~~~-i~~d~~   34 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSLNIPF-YDVDEE   34 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHHTCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EECcHH
Confidence            67899999999999999999999888 888764

>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=97.70  E-value=1.5e-05  Score=56.98  Aligned_cols=31  Identities=3%  Similarity=-0.259  Sum_probs=27.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+||.|||||+++..||+ ++..+ +++|.+
T Consensus         4 i~i~G~~GsGKSTl~~~L~~-~g~~~-i~~d~~   34 (204)
T 2if2_A            4 IGLTGNIGCGKSTVAQMFRE-LGAYV-LDADKL   34 (204)
T ss_dssp             EEEEECTTSSHHHHHHHHHH-TTCEE-EEHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHH-CCCEE-EEccHH
Confidence            67899999999999999999 88888 888864

>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=97.68  E-value=1.6e-05  Score=56.20  Aligned_cols=31  Identities=6%  Similarity=-0.379  Sum_probs=27.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++..||+. +..+ +++|.+
T Consensus        11 I~i~G~~GsGKST~~~~La~~-g~~~-id~d~~   41 (203)
T 1uf9_A           11 IGITGNIGSGKSTVAALLRSW-GYPV-LDLDAL   41 (203)
T ss_dssp             EEEEECTTSCHHHHHHHHHHT-TCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHC-CCEE-EcccHH
Confidence            668999999999999999998 7777 888853

>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=97.68  E-value=2.9e-05  Score=55.93  Aligned_cols=32  Identities=6%  Similarity=-0.224  Sum_probs=28.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-~~eI~IsaDSm   57 (115)
                      +.|+||+|||||+++..|++.+ +..+ +++|..
T Consensus        24 i~i~G~~GsGKSTl~~~L~~~~~~~~~-i~~D~~   56 (207)
T 2qt1_A           24 IGISGVTNSGKTTLAKNLQKHLPNCSV-ISQDDF   56 (207)
T ss_dssp             EEEEESTTSSHHHHHHHHHTTSTTEEE-EEGGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCcEE-EeCCcc
Confidence            4589999999999999999998 6777 999964

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.67  E-value=2e-05  Score=56.94  Aligned_cols=43  Identities=12%  Similarity=0.060  Sum_probs=29.7

Q ss_pred             eeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          11 VNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        11 ~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      -+.+++.+.+++.   |+||.|||||+|+..||+.++... ++.|.+
T Consensus        21 ~~~m~~~~g~~i~---l~G~~GsGKSTl~~~L~~~~g~~~-i~~d~~   63 (200)
T 4eun_A           21 QSMMTGEPTRHVV---VMGVSGSGKTTIAHGVADETGLEF-AEADAF   63 (200)
T ss_dssp             -------CCCEEE---EECCTTSCHHHHHHHHHHHHCCEE-EEGGGG
T ss_pred             HhhhcCCCCcEEE---EECCCCCCHHHHHHHHHHhhCCeE-Eccccc
Confidence            3445555666655   899999999999999999886666 777764

>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=97.67  E-value=1.7e-05  Score=56.73  Aligned_cols=32  Identities=6%  Similarity=-0.194  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcC-CCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG-PDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~-~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||+++..||+. ++... |++|.+
T Consensus        13 I~l~G~~GsGKSTv~~~La~~l~g~~~-id~d~~   45 (184)
T 1y63_A           13 ILITGTPGTGKTSMAEMIAAELDGFQH-LEVGKL   45 (184)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSTTEEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCEE-eeHHHH
Confidence            567999999999999999999 68888 888853

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.67  E-value=1.9e-05  Score=61.43  Aligned_cols=32  Identities=3%  Similarity=-0.021  Sum_probs=27.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC--CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP--DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~--~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+++..|++++  +... ||+|..
T Consensus        36 ivl~G~sGsGKSTla~~L~~~~~~~~~~-Is~D~~   69 (287)
T 1gvn_B           36 FLLGGQPGSGKTSLRSAIFEETQGNVIV-IDNDTF   69 (287)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHTTTCCEE-ECTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEE-EechHh
Confidence            5689999999999999999988  4556 888754

>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=97.67  E-value=1.9e-05  Score=55.09  Aligned_cols=32  Identities=6%  Similarity=-0.399  Sum_probs=25.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE-eeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC-RTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI-~IsaDS   56 (115)
                      ++|+||.|||||+++..||++++... .++.|.
T Consensus         6 i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D~   38 (178)
T 1qhx_A            6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDS   38 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSSSCEEEEEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEeccch
Confidence            56899999999999999999987543 256664

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.67  E-value=1.3e-05  Score=55.95  Aligned_cols=32  Identities=6%  Similarity=-0.231  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+|+.|||||++|..||++++..+ +.+|.+
T Consensus        10 i~l~G~~GsGKSTva~~La~~lg~~~-id~D~~   41 (168)
T 1zuh_A           10 LVLIGFMGSGKSSLAQELGLALKLEV-LDTDMI   41 (168)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHTCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EEChHH
Confidence            45899999999999999999999998 888764

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=97.66  E-value=2e-05  Score=59.12  Aligned_cols=37  Identities=8%  Similarity=-0.197  Sum_probs=31.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCce----------EeeccceeeeccCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLF----------CRTYQVYLMVYKGL   63 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~e----------I~IsaDSmQVYkgl   63 (115)
                      -+.|+|+.|||||++|..||+.++..          + |+.|.  +|+.+
T Consensus        24 iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~-i~~D~--~~~~~   70 (252)
T 1uj2_A           24 LIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVI-LSQDS--FYRVL   70 (252)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEE-EEGGG--GBCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEE-EecCc--ccccc
Confidence            36789999999999999999998865          6 88886  47654

>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=97.64  E-value=1.2e-05  Score=56.20  Aligned_cols=31  Identities=6%  Similarity=-0.254  Sum_probs=26.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-----ceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDS   56 (115)
                      |+|+||.|||||+++..||+.++     ... ++.|.
T Consensus         6 I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~-i~~~~   41 (192)
T 1kht_A            6 VVVTGVPGVGSTTSSQLAMDNLRKEGVNYKM-VSFGS   41 (192)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCcceEE-EehHH
Confidence            56899999999999999999887     667 76653

>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=97.63  E-value=1.7e-05  Score=57.87  Aligned_cols=31  Identities=6%  Similarity=-0.134  Sum_probs=28.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+++||.|||||++|..||+.++... |+.|.
T Consensus         7 I~l~G~~GsGKsT~a~~La~~l~~~~-i~~d~   37 (220)
T 1aky_A            7 MVLIGPPGAGKGTQAPNLQERFHAAH-LATGD   37 (220)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCceE-EehhH
Confidence            56799999999999999999999888 88765

>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=97.63  E-value=2.1e-05  Score=55.00  Aligned_cols=32  Identities=9%  Similarity=-0.038  Sum_probs=27.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+++..|++.++... ++.|.+
T Consensus        11 i~l~G~~GsGKSTl~~~l~~~~g~~~-i~~d~~   42 (175)
T 1knq_A           11 YVLMGVSGSGKSAVASEVAHQLHAAF-LDGDFL   42 (175)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHTCEE-EEGGGG
T ss_pred             EEEEcCCCCCHHHHHHHHHHhhCcEE-EeCccc
Confidence            45899999999999999999887777 888875

>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=97.62  E-value=1.5e-05  Score=59.14  Aligned_cols=32  Identities=3%  Similarity=-0.321  Sum_probs=29.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||++|..||+.++..+ |++|.+
T Consensus        15 IgltG~~GSGKSTva~~L~~~lg~~v-id~D~~   46 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKYGAHV-VNVDRI   46 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCEE-EECcHH
Confidence            56799999999999999999889999 999976

>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=97.61  E-value=1.3e-05  Score=58.36  Aligned_cols=31  Identities=0%  Similarity=-0.285  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||.|||||++|..||+.++... |++|.
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~g~~~-i~~d~   33 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKYGIPQ-ISTGD   33 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EeHHH
Confidence            67899999999999999999998888 88864

>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=97.61  E-value=1.5e-05  Score=57.65  Aligned_cols=32  Identities=3%  Similarity=-0.166  Sum_probs=27.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+||+|||||+++..||+.++... +.+|.+
T Consensus         8 i~i~G~~GsGKSTl~~~L~~~~g~~~-~d~g~i   39 (227)
T 1cke_A            8 ITIDGPSGAGKGTLCKAMAEALQWHL-LDSGAI   39 (227)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCc-ccCcce
Confidence            55899999999999999999998888 777654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.61  E-value=1.3e-05  Score=58.52  Aligned_cols=31  Identities=3%  Similarity=-0.255  Sum_probs=27.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||.|||||+++..||+.++... ++.|.
T Consensus         8 I~l~G~~GsGKsT~~~~La~~l~~~~-i~~d~   38 (222)
T 1zak_A            8 VMISGAPASGKGTQCELIKTKYQLAH-ISAGD   38 (222)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCEE-CCHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-ecHHH
Confidence            56799999999999999999999877 77765

>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=97.59  E-value=2.7e-05  Score=55.86  Aligned_cols=43  Identities=12%  Similarity=-0.020  Sum_probs=30.8

Q ss_pred             eeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          10 QVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        10 ~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .-|+..+...-+   |+|+||.|||||++|..||+.++... |+.|.
T Consensus        11 ~~~~~~~~~~~~---I~l~G~~GsGKST~a~~La~~l~~~~-i~~d~   53 (201)
T 2cdn_A           11 SSGLVPRGSHMR---VLLLGPPGAGKGTQAVKLAEKLGIPQ-ISTGE   53 (201)
T ss_dssp             -----CCCSCCE---EEEECCTTSSHHHHHHHHHHHHTCCE-EEHHH
T ss_pred             cccccCCCCCeE---EEEECCCCCCHHHHHHHHHHHhCCcE-EehhH
Confidence            345555444432   55899999999999999999998888 88765

>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=97.58  E-value=1.6e-05  Score=56.43  Aligned_cols=32  Identities=6%  Similarity=-0.145  Sum_probs=28.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++..||+.++..+ +..|.+
T Consensus         5 i~i~G~~GsGKst~~~~la~~lg~~~-~d~d~~   36 (208)
T 3ake_A            5 VTIDGPSASGKSSVARRVAAALGVPY-LSSGLL   36 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCce-eccchH
Confidence            56899999999999999999999888 888854

>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=97.57  E-value=2.8e-05  Score=55.17  Aligned_cols=33  Identities=15%  Similarity=0.019  Sum_probs=27.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+|+..|++..++.+.++.|.+
T Consensus         5 i~l~G~~GaGKSTl~~~L~~~~~g~~~i~~d~~   37 (189)
T 2bdt_A            5 YIITGPAGVGKSTTCKRLAAQLDNSAYIEGDII   37 (189)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSSEEEEEHHHH
T ss_pred             EEEECCCCCcHHHHHHHHhcccCCeEEEcccch
Confidence            458999999999999999998888654777754

>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=97.56  E-value=9.6e-05  Score=51.99  Aligned_cols=38  Identities=11%  Similarity=-0.097  Sum_probs=28.4

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCC-ceEeecccee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPD-LFCRTYQVYL   57 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~-~eI~IsaDSm   57 (115)
                      .+.+++.   |+||.|||||+|+..||..++ +.|.++.|.+
T Consensus         7 ~~g~~i~---l~G~~GsGKSTl~~~La~~~~~g~i~i~~d~~   45 (191)
T 1zp6_A            7 LGGNILL---LSGHPGSGKSTIAEALANLPGVPKVHFHSDDL   45 (191)
T ss_dssp             CTTEEEE---EEECTTSCHHHHHHHHHTCSSSCEEEECTTHH
T ss_pred             CCCeEEE---EECCCCCCHHHHHHHHHhccCCCeEEEcccch
Confidence            3455554   899999999999999999875 4443666653

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.55  E-value=1.9e-05  Score=57.89  Aligned_cols=31  Identities=3%  Similarity=-0.277  Sum_probs=28.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+|+.|||||++|..||+.++... |+.|.
T Consensus         8 I~l~G~~GsGKsT~a~~La~~l~~~~-i~~d~   38 (217)
T 3be4_A            8 LILIGAPGSGKGTQCEFIKKEYGLAH-LSTGD   38 (217)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCceE-EehhH
Confidence            67899999999999999999999888 88875

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.55  E-value=2.6e-05  Score=54.52  Aligned_cols=30  Identities=10%  Similarity=-0.105  Sum_probs=26.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI~IsaD   55 (115)
                      ++|+|+.|||||+++..|++.+   +..+ +++|
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~~~g~~~-i~~d   35 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLKQKGYFV-SLYR   35 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCE-EEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeE-EEEe
Confidence            5789999999999999999987   6677 7776

>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=97.54  E-value=3.4e-05  Score=62.83  Aligned_cols=37  Identities=3%  Similarity=-0.147  Sum_probs=32.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      ++|+|+.|||||++|..|++.++... |+.|.+..|+.
T Consensus       261 Iil~G~pGSGKSTla~~L~~~~~~~~-i~~D~~~~~~~  297 (416)
T 3zvl_A          261 VVAVGFPGAGKSTFIQEHLVSAGYVH-VNRDTLGSWQR  297 (416)
T ss_dssp             EEEESCTTSSHHHHHHHHTGGGTCEE-CCGGGSCSHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCcEE-EccchHHHHHH
Confidence            45899999999999999999999999 99999876653

>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=97.53  E-value=4.1e-05  Score=54.99  Aligned_cols=31  Identities=6%  Similarity=-0.331  Sum_probs=27.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+||.|||||+++..||+ ++..+ +++|.+
T Consensus         5 i~l~G~~GsGKST~~~~La~-lg~~~-id~d~~   35 (206)
T 1jjv_A            5 VGLTGGIGSGKTTIANLFTD-LGVPL-VDADVV   35 (206)
T ss_dssp             EEEECSTTSCHHHHHHHHHT-TTCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCcc-cchHHH
Confidence            56899999999999999998 88778 888865

>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=97.53  E-value=2.7e-05  Score=58.58  Aligned_cols=31  Identities=6%  Similarity=-0.081  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||++|..|+++++... |++|.
T Consensus        32 I~l~G~~GsGKsT~a~~L~~~~g~~~-is~~~   62 (243)
T 3tlx_A           32 YIFLGAPGSGKGTQSLNLKKSHCYCH-LSTGD   62 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EecHH
Confidence            56799999999999999999999888 88865

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.52  E-value=2.3e-05  Score=57.89  Aligned_cols=31  Identities=13%  Similarity=-0.115  Sum_probs=27.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||.|||||+++..||+.++... |+.|.
T Consensus         3 I~l~G~~GsGKsT~a~~La~~lg~~~-i~~dd   33 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKYSLAH-IESGG   33 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EchHH
Confidence            67899999999999999999998888 88865

>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=97.49  E-value=3.2e-05  Score=57.20  Aligned_cols=31  Identities=6%  Similarity=-0.170  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+++|+.|||||++|..||++++... |+.|.
T Consensus        19 I~l~G~~GsGKsT~a~~La~~l~~~~-i~~d~   49 (233)
T 1ak2_A           19 AVLLGPPGAGKGTQAPKLAKNFCVCH-LATGD   49 (233)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-ecHHH
Confidence            66799999999999999999999888 88874

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.47  E-value=2.5e-05  Score=54.46  Aligned_cols=23  Identities=9%  Similarity=-0.132  Sum_probs=21.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |+|+||.|||||+++-.||++++
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            4 GIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            67899999999999999999886

>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=97.45  E-value=7e-05  Score=54.33  Aligned_cols=31  Identities=3%  Similarity=-0.231  Sum_probs=27.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++..||+ ++..+ |++|.+
T Consensus         7 I~i~G~~GSGKST~~~~L~~-lg~~~-id~D~~   37 (218)
T 1vht_A            7 VALTGGIGSGKSTVANAFAD-LGINV-IDADII   37 (218)
T ss_dssp             EEEECCTTSCHHHHHHHHHH-TTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH-cCCEE-EEccHH
Confidence            56899999999999999999 88888 888853

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.44  E-value=7.7e-05  Score=55.77  Aligned_cols=35  Identities=9%  Similarity=-0.105  Sum_probs=27.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      +++|.||+|+|||.||..+|+.++..+ +..+..++
T Consensus        53 ~~ll~G~~GtGKT~la~~la~~~~~~~-~~v~~~~~   87 (285)
T 3h4m_A           53 GILLYGPPGTGKTLLAKAVATETNATF-IRVVGSEL   87 (285)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHHTTCEE-EEEEGGGG
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhCCCE-EEEehHHH
Confidence            456799999999999999999998876 54444333

>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=97.42  E-value=5.5e-05  Score=57.27  Aligned_cols=30  Identities=3%  Similarity=-0.069  Sum_probs=26.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-CceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-DLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-~~eI~IsaD   55 (115)
                      ++|+||.|||||++|..|++++ +... |+.|
T Consensus         5 I~l~G~~GsGKST~a~~L~~~~~~~~~-i~~D   35 (301)
T 1ltq_A            5 ILTIGCPGSGKSTWAREFIAKNPGFYN-INRD   35 (301)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSTTEEE-ECHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCcEE-eccc
Confidence            5689999999999999999975 6667 9998

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.41  E-value=5e-05  Score=51.96  Aligned_cols=23  Identities=13%  Similarity=-0.198  Sum_probs=20.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|.||+|+|||.|+..+|+.+
T Consensus        45 ~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           45 NPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHHHH
Confidence            34679999999999999999875

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=97.40  E-value=2.5e-05  Score=61.00  Aligned_cols=32  Identities=0%  Similarity=-0.261  Sum_probs=25.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-----ceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSm   57 (115)
                      +.|+||.|||||++|..|++.++     ..+ |++|++
T Consensus         8 IgItG~sGSGKSTva~~L~~~lg~~~~~~~v-I~~D~~   44 (290)
T 1a7j_A            8 ISVTGSSGAGTSTVKHTFDQIFRREGVKAVS-IEGDAF   44 (290)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHHHTCCEEE-EEGGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCCeeE-eecchh
Confidence            66899999999999999999876     577 999975

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.37  E-value=0.00012  Score=54.15  Aligned_cols=54  Identities=17%  Similarity=0.126  Sum_probs=34.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHL   82 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHL   82 (115)
                      .+.+++.   |+||+|||||+|...|+..+.|.|.+         +.++.|..|...++.++.+.+
T Consensus        21 ~~G~~~~---lvGpsGsGKSTLl~~L~g~~pG~i~~---------g~~~~~~~~~~~~~~~i~~~~   74 (218)
T 1z6g_A           21 NNIYPLV---ICGPSGVGKGTLIKKLLNEFPNYFYF---------SVSCTTRKKREKEKEGVDYYF   74 (218)
T ss_dssp             -CCCCEE---EECSTTSSHHHHHHHHHHHSTTTEEE---------CCCEECSCCCSSCCBTTTBEE
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHHhhCCCcEEE---------eecccCCCCCcccccCCeEEE
Confidence            4556665   89999999999999998755455522         445555555444555555444

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=97.36  E-value=6.7e-05  Score=54.17  Aligned_cols=32  Identities=3%  Similarity=-0.118  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++..||+.++... ++.|.+
T Consensus         6 i~i~G~~gsGkst~~~~l~~~~g~~~-~~~d~~   37 (219)
T 2h92_A            6 IALDGPAAAGKSTIAKRVASELSMIY-VDTGAM   37 (219)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCce-ecCChH
Confidence            56899999999999999999999888 777754

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.36  E-value=7.3e-05  Score=52.59  Aligned_cols=26  Identities=0%  Similarity=-0.203  Sum_probs=23.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |+|.|+.|||||+++..||+.++...
T Consensus         3 I~i~G~~GsGKsT~~~~L~~~l~~~~   28 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISAEISKKLGYEI   28 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHCCEE
T ss_pred             EEEECCCccCHHHHHHHHHHhcCCcE
Confidence            67899999999999999999988765

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.35  E-value=6.9e-05  Score=52.26  Aligned_cols=27  Identities=11%  Similarity=-0.173  Sum_probs=20.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRT   52 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~I   52 (115)
                      |+|+|+.|||||++|..||+.++..+ +
T Consensus         8 I~l~G~~GsGKST~a~~La~~l~~~~-i   34 (183)
T 2vli_A            8 IWINGPFGVGKTHTAHTLHERLPGSF-V   34 (183)
T ss_dssp             EEEECCC----CHHHHHHHHHSTTCE-E
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCE-E
Confidence            56799999999999999999999887 5

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.35  E-value=0.00011  Score=54.76  Aligned_cols=44  Identities=9%  Similarity=-0.173  Sum_probs=31.7

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCce----------EeeccceeeeccCCce
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLF----------CRTYQVYLMVYKGLDV   65 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~e----------I~IsaDSmQVYkgldI   65 (115)
                      -.+.+++-   |+||.|||||+|+..|+..++..          + +..|.  +|+.+..
T Consensus        22 i~~g~iig---I~G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~-v~~d~--~~~~l~~   75 (245)
T 2jeo_A           22 SMRPFLIG---VSGGTASGKSTVCEKIMELLGQNEVEQRQRKVVI-LSQDR--FYKVLTA   75 (245)
T ss_dssp             -CCSEEEE---EECSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEE-EEGGG--GBCCCCH
T ss_pred             CCCCEEEE---EECCCCCCHHHHHHHHHHHhchhcccccCCceEE-EeCCc--CccccCH
Confidence            34455544   89999999999999999866532          4 67774  7876643

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.34  E-value=8.9e-05  Score=50.37  Aligned_cols=22  Identities=14%  Similarity=-0.154  Sum_probs=19.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.||+|+|||.|+..+|+.+
T Consensus        46 ~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           46 PVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999999875

>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=97.34  E-value=7.1e-05  Score=56.14  Aligned_cols=31  Identities=13%  Similarity=0.052  Sum_probs=26.0

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ....+++|.||+|+|||.||..+|+..+...
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~   92 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEESNFPF   92 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHHHTCSE
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHhCCCE
Confidence            3445677899999999999999999887654

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=97.32  E-value=8.9e-05  Score=56.36  Aligned_cols=45  Identities=7%  Similarity=-0.068  Sum_probs=37.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc--eecCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD--VITNKV   70 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld--IgTAKP   70 (115)
                      .++|+|+.|+|||+||.+|.++ +..+ |+-|...|++.-+  +|++.+
T Consensus        18 gvli~G~SGaGKStlal~L~~r-G~~l-vaDD~v~i~~~~~~l~g~~p~   64 (181)
T 3tqf_A           18 GVLITGEANIGKSELSLALIDR-GHQL-VCDDVIDLKQENNQLIGSCPS   64 (181)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHT-TCEE-EESSEEEEEESSSCEEEECCT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc-CCeE-ecCCEEEEEEeCCEEEEeCch
Confidence            4679999999999999999985 6778 9999999998866  566544

>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=97.31  E-value=8.9e-05  Score=58.32  Aligned_cols=33  Identities=12%  Similarity=-0.056  Sum_probs=26.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++++.||+|+|||.+|..+|+.++..+ +..|..
T Consensus        74 ~ill~Gp~GtGKT~la~~la~~l~~~~-~~~~~~  106 (376)
T 1um8_A           74 NILLIGPTGSGKTLMAQTLAKHLDIPI-AISDAT  106 (376)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTTCCE-EEEEGG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCCE-EEecch
Confidence            456899999999999999999998766 544443

>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=97.31  E-value=8.2e-05  Score=57.38  Aligned_cols=31  Identities=6%  Similarity=-0.201  Sum_probs=28.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |.|+|+.|||||++|-.|+ +++..+ |++|.+
T Consensus        78 I~I~G~~GSGKSTva~~La-~lg~~~-id~D~~  108 (281)
T 2f6r_A           78 LGLTGISGSGKSSVAQRLK-NLGAYI-IDSDHL  108 (281)
T ss_dssp             EEEEECTTSCHHHHHHHHH-HHTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCcE-EehhHH
Confidence            6789999999999999999 578888 999876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.30  E-value=9.8e-05  Score=55.58  Aligned_cols=32  Identities=3%  Similarity=-0.323  Sum_probs=26.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc--eEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL--FCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~--eI~IsaDSm   57 (115)
                      ++++||.|||||++|..|++.++.  .+ ++.|.+
T Consensus        35 i~l~G~~GsGKSTla~~L~~~l~~~~~~-~~~D~~   68 (253)
T 2p5t_B           35 ILLGGQSGAGKTTIHRIKQKEFQGNIVI-IDGDSF   68 (253)
T ss_dssp             EEEESCGGGTTHHHHHHHHHHTTTCCEE-ECGGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCcEE-EecHHH
Confidence            568999999999999999999873  34 677754

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.28  E-value=7.8e-05  Score=55.65  Aligned_cols=27  Identities=15%  Similarity=-0.016  Sum_probs=23.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++++.||+|+|||.+|..+|+.++..+
T Consensus        52 ~vll~G~~GtGKT~la~~la~~l~~~~   78 (310)
T 1ofh_A           52 NILMIGPTGVGKTEIARRLAKLANAPF   78 (310)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTCCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            566799999999999999999887655

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.28  E-value=9.7e-05  Score=55.70  Aligned_cols=24  Identities=4%  Similarity=-0.175  Sum_probs=20.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++|.||+|+|||.+|..+|+.+
T Consensus        68 ~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           68 LHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            356689999999999999998776

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.27  E-value=0.00014  Score=54.78  Aligned_cols=27  Identities=7%  Similarity=-0.139  Sum_probs=24.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +++|.||+|+|||.+|..+|+..+...
T Consensus        56 ~vll~Gp~GtGKT~la~~la~~~~~~~   82 (297)
T 3b9p_A           56 GLLLFGPPGNGKTLLARAVATECSATF   82 (297)
T ss_dssp             EEEEESSSSSCHHHHHHHHHHHTTCEE
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhCCCe
Confidence            456899999999999999999998766

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.27  E-value=0.00012  Score=54.41  Aligned_cols=32  Identities=6%  Similarity=-0.140  Sum_probs=25.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .++|.||+|+|||.|+..+|..++... +..|.
T Consensus        47 ~vll~G~~GtGKT~la~~la~~~~~~~-~~i~~   78 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGEAKVPF-FTISG   78 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCE-EEECS
T ss_pred             eEEEECcCCCCHHHHHHHHHHHcCCCE-EEEeH
Confidence            466899999999999999999887655 44443

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.26  E-value=8.9e-05  Score=53.22  Aligned_cols=32  Identities=3%  Similarity=-0.309  Sum_probs=27.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC--ceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD--LFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~--~eI~IsaDSm   57 (115)
                      +.|+||+|||||+|+..|+..++  ..+ +..|..
T Consensus         9 i~i~G~~GsGKSTl~~~l~~~~~~~i~~-v~~d~~   42 (211)
T 3asz_A            9 IGIAGGTASGKTTLAQALARTLGERVAL-LPMDHY   42 (211)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHGGGEEE-EEGGGC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEE-EecCcc
Confidence            34899999999999999999877  667 888874

>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=97.25  E-value=7.7e-05  Score=57.45  Aligned_cols=37  Identities=8%  Similarity=-0.124  Sum_probs=30.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld   64 (115)
                      +.|.||.|||||+++..||+.++... ++.|.  +||++.
T Consensus        12 i~i~G~~GsGKsTla~~la~~lg~~~-~d~g~--~~r~~~   48 (233)
T 3r20_A           12 VAVDGPAGTGKSSVSRGLARALGARY-LDTGA--MYRIAT   48 (233)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCEE-EEHHH--HHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCc-ccCCc--HHHHHH
Confidence            56899999999999999999999888 66664  576643

>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=97.24  E-value=0.00011  Score=53.89  Aligned_cols=27  Identities=7%  Similarity=-0.080  Sum_probs=23.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +++|.||+|+|||.+|..+|+.++...
T Consensus        41 ~vll~G~~GtGKT~la~~la~~~~~~~   67 (262)
T 2qz4_A           41 GALLLGPPGCGKTLLAKAVATEAQVPF   67 (262)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHTCCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            456799999999999999999887655

>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=97.24  E-value=0.00012  Score=57.38  Aligned_cols=33  Identities=15%  Similarity=-0.091  Sum_probs=27.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++++.||+|+|||.+|..||+.++... +..|..
T Consensus        53 ~vll~GppGtGKT~la~~ia~~~~~~~-~~~~~~   85 (363)
T 3hws_A           53 NILLIGPTGSGKTLLAETLARLLDVPF-TMADAT   85 (363)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTTCCE-EEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCE-EEechH
Confidence            466899999999999999999998876 555443

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.24  E-value=0.00011  Score=55.58  Aligned_cols=33  Identities=9%  Similarity=-0.096  Sum_probs=27.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVY   60 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVY   60 (115)
                      +.|+||.|||||+++..||++++... +  |+=.+|
T Consensus        30 I~I~G~~GsGKSTl~k~La~~Lg~~~-~--d~g~i~   62 (252)
T 4e22_A           30 ITVDGPSGAGKGTLCKALAESLNWRL-L--DSGAIY   62 (252)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCEE-E--EHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCc-C--CCCcee
Confidence            44899999999999999999999877 4  555555

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.23  E-value=4e-05  Score=54.67  Aligned_cols=30  Identities=7%  Similarity=-0.300  Sum_probs=24.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      |+|+|+.|||||+++..||+.++... +++|
T Consensus        13 I~l~G~~GsGKST~~~~L~~~l~~~~-~~~~   42 (212)
T 2wwf_A           13 IVFEGLDRSGKSTQSKLLVEYLKNNN-VEVK   42 (212)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT-CCEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcC-CcEE
Confidence            56899999999999999999876554 4444

>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=97.21  E-value=0.00017  Score=51.04  Aligned_cols=26  Identities=4%  Similarity=-0.146  Sum_probs=22.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-ceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-LFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-~eI   50 (115)
                      |+|+|+.|||||+++-.||+.++ ..+
T Consensus         7 I~l~G~~GsGKsT~~~~L~~~l~g~~~   33 (204)
T 2v54_A            7 IVFEGLDKSGKTTQCMNIMESIPANTI   33 (204)
T ss_dssp             EEEECCTTSSHHHHHHHHHHTSCGGGE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHCCCce
Confidence            56799999999999999999995 345

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.21  E-value=0.00019  Score=49.58  Aligned_cols=23  Identities=4%  Similarity=-0.285  Sum_probs=20.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|.||+|+|||.+|..+++..
T Consensus        26 ~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           26 AVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CEEEECCCCCCHHHHHHHHHHhC
Confidence            35679999999999999999875

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.21  E-value=6.9e-05  Score=57.92  Aligned_cols=33  Identities=3%  Similarity=-0.363  Sum_probs=26.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ..+|+.||+|+|||.||..+|+.++..+ +..+.
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~l~~~~-i~v~~   69 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRKMGINP-IMMSA   69 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHHTCCC-EEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCE-EEEeH
Confidence            3566799999999999999999998766 54443

>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=97.18  E-value=0.00029  Score=51.13  Aligned_cols=63  Identities=16%  Similarity=0.103  Sum_probs=34.0

Q ss_pred             cceeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeee
Q psy7554           7 THYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHL   82 (115)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHL   82 (115)
                      +.|-.|=++=.+.+++.   |+||+|||||+|...|+.-+. .+.++         .++.+.+|...+++++.+.+
T Consensus         8 ~~~~~~~~~i~~Gei~~---l~GpnGsGKSTLl~~l~gl~~-~i~~~---------~~~~~~~~~~~~~~~i~~~~   70 (207)
T 1znw_A            8 TKPTARGQPAAVGRVVV---LSGPSAVGKSTVVRCLRERIP-NLHFS---------VSATTRAPRPGEVDGVDYHF   70 (207)
T ss_dssp             -----------CCCEEE---EECSTTSSHHHHHHHHHHHST-TCEEC---------CCEESSCCCTTCCBTTTBEE
T ss_pred             CCcCCCCCCCCCCCEEE---EECCCCCCHHHHHHHHHhhCC-ceEEc---------ccccccCCcccccCCCeeEe
Confidence            33444445666778776   899999999999999986654 22121         24555555444455555444

>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=97.17  E-value=0.00017  Score=54.62  Aligned_cols=32  Identities=6%  Similarity=-0.101  Sum_probs=26.1

Q ss_pred             eeeeccCCCchhHHHHHHhcC---CCceEee--cccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG---PDLFCRT--YQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~---~~~eI~I--saDSm   57 (115)
                      |+|+|+.|||||++|..||+.   .+..+ +  +.|.+
T Consensus         7 Ivl~G~pGSGKSTla~~La~~L~~~g~~~-i~~~~D~~   43 (260)
T 3a4m_A            7 IILTGLPGVGKSTFSKNLAKILSKNNIDV-IVLGSDLI   43 (260)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCE-EEECTHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhCCCEE-EEECchHH
Confidence            568999999999999999987   56555 4  77754

>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=97.17  E-value=0.00014  Score=54.45  Aligned_cols=29  Identities=7%  Similarity=-0.018  Sum_probs=26.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      ++|.||.||||+++|-.||++++..- ||+
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~-ist   31 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVH-IST   31 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEE-EEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeE-EcH
Confidence            57899999999999999999999887 776

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.17  E-value=0.00011  Score=51.92  Aligned_cols=24  Identities=17%  Similarity=-0.086  Sum_probs=21.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |+|+|+.|||||+++..||+.++.
T Consensus         7 I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            7 IAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhh
Confidence            568999999999999999998765

>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=97.15  E-value=8.5e-05  Score=55.19  Aligned_cols=31  Identities=6%  Similarity=-0.199  Sum_probs=24.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||+|+..||++++..- ++.|.
T Consensus        30 i~l~G~~GsGKSTl~k~La~~lg~~~-~~~G~   60 (246)
T 2bbw_A           30 AVILGPPGSGKGTVCQRIAQNFGLQH-LSSGH   60 (246)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCCC-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-ecHHH
Confidence            45799999999999999998887655 44443

>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=97.14  E-value=0.00024  Score=54.73  Aligned_cols=31  Identities=6%  Similarity=-0.146  Sum_probs=25.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      .++|.||+|+|||.||..+|..++... +..+
T Consensus        51 ~vLL~Gp~GtGKT~la~ala~~~~~~~-i~v~   81 (301)
T 3cf0_A           51 GVLFYGPPGCGKTLLAKAIANECQANF-ISIK   81 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHTTCEE-EEEC
T ss_pred             eEEEECCCCcCHHHHHHHHHHHhCCCE-EEEE
Confidence            345799999999999999999888766 4444

>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=97.13  E-value=8.4e-05  Score=55.23  Aligned_cols=31  Identities=6%  Similarity=-0.136  Sum_probs=24.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      +++|.||+|+|||.||..+|+.++..+ +..+
T Consensus        46 ~vll~G~~GtGKT~la~~la~~~~~~~-~~v~   76 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGEAHVPF-FSMG   76 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHHHTCCC-CCCC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhCCCE-EEec
Confidence            356799999999999999999877655 4443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=97.09  E-value=0.00014  Score=53.81  Aligned_cols=32  Identities=6%  Similarity=-0.204  Sum_probs=27.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +.|+|+.|||||+++..||+.++... +++|.+
T Consensus        19 i~i~G~~gsGKst~~~~l~~~lg~~~-~d~d~~   50 (236)
T 1q3t_A           19 IAIDGPASSGKSTVAKIIAKDFGFTY-LDTGAM   50 (236)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCce-ecCCCe
Confidence            55799999999999999999999888 776654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.08  E-value=0.00023  Score=54.55  Aligned_cols=33  Identities=9%  Similarity=-0.134  Sum_probs=26.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE-eeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC-RTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI-~IsaDS   56 (115)
                      +++|.||+|+|||.||..+|+.++... .+++..
T Consensus        57 ~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~   90 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLANIISYEMSANIKTTAAPM   90 (338)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhCCCeEEecchh
Confidence            567899999999999999999887654 245433

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.08  E-value=0.00029  Score=56.02  Aligned_cols=33  Identities=6%  Similarity=-0.166  Sum_probs=27.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .++||.||+|+|||.||..+|+.++..+ +..+.
T Consensus       149 ~~vLL~GppGtGKT~la~aia~~~~~~~-~~v~~  181 (389)
T 3vfd_A          149 RGLLLFGPPGNGKTMLAKAVAAESNATF-FNISA  181 (389)
T ss_dssp             SEEEEESSTTSCHHHHHHHHHHHTTCEE-EEECS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhcCcE-EEeeH
Confidence            3567899999999999999999998876 44433

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.07  E-value=0.00019  Score=50.46  Aligned_cols=37  Identities=8%  Similarity=-0.097  Sum_probs=27.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSmQVYkg   62 (115)
                      ++|+|+.|||||+++..|++.+   +... +..|+-.+-+.
T Consensus         8 i~l~G~~GsGKST~~~~L~~~l~~~g~~~-i~~d~~~~~~~   47 (179)
T 2pez_A            8 VWLTGLSGAGKTTVSMALEEYLVCHGIPC-YTLDGDNIRQG   47 (179)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCE-EEEEHHHHTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhCCCcE-EEECChHHHHH
Confidence            3489999999999999999876   5455 55555444443

>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=97.07  E-value=0.00019  Score=51.77  Aligned_cols=28  Identities=7%  Similarity=-0.165  Sum_probs=23.1

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.+.+++.   |+||.|||||+|+..||+.+
T Consensus        22 ~~~g~~i~---l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           22 DQKGCVIW---VTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             TSCCEEEE---EECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEE---EECCCCCCHHHHHHHHHHHH
Confidence            44555544   79999999999999999887

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.06  E-value=0.00028  Score=50.23  Aligned_cols=23  Identities=4%  Similarity=-0.230  Sum_probs=20.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||+|+|||.|+..+|+.+
T Consensus        54 ~~ll~G~~G~GKT~la~~l~~~~   76 (242)
T 3bos_A           54 AIYLWGPVKSGRTHLIHAACARA   76 (242)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            56689999999999999998765

>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=97.06  E-value=0.00032  Score=55.46  Aligned_cols=27  Identities=7%  Similarity=-0.112  Sum_probs=24.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++||.||+|+|||.||..+|+.++...
T Consensus       119 ~vLl~GppGtGKT~la~aia~~~~~~~  145 (357)
T 3d8b_A          119 GILLFGPPGTGKTLIGKCIASQSGATF  145 (357)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHTTCEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCeE
Confidence            456799999999999999999998766

>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=97.02  E-value=9.5e-05  Score=52.67  Aligned_cols=24  Identities=8%  Similarity=-0.100  Sum_probs=21.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |+|+|+.|||||+++..||+.++.
T Consensus        12 I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A           12 IVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            567999999999999999987654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.02  E-value=0.00034  Score=49.48  Aligned_cols=22  Identities=14%  Similarity=0.179  Sum_probs=19.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+||+|||||+++..|+..+
T Consensus         9 i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            9 IVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            3489999999999999999887

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.02  E-value=0.00023  Score=54.05  Aligned_cols=29  Identities=3%  Similarity=-0.221  Sum_probs=26.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      ++|.||.||||+++|-.||++++..- ||+
T Consensus        32 I~llGpPGsGKgTqa~~L~~~~g~~h-Ist   60 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQKFHFNH-LSS   60 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHHCCEE-ECH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCce-EcH
Confidence            45799999999999999999999887 776

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.01  E-value=0.00051  Score=51.10  Aligned_cols=34  Identities=12%  Similarity=-0.154  Sum_probs=25.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC---c-eEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD---L-FCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~---~-eI~IsaDSm   57 (115)
                      +++|.||+|+|||.+|..+++..+   . .+.++|.++
T Consensus        31 ~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~   68 (265)
T 2bjv_A           31 PVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAAL   68 (265)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGS
T ss_pred             CEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCC
Confidence            567899999999999999998764   2 333666543

>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=97.01  E-value=0.00027  Score=54.77  Aligned_cols=32  Identities=6%  Similarity=-0.151  Sum_probs=26.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ..+|+.||+|+|||.||..+|+..+..+ +..+
T Consensus        52 ~~vLl~GppGtGKT~la~aia~~~~~~~-~~v~   83 (322)
T 3eie_A           52 SGILLYGPPGTGKSYLAKAVATEANSTF-FSVS   83 (322)
T ss_dssp             CEEEEECSSSSCHHHHHHHHHHHHTCEE-EEEE
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHCCCE-EEEc
Confidence            3566899999999999999999988766 4443

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.00  E-value=0.00026  Score=48.90  Aligned_cols=24  Identities=0%  Similarity=-0.261  Sum_probs=21.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      .++|.||+|+|||.+|..+++..+
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~~~   52 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKNGT   52 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCTTS
T ss_pred             cEEEECCCCccHHHHHHHHHHhCC
Confidence            366799999999999999998877

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.97  E-value=0.00038  Score=49.59  Aligned_cols=23  Identities=4%  Similarity=-0.200  Sum_probs=19.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|.||+|+|||.|+..+|..+
T Consensus        56 ~~~l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           56 GLYLHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            45679999999999999988654

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=96.97  E-value=0.00028  Score=57.68  Aligned_cols=36  Identities=17%  Similarity=0.045  Sum_probs=28.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC--ceEeeccceeeec
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD--LFCRTYQVYLMVY   60 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~--~eI~IsaDSmQVY   60 (115)
                      ++|+.||+|+|||.||..+|+.++  ... +..+.-.++
T Consensus        65 ~iLl~GppGtGKT~la~ala~~l~~~~~~-~~~~~~~~~  102 (456)
T 2c9o_A           65 AVLLAGPPGTGKTALALAIAQELGSKVPF-CPMVGSEVY  102 (456)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCTTSCE-EEEEGGGGC
T ss_pred             eEEEECCCcCCHHHHHHHHHHHhCCCceE-EEEeHHHHH
Confidence            467899999999999999999887  555 555544444

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.96  E-value=0.00048  Score=53.92  Aligned_cols=27  Identities=7%  Similarity=-0.076  Sum_probs=23.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC-CceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP-DLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~-~~eI   50 (115)
                      ++|+.||+|+|||.||..+|+.+ +...
T Consensus        47 ~iLL~GppGtGKT~la~ala~~~~~~~~   74 (322)
T 1xwi_A           47 GILLFGPPGTGKSYLAKAVATEANNSTF   74 (322)
T ss_dssp             EEEEESSSSSCHHHHHHHHHHHTTSCEE
T ss_pred             eEEEECCCCccHHHHHHHHHHHcCCCcE
Confidence            56679999999999999999988 5444

>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=96.95  E-value=0.00041  Score=48.79  Aligned_cols=22  Identities=9%  Similarity=-0.177  Sum_probs=18.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.||+|+|||.|+..+|..+
T Consensus        41 ~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           41 LTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             EEECCSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            3479999999999999888654

>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=96.95  E-value=0.00038  Score=57.81  Aligned_cols=33  Identities=6%  Similarity=-0.099  Sum_probs=27.1

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      .-.+||+||+|+|||.+|..+|+.++..+ +..+
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~l~~~~-i~in  109 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQELGYDI-LEQN  109 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTTCEE-EEEC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCCE-EEEe
Confidence            34567899999999999999999998776 4433

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.95  E-value=0.00044  Score=50.29  Aligned_cols=22  Identities=9%  Similarity=-0.046  Sum_probs=18.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+||+|||||+|...|+..+
T Consensus         7 i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            7 VVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            3489999999999999888644

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.93  E-value=0.00041  Score=48.10  Aligned_cols=22  Identities=18%  Similarity=0.125  Sum_probs=19.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.||+|+|||.|+..+|+.+
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999865

>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=96.89  E-value=0.00025  Score=56.20  Aligned_cols=35  Identities=6%  Similarity=-0.167  Sum_probs=28.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      .+|+.||+|+|||.||..+|+.++..+ +..+.-.+
T Consensus        86 ~iLL~GppGtGKT~la~ala~~~~~~~-~~v~~~~l  120 (355)
T 2qp9_X           86 GILLYGPPGTGKSYLAKAVATEANSTF-FSVSSSDL  120 (355)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHHTCEE-EEEEHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhCCCE-EEeeHHHH
Confidence            466899999999999999999998876 55544333

>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=96.89  E-value=0.00027  Score=53.41  Aligned_cols=34  Identities=12%  Similarity=-0.078  Sum_probs=26.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEe-eccce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCR-TYQVY   56 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~-IsaDS   56 (115)
                      .+++|.||+|+|||.||..+|+.++.... +++..
T Consensus        39 ~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   73 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPA   73 (324)
T ss_dssp             CCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccc
Confidence            35678999999999999999988775541 45443

>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=96.88  E-value=0.00047  Score=51.00  Aligned_cols=26  Identities=12%  Similarity=-0.024  Sum_probs=22.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++|.||+|+|||.|+..+|...+...
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~~~~~   77 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEARVPF   77 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            56799999999999999998776544

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.87  E-value=0.00043  Score=50.23  Aligned_cols=37  Identities=5%  Similarity=-0.221  Sum_probs=28.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCC-----ceEeecccee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVYL   57 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDSm   57 (115)
                      .+.+++.   |+||+|||||+|+..|+..+.     ... |+.|..
T Consensus        20 ~~g~~v~---I~G~sGsGKSTl~~~l~~~~~~~g~~~g~-v~~d~~   61 (208)
T 3c8u_A           20 PGRQLVA---LSGAPGSGKSTLSNPLAAALSAQGLPAEV-VPMDGF   61 (208)
T ss_dssp             CSCEEEE---EECCTTSCTHHHHHHHHHHHHHTTCCEEE-EESGGG
T ss_pred             CCCeEEE---EECCCCCCHHHHHHHHHHHHhhcCCceEE-EecCCC
Confidence            3555555   899999999999999997664     344 777764

>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=96.85  E-value=0.00057  Score=47.63  Aligned_cols=23  Identities=22%  Similarity=0.127  Sum_probs=19.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|.||.|+|||.|+..+++.+
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999998765

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.83  E-value=0.00031  Score=54.12  Aligned_cols=32  Identities=3%  Similarity=-0.344  Sum_probs=27.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|+||.|||||+++..||+.++... +..|.+
T Consensus        51 i~l~G~~GsGKSTl~~~La~~lg~~~-~d~d~~   82 (250)
T 3nwj_A           51 MYLVGMMGSGKTTVGKIMARSLGYTF-FDCDTL   82 (250)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCcE-EeCcHH
Confidence            44799999999999999999999888 766653

>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=96.81  E-value=0.0003  Score=51.08  Aligned_cols=23  Identities=9%  Similarity=-0.145  Sum_probs=20.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+|+.|||||+++..|++.++
T Consensus        28 i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           28 IWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            45799999999999999998876

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.80  E-value=0.00037  Score=53.70  Aligned_cols=25  Identities=8%  Similarity=-0.039  Sum_probs=22.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      ++||.||+|+|||.||..+|+.++.
T Consensus        72 ~vLl~GppGtGKT~la~~la~~l~~   96 (368)
T 3uk6_A           72 AVLIAGQPGTGKTAIAMGMAQALGP   96 (368)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc
Confidence            5668999999999999999988764

>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=96.79  E-value=0.00035  Score=53.60  Aligned_cols=26  Identities=4%  Similarity=-0.126  Sum_probs=22.4

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -+.+++|.||+|+|||.|+..+|+.+
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            45677789999999999999999865

>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=96.78  E-value=0.0011  Score=49.66  Aligned_cols=54  Identities=15%  Similarity=0.177  Sum_probs=33.2

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCCCc-eEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGPDL-FCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~~~-eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      .+++.   |+||.|||||+|...|+..... .+         .-...+.|-.|...|+.++-+++.+
T Consensus        16 G~ii~---l~GpsGsGKSTLlk~L~g~~~p~~~---------~g~v~~ttr~~~~~e~~gi~y~fq~   70 (219)
T 1s96_A           16 GTLYI---VSAPSGAGKSSLIQALLKTQPLYDT---------QVSVSHTTRQPRPGEVHGEHYFFVN   70 (219)
T ss_dssp             CCEEE---EECCTTSCHHHHHHHHHHHSCTTTE---------EECCCEECSCCCTTCCBTTTBEECC
T ss_pred             CcEEE---EECCCCCCHHHHHHHHhccCCCCce---------EEEEEecCCCCCcccccCceEEECC
Confidence            34444   8999999999999998875541 11         0022334444544556667666653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.74  E-value=0.00061  Score=51.20  Aligned_cols=23  Identities=22%  Similarity=0.121  Sum_probs=20.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++.||+|+|||.+|..+|+.+
T Consensus        49 ~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           49 SFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHHHH
Confidence            34589999999999999999876

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.73  E-value=0.00037  Score=49.26  Aligned_cols=23  Identities=9%  Similarity=-0.198  Sum_probs=20.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++++|+.|||||+++..||+.++
T Consensus        16 i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           16 VWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            45899999999999999998764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.71  E-value=0.0005  Score=52.39  Aligned_cols=23  Identities=9%  Similarity=-0.257  Sum_probs=20.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||+|+|||.|+..+++.+
T Consensus        46 ~vll~G~~G~GKT~l~~~~~~~~   68 (387)
T 2v1u_A           46 NALLYGLTGTGKTAVARLVLRRL   68 (387)
T ss_dssp             CEEECBCTTSSHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            45579999999999999999876

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.69  E-value=0.00067  Score=56.55  Aligned_cols=34  Identities=6%  Similarity=-0.176  Sum_probs=28.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLM   58 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQ   58 (115)
                      .+|+.||.|+|||.||..+|..++..+ ++.+.-+
T Consensus       208 GiLL~GPPGtGKT~lakAiA~~~~~~~-~~v~~~~  241 (428)
T 4b4t_K          208 GVLLYGPPGTGKTMLVKAVANSTKAAF-IRVNGSE  241 (428)
T ss_dssp             EEEEESCTTTTHHHHHHHHHHHHTCEE-EEEEGGG
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCe-EEEecch
Confidence            466899999999999999999999887 6555443

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.69  E-value=0.00098  Score=48.03  Aligned_cols=24  Identities=8%  Similarity=-0.147  Sum_probs=20.2

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |+||+|+|||.|+.++|.
T Consensus        22 ~G~~~~---i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           22 ERNVVL---LSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             TTCEEE---EEECTTSSHHHHHHHHHH
T ss_pred             CCcEEE---EECCCCCCHHHHHHHHHH
Confidence            456665   999999999999988874

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.68  E-value=0.001  Score=47.14  Aligned_cols=33  Identities=0%  Similarity=-0.223  Sum_probs=24.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      +.+++.   |+||.|||||+|+..+..  +..+ ++.|.
T Consensus         8 ~gei~~---l~G~nGsGKSTl~~~~~~--~~~~-~~~d~   40 (171)
T 4gp7_A            8 ELSLVV---LIGSSGSGKSTFAKKHFK--PTEV-ISSDF   40 (171)
T ss_dssp             SSEEEE---EECCTTSCHHHHHHHHSC--GGGE-EEHHH
T ss_pred             CCEEEE---EECCCCCCHHHHHHHHcc--CCeE-EccHH
Confidence            556666   899999999999987642  3344 66553

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.67  E-value=0.00051  Score=53.12  Aligned_cols=40  Identities=18%  Similarity=0.130  Sum_probs=31.6

Q ss_pred             ccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          14 LTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        14 ~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      +.|.|+.  ..+++.||.|+|||.+|..||+.+.|.+ ++.++
T Consensus        52 ~~~iPkk--n~ili~GPPGtGKTt~a~ala~~l~g~i-~~fan   91 (212)
T 1tue_A           52 LKGTPKK--NCLVFCGPANTGKSYFGMSFIHFIQGAV-ISFVN   91 (212)
T ss_dssp             HHTCTTC--SEEEEESCGGGCHHHHHHHHHHHHTCEE-CCCCC
T ss_pred             HhcCCcc--cEEEEECCCCCCHHHHHHHHHHHhCCCe-eeEEe
Confidence            4466652  3357899999999999999999999988 76553

>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=96.67  E-value=0.0012  Score=46.92  Aligned_cols=25  Identities=8%  Similarity=-0.051  Sum_probs=21.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .+.++++   |+||+|||||.|+..+|.
T Consensus        18 ~~G~~~~---i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           18 APGVLTQ---VYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             CTTSEEE---EECSTTSSHHHHHHHHHH
T ss_pred             cCCEEEE---EECCCCCCHHHHHHHHHH
Confidence            3556666   999999999999999986

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.65  E-value=0.00087  Score=50.55  Aligned_cols=26  Identities=12%  Similarity=-0.024  Sum_probs=22.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++|.||+|+|||.|+..||...+...
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~~~~~  101 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEARVPF  101 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             EEEECCCcChHHHHHHHHHHHcCCCE
Confidence            56899999999999999998776444

>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=96.65  E-value=0.0012  Score=47.09  Aligned_cols=24  Identities=4%  Similarity=-0.248  Sum_probs=20.9

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.+++.   |+||+|||||.|+..||.
T Consensus        24 ~G~~~~---l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           24 TQAITE---VFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             SSEEEE---EEESTTSSHHHHHHHHHH
T ss_pred             CCcEEE---EECCCCCCHHHHHHHHHH
Confidence            566766   999999999999999985

>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=96.64  E-value=0.001  Score=54.39  Aligned_cols=28  Identities=7%  Similarity=-0.100  Sum_probs=23.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC-CceE
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP-DLFC   50 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~-~~eI   50 (115)
                      -++|+.||+|+|||.||..+|..+ +..+
T Consensus       168 ~~vLL~GppGtGKT~lA~aia~~~~~~~~  196 (444)
T 2zan_A          168 RGILLFGPPGTGKSYLAKAVATEANNSTF  196 (444)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHCCSSEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcCCCCE
Confidence            456789999999999999999988 5544

>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=96.62  E-value=0.00077  Score=51.83  Aligned_cols=23  Identities=9%  Similarity=-0.256  Sum_probs=20.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||+|+|||.|+..+++.+
T Consensus        47 ~vll~G~~G~GKT~la~~l~~~~   69 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFNEI   69 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            45679999999999999999864

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=96.59  E-value=0.001  Score=53.61  Aligned_cols=39  Identities=5%  Similarity=-0.099  Sum_probs=33.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgld   64 (115)
                      .++|+|+.|+|||.+|.+|.++ +..+ |+-|..-|++.=+
T Consensus       146 ~vl~~G~sG~GKSt~a~~l~~~-g~~l-v~dD~~~i~~~~~  184 (314)
T 1ko7_A          146 GVLITGDSGIGKSETALELIKR-GHRL-VADDNVEIREISK  184 (314)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT-TCEE-EESSEEEEEESSS
T ss_pred             EEEEEeCCCCCHHHHHHHHHhc-CCce-ecCCeEEEEEcCC
Confidence            4668999999999999999886 6778 8889999988665

>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=96.57  E-value=0.00067  Score=53.11  Aligned_cols=33  Identities=3%  Similarity=-0.144  Sum_probs=26.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-------ceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-------LFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-------~eI~IsaDSm   57 (115)
                      +.|+||+|||||+|+..|++.++       ..++|+.|+.
T Consensus        34 i~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f   73 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   73 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccc
Confidence            45899999999999999997764       2341499986

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.57  E-value=0.0014  Score=47.16  Aligned_cols=24  Identities=4%  Similarity=-0.118  Sum_probs=20.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |+|++|+|||.|++++|.
T Consensus        29 ~G~l~~---i~G~pG~GKT~l~l~~~~   52 (251)
T 2zts_A           29 EGTTVL---LTGGTGTGKTTFAAQFIY   52 (251)
T ss_dssp             TTCEEE---EECCTTSSHHHHHHHHHH
T ss_pred             CCeEEE---EEeCCCCCHHHHHHHHHH
Confidence            456666   999999999999999763

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.56  E-value=0.00095  Score=55.78  Aligned_cols=32  Identities=6%  Similarity=-0.169  Sum_probs=27.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .+|+.||.|+|||.||..+|...+..+ ++.+.
T Consensus       217 GvLLyGPPGTGKTllAkAiA~e~~~~f-~~v~~  248 (434)
T 4b4t_M          217 GALMYGPPGTGKTLLARACAAQTNATF-LKLAA  248 (434)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHTCEE-EEEEG
T ss_pred             eeEEECcCCCCHHHHHHHHHHHhCCCE-EEEeh
Confidence            566799999999999999999999877 55544

>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=96.56  E-value=0.00094  Score=56.02  Aligned_cols=32  Identities=13%  Similarity=-0.099  Sum_probs=26.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .+++.||+|+|||.+|..||+.++... +..|.
T Consensus        52 ~iLl~GppGtGKT~lar~lA~~l~~~~-~~v~~   83 (444)
T 1g41_A           52 NILMIGPTGVGKTEIARRLAKLANAPF-IKVEA   83 (444)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTTCCE-EEEEG
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHcCCCc-eeecc
Confidence            466799999999999999999998776 55554

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.55  E-value=0.00091  Score=57.38  Aligned_cols=32  Identities=19%  Similarity=0.124  Sum_probs=26.3

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +.-..++++.||||+|||.+|..||+.++..+
T Consensus       485 ~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~  516 (758)
T 1r6b_X          485 HKPVGSFLFAGPTGVGKTEVTVQLSKALGIEL  516 (758)
T ss_dssp             TSCSEEEEEECSTTSSHHHHHHHHHHHHTCEE
T ss_pred             CCCceEEEEECCCCCcHHHHHHHHHHHhcCCE
Confidence            33344677999999999999999999987665

>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=96.55  E-value=0.0007  Score=51.56  Aligned_cols=24  Identities=8%  Similarity=-0.227  Sum_probs=21.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +||.||+|+|||.||..+|+.++.
T Consensus        48 vLl~G~~GtGKT~la~~la~~~~~   71 (350)
T 1g8p_A           48 VLVFGDRGTGKSTAVRALAALLPE   71 (350)
T ss_dssp             EEEECCGGGCTTHHHHHHHHHSCC
T ss_pred             EEEECCCCccHHHHHHHHHHhCcc
Confidence            668999999999999999988763

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.55  E-value=0.0011  Score=51.80  Aligned_cols=23  Identities=0%  Similarity=-0.208  Sum_probs=19.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ..++|.||+|+|||.||..+|..
T Consensus       153 ~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999888864

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.54  E-value=0.0012  Score=54.62  Aligned_cols=28  Identities=7%  Similarity=-0.123  Sum_probs=24.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      -++|+.||+|+|||.||..+|+..+...
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~~~~f   78 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYANADV   78 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHTTCEE
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            4778999999999999999999987654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.52  E-value=0.0017  Score=49.93  Aligned_cols=39  Identities=10%  Similarity=-0.051  Sum_probs=28.1

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC----CceEeecccee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP----DLFCRTYQVYL   57 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~----~~eI~IsaDSm   57 (115)
                      -.|.+++.   |+||||||||+|...|+..+    .|.|.+.-|.+
T Consensus        22 i~~g~~v~---i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i   64 (261)
T 2eyu_A           22 HRKMGLIL---VTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPI   64 (261)
T ss_dssp             GCSSEEEE---EECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSC
T ss_pred             hCCCCEEE---EECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcc
Confidence            35777766   99999999999988777532    56664544443

>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=96.52  E-value=0.00036  Score=49.72  Aligned_cols=23  Identities=9%  Similarity=-0.169  Sum_probs=20.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|.||.|||||+++-.|++.++
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999998875

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=96.51  E-value=0.00083  Score=54.18  Aligned_cols=38  Identities=11%  Similarity=0.051  Sum_probs=31.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGL   63 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgl   63 (115)
                      .++|+|+.|+|||.+|++|.+ .+..+ |+=|-.-|++.=
T Consensus       149 gvli~G~sG~GKStlal~l~~-~G~~l-v~DD~v~i~~~~  186 (312)
T 1knx_A          149 GVLLTGRSGIGKSECALDLIN-KNHLF-VGDDAIEIYRLG  186 (312)
T ss_dssp             EEEEEESSSSSHHHHHHHHHT-TTCEE-EEEEEEEEEEET
T ss_pred             EEEEEcCCCCCHHHHHHHHHH-cCCEE-EeCCEEEEEEeC
Confidence            467999999999999999976 56677 888888888653

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.51  E-value=0.0017  Score=46.08  Aligned_cols=25  Identities=0%  Similarity=-0.179  Sum_probs=20.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.+++.   |+||+|+|||.|+..+|..
T Consensus        22 ~G~~~~---i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           22 QGFFIA---LTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             TTCEEE---EECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEE---EEcCCCCCHHHHHHHHHHH
Confidence            456655   8999999999999998843

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.50  E-value=0.0011  Score=50.87  Aligned_cols=26  Identities=12%  Similarity=0.008  Sum_probs=22.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +++.||.|+|||.|+..||...+...
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~~~~   72 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESGLNF   72 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTTCEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHcCCCE
Confidence            56899999999999999998877544

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.49  E-value=0.00095  Score=48.25  Aligned_cols=32  Identities=3%  Similarity=-0.337  Sum_probs=23.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceEe-eccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFCR-TYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI~-IsaDS   56 (115)
                      +.|+||.|||||+|+..|+..+   ++.+. ++.|.
T Consensus        25 i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d~   60 (201)
T 1rz3_A           25 LGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD   60 (201)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccCc
Confidence            4589999999999999999754   45441 44564

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.49  E-value=0.00086  Score=51.42  Aligned_cols=27  Identities=15%  Similarity=-0.086  Sum_probs=23.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .+++.||+|+|||.||..+|+.++...
T Consensus        48 ~vll~G~pGtGKT~la~~la~~~~~~~   74 (331)
T 2r44_A           48 HILLEGVPGLAKTLSVNTLAKTMDLDF   74 (331)
T ss_dssp             CEEEESCCCHHHHHHHHHHHHHTTCCE
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            467799999999999999999887654

>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=96.46  E-value=0.0011  Score=51.65  Aligned_cols=33  Identities=6%  Similarity=-0.254  Sum_probs=24.5

Q ss_pred             eeeccCCCchhHHHHHHhcCCC-----ceEe-eccceee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPD-----LFCR-TYQVYLM   58 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~-----~eI~-IsaDSmQ   58 (115)
                      -|+||.|||||+|+..|+..++     |.|. |++|..-
T Consensus        84 gI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~~~  122 (308)
T 1sq5_A           84 SIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             EEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             EEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCCcc
Confidence            3899999999999999987443     3331 7778643

>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=96.46  E-value=0.001  Score=50.53  Aligned_cols=23  Identities=4%  Similarity=-0.272  Sum_probs=20.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||.|+|||.|+..+++.+
T Consensus        47 ~vli~G~~G~GKTtl~~~l~~~~   69 (386)
T 2qby_A           47 NIFIYGLTGTGKTAVVKFVLSKL   69 (386)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            34579999999999999999865

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.45  E-value=0.001  Score=55.61  Aligned_cols=32  Identities=6%  Similarity=-0.106  Sum_probs=26.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .+|+.||.|+|||.||..+|...+..+ ++.+.
T Consensus       217 GvLL~GPPGtGKTllAkAiA~e~~~~~-~~v~~  248 (437)
T 4b4t_L          217 GVLLYGPPGTGKTLLAKAVAATIGANF-IFSPA  248 (437)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHTCEE-EEEEG
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhCCCE-EEEeh
Confidence            566799999999999999999998876 55443

>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=96.45  E-value=0.0011  Score=55.44  Aligned_cols=31  Identities=10%  Similarity=-0.020  Sum_probs=26.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++||.||+|+|||.||..+|...+... +..+
T Consensus       240 ~vLL~GppGtGKT~lAraia~~~~~~f-v~vn  270 (489)
T 3hu3_A          240 GILLYGPPGTGKTLIARAVANETGAFF-FLIN  270 (489)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSEE-EEEE
T ss_pred             cEEEECcCCCCHHHHHHHHHHHhCCCE-EEEE
Confidence            466799999999999999999998876 4443

>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=96.43  E-value=0.0017  Score=49.53  Aligned_cols=32  Identities=9%  Similarity=0.003  Sum_probs=25.8

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |....+|   |+.||+|+|||.++..+|+.++..+
T Consensus        45 ~~~~~~~---L~~G~~G~GKT~la~~la~~l~~~~   76 (324)
T 3u61_B           45 GKIPHII---LHSPSPGTGKTTVAKALCHDVNADM   76 (324)
T ss_dssp             TCCCSEE---EECSSTTSSHHHHHHHHHHHTTEEE
T ss_pred             CCCCeEE---EeeCcCCCCHHHHHHHHHHHhCCCE
Confidence            4444444   4889999999999999999998776

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=96.43  E-value=0.00079  Score=49.65  Aligned_cols=34  Identities=6%  Similarity=-0.180  Sum_probs=29.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      |.|.||.|||||.++..||++++... +  | -.+|+.
T Consensus         9 I~i~g~~GsGk~ti~~~la~~lg~~~-~--D-~~~~~~   42 (201)
T 3fdi_A            9 IAIGREFGSGGHLVAKKLAEHYNIPL-Y--S-KELLDE   42 (201)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTTCCE-E--C-HHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHHhCcCE-E--C-HHHHHH
Confidence            56899999999999999999999988 5  5 556654

>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=96.42  E-value=0.0019  Score=46.46  Aligned_cols=24  Identities=4%  Similarity=-0.288  Sum_probs=20.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.+++.   |+||+|+|||.|+..+|.
T Consensus        23 ~G~~~~---i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           23 TGSITE---MFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             TTSEEE---EECCTTSSHHHHHHHHHH
T ss_pred             CCeEEE---EECCCCCcHHHHHHHHHH
Confidence            456666   899999999999999987

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=96.42  E-value=0.00089  Score=54.81  Aligned_cols=25  Identities=4%  Similarity=-0.156  Sum_probs=22.8

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.+++|.||+|+|||.|+..+|..+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l  154 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            7788999999999999999999765

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.39  E-value=0.0017  Score=45.68  Aligned_cols=22  Identities=0%  Similarity=-0.224  Sum_probs=18.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.||+|+|||.|+..++..+
T Consensus        39 ~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           39 IYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             EEEESSSTTTTCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            3479999999999999888643

>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=96.38  E-value=0.0014  Score=50.14  Aligned_cols=23  Identities=4%  Similarity=-0.335  Sum_probs=19.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|.||+|+|||.|+..+++.+
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            35579999999999999998765

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.37  E-value=0.0013  Score=54.19  Aligned_cols=23  Identities=13%  Similarity=-0.116  Sum_probs=20.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+|+.||+|+|||.++..||+.+
T Consensus       203 ~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          203 NPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             EEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CeEEECCCCCCHHHHHHHHHHHH
Confidence            45679999999999999999875

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.35  E-value=0.0014  Score=54.60  Aligned_cols=32  Identities=6%  Similarity=-0.147  Sum_probs=27.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .+|+.||.|+|||.||..+|...+..+ ++.+.
T Consensus       184 GvLL~GPPGTGKTllAkAiA~e~~~~f-~~v~~  215 (405)
T 4b4t_J          184 GVILYGPPGTGKTLLARAVAHHTDCKF-IRVSG  215 (405)
T ss_dssp             CEEEESCSSSSHHHHHHHHHHHHTCEE-EEEEG
T ss_pred             ceEEeCCCCCCHHHHHHHHHHhhCCCc-eEEEh
Confidence            456799999999999999999999877 55544

>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=96.35  E-value=0.0012  Score=50.59  Aligned_cols=25  Identities=20%  Similarity=0.126  Sum_probs=21.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .++|.||.|+|||.++..+|+.++.
T Consensus        40 ~~ll~G~~G~GKT~la~~la~~l~~   64 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAKGLNC   64 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3458999999999999999987653

>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=96.34  E-value=0.0012  Score=51.63  Aligned_cols=27  Identities=7%  Similarity=-0.098  Sum_probs=22.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .+++.||+|+|||.|+..+|..++..+
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~l~~~~   79 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASELQTNI   79 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHHTCCE
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhCCCE
Confidence            345799999999999999998876544

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.33  E-value=0.0024  Score=49.63  Aligned_cols=34  Identities=12%  Similarity=-0.131  Sum_probs=24.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC---Cce-Eeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP---DLF-CRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~---~~e-I~IsaDSm   57 (115)
                      +++|.||+|+|||.+|..+++..   +.. +.+||.++
T Consensus        27 ~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~   64 (304)
T 1ojl_A           27 TVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAAL   64 (304)
T ss_dssp             CEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSC
T ss_pred             cEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCC
Confidence            46689999999999999999733   332 22666543

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.27  E-value=0.0016  Score=52.15  Aligned_cols=33  Identities=6%  Similarity=-0.250  Sum_probs=25.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-------ceEeeccceee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-------LFCRTYQVYLM   58 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-------~eI~IsaDSmQ   58 (115)
                      +-|+||+|||||+|+..|+..++       ..+ |+.|..-
T Consensus        95 igI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~-i~~D~f~  134 (321)
T 3tqc_A           95 IGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEV-ITTDGFL  134 (321)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEE-EEGGGGB
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcccCCCCeEEE-Eeecccc
Confidence            55899999999999998886542       345 8888753

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.25  E-value=0.0017  Score=55.23  Aligned_cols=33  Identities=9%  Similarity=-0.064  Sum_probs=27.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      .+|+.||.|+|||.||..+|.+.+..+ ++.+.-
T Consensus       245 GILLyGPPGTGKTlLAkAiA~e~~~~f-i~vs~s  277 (467)
T 4b4t_H          245 GILLYGPPGTGKTLCARAVANRTDATF-IRVIGS  277 (467)
T ss_dssp             EEEECSCTTSSHHHHHHHHHHHHTCEE-EEEEGG
T ss_pred             ceEeeCCCCCcHHHHHHHHHhccCCCe-EEEEhH
Confidence            466799999999999999999999877 555443

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.24  E-value=0.0019  Score=54.47  Aligned_cols=35  Identities=3%  Similarity=-0.197  Sum_probs=28.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      .+|+.||.|+|||.||..+|...+..+ ++.+.-.+
T Consensus       218 GvLLyGPPGTGKTlLAkAiA~e~~~~f-i~v~~s~l  252 (437)
T 4b4t_I          218 GVILYGAPGTGKTLLAKAVANQTSATF-LRIVGSEL  252 (437)
T ss_dssp             EEEEESSTTTTHHHHHHHHHHHHTCEE-EEEESGGG
T ss_pred             CCceECCCCchHHHHHHHHHHHhCCCE-EEEEHHHh
Confidence            466799999999999999999999877 66554433

>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=96.22  E-value=0.002  Score=48.29  Aligned_cols=24  Identities=4%  Similarity=-0.400  Sum_probs=21.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |+|.|+.|||||+++-.||+.+++
T Consensus        27 I~ieG~~GsGKST~~~~L~~~l~~   50 (263)
T 1p5z_B           27 ISIEGNIAAGKSTFVNILKQLCED   50 (263)
T ss_dssp             EEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCC
Confidence            568999999999999999999954

>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=96.20  E-value=0.0029  Score=47.91  Aligned_cols=26  Identities=4%  Similarity=-0.101  Sum_probs=21.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+.+++.   |+||+|+|||+|+..+|..
T Consensus        33 ~~G~~~~---i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           33 RGGEVIM---VTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             CTTCEEE---EEESTTSSHHHHHHHHHHH
T ss_pred             CCCeEEE---EEeCCCCCHHHHHHHHHHH
Confidence            4667776   9999999999999888743

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.19  E-value=0.0022  Score=47.29  Aligned_cols=26  Identities=12%  Similarity=-0.245  Sum_probs=22.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |+|.|+.|||||+++-.||+.+++.+
T Consensus         5 i~~~G~~g~GKtt~~~~l~~~l~~~~   30 (241)
T 2ocp_A            5 LSIEGNIAVGKSTFVKLLTKTYPEWH   30 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCTTSE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCCCe
Confidence            57899999999999999999996543

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.12  E-value=0.0031  Score=50.43  Aligned_cols=23  Identities=4%  Similarity=-0.169  Sum_probs=19.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+||||||||+|...|+...+
T Consensus       178 i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          178 IVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             EEEEESSSSCHHHHHHHHHTTSC
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            34899999999999999987653

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.11  E-value=0.0013  Score=50.85  Aligned_cols=30  Identities=0%  Similarity=-0.279  Sum_probs=27.1

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      -|.||.|||||++|..||++++... |++|.
T Consensus        12 ~~~G~pGsGKsT~a~~L~~~~g~~~-is~gd   41 (230)
T 3gmt_A           12 ILLGAPGAGKGTQANFIKEKFGIPQ-ISTGD   41 (230)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHTCCE-ECHHH
T ss_pred             eeECCCCCCHHHHHHHHHHHhCCCe-eechH
Confidence            4799999999999999999999988 88863

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.09  E-value=0.0021  Score=55.49  Aligned_cols=24  Identities=17%  Similarity=0.088  Sum_probs=21.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+++++||||+|||.+|..||+.+
T Consensus       522 ~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          522 GSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            357799999999999999999875

>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=96.06  E-value=0.0031  Score=51.44  Aligned_cols=34  Identities=9%  Similarity=-0.185  Sum_probs=28.1

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeec
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTY   53 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~Is   53 (115)
                      -.+.+++.   |.||.|+|||+|+..||...+|.+ ++
T Consensus       166 i~~~~~i~---l~G~~GsGKSTl~~~l~~~~~g~~-~~  199 (377)
T 1svm_A          166 IPKKRYWL---FKGPIDSGKTTLAAALLELCGGKA-LN  199 (377)
T ss_dssp             CTTCCEEE---EECSTTSSHHHHHHHHHHHHCCEE-EC
T ss_pred             cCCCCEEE---EECCCCCCHHHHHHHHHhhcCCcE-EE
Confidence            34555555   899999999999999999888887 55

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=96.05  E-value=0.004  Score=47.28  Aligned_cols=60  Identities=2%  Similarity=-0.220  Sum_probs=41.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee--eeccCCceecCCCCHHHhcCCCeeeecccCCCCccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL--MVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFT   93 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm--QVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~yS   93 (115)
                      +-++|.-|||||+++-.|++ ++..+ |.+|..  ++|..     +.+..++.  +.++.-++++++...+
T Consensus        12 iglTGgigsGKStv~~~l~~-~g~~v-idaD~ia~~l~~~-----~~~~~~~i--~~~fG~~~~~~dg~ld   73 (210)
T 4i1u_A           12 IGLTGGIGSGKTTVADLFAA-RGASL-VDTDLIAHRITAP-----AGLAMPAI--EQTFGPAFVAADGSLD   73 (210)
T ss_dssp             EEEECCTTSCHHHHHHHHHH-TTCEE-EEHHHHHHHHTST-----TCTTHHHH--HHHHCGGGBCTTSSBC
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCcE-EECcHHHHHHhcC-----CcHHHHHH--HHHhChhhcCCCCCCc
Confidence            55699999999999999998 99999 999973  55542     22333333  2345556666665555

>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=96.04  E-value=0.0024  Score=53.62  Aligned_cols=27  Identities=7%  Similarity=-0.029  Sum_probs=23.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .++|.||+|+|||.|+..+|...+...
T Consensus        51 gvLL~GppGtGKT~Laraia~~~~~~f   77 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAGEANVPF   77 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCe
Confidence            356799999999999999999888765

>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=96.02  E-value=0.0031  Score=46.92  Aligned_cols=22  Identities=18%  Similarity=0.125  Sum_probs=19.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++.||.|+|||.++..+|+.+
T Consensus        41 ~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           41 LLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             EEEESSSSSSHHHHHHHHHHHH
T ss_pred             EEEECcCCcCHHHHHHHHHHHh
Confidence            5589999999999999999875

>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=96.02  E-value=0.0038  Score=47.12  Aligned_cols=24  Identities=13%  Similarity=0.058  Sum_probs=19.4

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |+||.|||||.|+..+|.
T Consensus        29 ~G~i~~---i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           29 AGTVGA---LVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TTSEEE---EEESTTSSHHHHHHHHHH
T ss_pred             CCCEEE---EEcCCCCCHHHHHHHHHH
Confidence            345555   999999999999988873

>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=96.01  E-value=0.0044  Score=50.00  Aligned_cols=38  Identities=13%  Similarity=0.002  Sum_probs=25.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC----CceEeecccee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP----DLFCRTYQVYL   57 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~----~~eI~IsaDSm   57 (115)
                      .|..+++   |+||||||||+|...|+..+    ++.|+..-|..
T Consensus       121 ~~~g~i~---I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~  162 (356)
T 3jvv_A          121 VPRGLVL---VTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPI  162 (356)
T ss_dssp             CSSEEEE---EECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSC
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcH
Confidence            4556554   99999999999988776543    34552334543

>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=96.00  E-value=0.0031  Score=47.85  Aligned_cols=23  Identities=17%  Similarity=0.031  Sum_probs=20.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +++.||+|+|||.++..+|+.++
T Consensus        61 ~ll~G~~G~GKT~la~~la~~l~   83 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKELY   83 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999998864

>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=95.99  E-value=0.0032  Score=47.03  Aligned_cols=23  Identities=17%  Similarity=0.044  Sum_probs=20.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +++.||.|+|||.++..+|+.++
T Consensus        49 ~ll~G~~G~GKT~la~~l~~~l~   71 (327)
T 1iqp_A           49 LLFAGPPGVGKTTAALALARELF   71 (327)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhc
Confidence            56899999999999999998864

>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=95.99  E-value=0.0045  Score=49.81  Aligned_cols=37  Identities=11%  Similarity=-0.067  Sum_probs=25.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC----CceEeeccce
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP----DLFCRTYQVY   56 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~----~~eI~IsaDS   56 (115)
                      .+.++++   |+||||||||+|...|+..+    .|.|.+.-|.
T Consensus       134 ~~g~~i~---ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~  174 (372)
T 2ewv_A          134 RKMGLIL---VTGPTGSGKSTTIASMIDYINQTKSYHIITIEDP  174 (372)
T ss_dssp             SSSEEEE---EECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESS
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHhhcCcCCCcEEEEeccc
Confidence            4566655   99999999999988887643    4666333343

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.98  E-value=0.0026  Score=54.91  Aligned_cols=23  Identities=13%  Similarity=-0.116  Sum_probs=20.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+.||+|+|||.+|..||+.+
T Consensus       203 ~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          203 NPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             EEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CeEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999875

>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=95.95  E-value=0.0038  Score=49.75  Aligned_cols=33  Identities=6%  Similarity=-0.268  Sum_probs=27.3

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +=.|.+++.   |+||+|||||+|..-|+.-+.|.|
T Consensus       122 ~i~~Ge~va---IvGpsGsGKSTLl~lL~gl~~G~I  154 (305)
T 2v9p_A          122 GIPKKNCLA---FIGPPNTGKSMLCNSLIHFLGGSV  154 (305)
T ss_dssp             TCTTCSEEE---EECSSSSSHHHHHHHHHHHHTCEE
T ss_pred             EecCCCEEE---EECCCCCcHHHHHHHHhhhcCceE
Confidence            345667766   899999999999998887778888

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=95.95  E-value=0.0035  Score=46.85  Aligned_cols=30  Identities=7%  Similarity=-0.154  Sum_probs=23.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      .+++||||+|||.+++.++...+..+.+-+
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~~~~~liv~  140 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINELSTPTLIVV  140 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHcCCCEEEEe
Confidence            568999999999999988877755432334

>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=95.93  E-value=0.0055  Score=44.89  Aligned_cols=43  Identities=12%  Similarity=-0.017  Sum_probs=21.7

Q ss_pred             ccccceeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554           4 RPATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++-.|.-.-...+..--+-++++|++|+|||+|...|....
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           11 RENLYFQGGPGRQEPRNSQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             -----------------CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             cccchhhhcCCcCCCCCCceEEEEECCCCCCHHHHHHHHcCCC
Confidence            3344444433333333334568899999999999999998643

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.92  E-value=0.0043  Score=41.26  Aligned_cols=22  Identities=9%  Similarity=-0.153  Sum_probs=19.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++|++++|||+|...+....
T Consensus         4 i~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            4 VVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEECCTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6789999999999999998654

>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=95.91  E-value=0.005  Score=45.41  Aligned_cols=25  Identities=4%  Similarity=-0.386  Sum_probs=21.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      +.|.||.|||||+|+..|+.. ++.|
T Consensus        23 i~i~G~~GsGKSTl~~~L~~~-~g~v   47 (230)
T 2vp4_A           23 VLIEGNIGSGKTTYLNHFEKY-KNDI   47 (230)
T ss_dssp             EEEECSTTSCHHHHHHTTGGG-TTTE
T ss_pred             EEEECCCCCCHHHHHHHHHhc-cCCe
Confidence            348999999999999999987 6655

>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=95.90  E-value=0.0024  Score=56.14  Aligned_cols=34  Identities=18%  Similarity=-0.018  Sum_probs=25.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC---Cce-Eeeccce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP---DLF-CRTYQVY   56 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~---~~e-I~IsaDS   56 (115)
                      .+++|.||||+|||.+|..||+.+   +.. +.|++..
T Consensus       589 ~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~  626 (854)
T 1qvr_A          589 GSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTE  626 (854)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechh
Confidence            467799999999999999999876   333 3355543

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=95.90  E-value=0.0042  Score=44.94  Aligned_cols=23  Identities=4%  Similarity=-0.093  Sum_probs=20.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +.|+||.|||||+|...|+..++
T Consensus         3 i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56899999999999999987665

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=95.90  E-value=0.0025  Score=51.02  Aligned_cols=28  Identities=14%  Similarity=0.146  Sum_probs=23.8

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++|.-+|+    .||+|+|||+++..+++++
T Consensus        42 ~~~~~~lli----~GpPGTGKT~~v~~v~~~L   69 (318)
T 3te6_A           42 SSQNKLFYI----TNADDSTKFQLVNDVMDEL   69 (318)
T ss_dssp             TTCCCEEEE----ECCCSHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEE----ECCCCCCHHHHHHHHHHHH
Confidence            467776766    9999999999999998776

>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=95.87  E-value=0.0039  Score=52.51  Aligned_cols=31  Identities=6%  Similarity=-0.355  Sum_probs=26.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      |+++|..|||||.+|.+||+.+     +..+ +|.|.
T Consensus        38 IvlvGlpGSGKSTia~~La~~L~~~~~d~~v-~s~D~   73 (520)
T 2axn_A           38 IVMVGLPARGKTYISKKLTRYLNWIGVPTKV-FNVGE   73 (520)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCCeEE-ecccH
Confidence            5679999999999999999875     5567 88886

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.87  E-value=0.0031  Score=48.24  Aligned_cols=22  Identities=14%  Similarity=0.131  Sum_probs=19.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|.||.|+|||.++..+|+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5589999999999999998853

>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=95.86  E-value=0.0066  Score=47.48  Aligned_cols=35  Identities=3%  Similarity=-0.149  Sum_probs=25.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC------CceEeeccce
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP------DLFCRTYQVY   56 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~------~~eI~IsaDS   56 (115)
                      +.+|+.   ++||+|||||+++..||..+      ...+ +.+|.
T Consensus       104 ~g~vi~---lvG~~GsGKTTl~~~LA~~l~~~~G~~V~l-v~~D~  144 (296)
T 2px0_A          104 HSKYIV---LFGSTGAGKTTTLAKLAAISMLEKHKKIAF-ITTDT  144 (296)
T ss_dssp             CSSEEE---EEESTTSSHHHHHHHHHHHHHHTTCCCEEE-EECCC
T ss_pred             CCcEEE---EECCCCCCHHHHHHHHHHHHHHhcCCEEEE-EecCc
Confidence            345555   89999999999999988432      2345 77776

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.85  E-value=0.0054  Score=47.85  Aligned_cols=25  Identities=12%  Similarity=0.046  Sum_probs=21.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .|.++++   |+|++|+|||+|++.+|.
T Consensus        66 ~~G~l~l---i~G~pG~GKTtl~l~ia~   90 (315)
T 3bh0_A           66 KRRNFVL---IAARPSMGKTAFALKQAK   90 (315)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHHH
T ss_pred             CCCcEEE---EEeCCCCCHHHHHHHHHH
Confidence            3566666   999999999999999884

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.83  E-value=0.0041  Score=46.33  Aligned_cols=22  Identities=5%  Similarity=-0.155  Sum_probs=20.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++.||.|+|||.++..+|+.+
T Consensus        45 ~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            5589999999999999999886

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.83  E-value=0.0056  Score=51.67  Aligned_cols=25  Identities=12%  Similarity=-0.084  Sum_probs=22.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .+|+.||+|+|||.||..||+.++.
T Consensus        43 ~VLL~GpPGtGKT~LAraLa~~l~~   67 (500)
T 3nbx_X           43 SVFLLGPPGIAKSLIARRLKFAFQN   67 (500)
T ss_dssp             EEEEECCSSSSHHHHHHHGGGGBSS
T ss_pred             eeEeecCchHHHHHHHHHHHHHHhh
Confidence            5778999999999999999997743

>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=95.82  E-value=0.0038  Score=43.60  Aligned_cols=18  Identities=0%  Similarity=-0.246  Sum_probs=15.2

Q ss_pred             eeeccCCCchhHHHHHHh
Q psy7554          26 LSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        26 li~GpTasGKS~lai~LA   43 (115)
                      +|+||+|||||.|.-.|+
T Consensus        30 ~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           30 AIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             EEEECTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            589999999999966654

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=95.82  E-value=0.0064  Score=54.46  Aligned_cols=32  Identities=9%  Similarity=-0.061  Sum_probs=27.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .+|+.||.|+|||.||..+|.+++... +..|.
T Consensus       240 GILL~GPPGTGKT~LAraiA~elg~~~-~~v~~  271 (806)
T 3cf2_A          240 GILLYGPPGTGKTLIARAVANETGAFF-FLING  271 (806)
T ss_dssp             EEEEECCTTSCHHHHHHHHHTTTTCEE-EEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCeE-EEEEh
Confidence            466799999999999999999999877 55543

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.81  E-value=0.0067  Score=47.64  Aligned_cols=37  Identities=5%  Similarity=-0.215  Sum_probs=26.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEe-eccce
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCR-TYQVY   56 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~-IsaDS   56 (115)
                      .+.+|+.   |+||+|||||++...||..+   +|.|. .+.|-
T Consensus        98 ~~g~vi~---lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~  138 (302)
T 3b9q_A           98 RKPAVIM---IVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDT  138 (302)
T ss_dssp             SSCEEEE---EECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCC
T ss_pred             CCCcEEE---EEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeecc
Confidence            4566766   89999999999999998543   45542 44553

>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=95.80  E-value=0.0059  Score=40.26  Aligned_cols=22  Identities=14%  Similarity=0.110  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|++++|||+|...|...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4678999999999999999754

>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=95.79  E-value=0.0045  Score=52.08  Aligned_cols=32  Identities=9%  Similarity=-0.122  Sum_probs=24.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce-Eeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF-CRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e-I~IsaDS   56 (115)
                      +++.||+|+|||.|+..+|..++.. +.|+++.
T Consensus       111 vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~  143 (543)
T 3m6a_A          111 LCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGG  143 (543)
T ss_dssp             EEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEecc
Confidence            4589999999999999999877543 2256554

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=95.79  E-value=0.0045  Score=46.39  Aligned_cols=31  Identities=6%  Similarity=-0.291  Sum_probs=24.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      .++|.||.|+|||+|+.++++..+... ++++
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~~~~~~-~~~~   63 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNERPGIL-IDCR   63 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSSEEE-EEHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHHcCcEE-EEee
Confidence            466899999999999999998876333 6654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.79  E-value=0.005  Score=52.00  Aligned_cols=31  Identities=10%  Similarity=-0.055  Sum_probs=24.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      .++|.||+|+|||.|+..+|...+... +..+
T Consensus        66 GvLL~GppGtGKTtLaraIa~~~~~~~-i~i~   96 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGEARVPF-ITAS   96 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHTTCCE-EEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCE-EEEe
Confidence            366899999999999999998877555 4443

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.78  E-value=0.0044  Score=47.93  Aligned_cols=23  Identities=17%  Similarity=0.014  Sum_probs=20.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +++.||.|+|||.++..+|+.+.
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            45899999999999999998753

>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=95.78  E-value=0.0029  Score=47.35  Aligned_cols=23  Identities=4%  Similarity=-0.201  Sum_probs=20.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|.||.|||||+++..|++.++
T Consensus        29 i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           29 ITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHh
Confidence            46899999999999999998876

>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=95.76  E-value=0.0062  Score=50.26  Aligned_cols=38  Identities=11%  Similarity=-0.042  Sum_probs=27.4

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEeecccee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYL   57 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSm   57 (115)
                      .+..+++   |+||||||||+|...|+..+   .|.|++.-|..
T Consensus       165 ~~ggii~---I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed~i  205 (418)
T 1p9r_A          165 RPHGIIL---VTGPTGSGKSTTLYAGLQELNSSERNILTVEDPI  205 (418)
T ss_dssp             SSSEEEE---EECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSC
T ss_pred             hcCCeEE---EECCCCCCHHHHHHHHHhhcCCCCCEEEEecccc
Confidence            5667666   99999999999977776533   46664555654

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.76  E-value=0.0045  Score=52.23  Aligned_cols=22  Identities=0%  Similarity=-0.307  Sum_probs=19.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||||||||++...|+.-+
T Consensus       263 i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          263 AIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             EEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            4589999999999998888655

>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=95.75  E-value=0.0065  Score=50.96  Aligned_cols=32  Identities=9%  Similarity=-0.086  Sum_probs=25.2

Q ss_pred             eeeeccCCCchhHHHHHHhc-----CCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD-----GPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~-----~~~~eI~IsaDSm   57 (115)
                      ++++||+|||||+++..||.     +....+ +.+|..
T Consensus       103 IlivG~~G~GKTTt~~kLA~~l~~~G~kVll-v~~D~~  139 (443)
T 3dm5_A          103 LLMVGIQGSGKTTTVAKLARYFQKRGYKVGV-VCSDTW  139 (443)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTCCEEE-EECCCS
T ss_pred             EEEECcCCCCHHHHHHHHHHHHHHCCCeEEE-EeCCCc
Confidence            45899999999999999985     344556 888854

>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=95.75  E-value=0.0068  Score=40.41  Aligned_cols=23  Identities=9%  Similarity=0.042  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+++||||+|...|...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            35788999999999999999854

>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=95.71  E-value=0.005  Score=48.80  Aligned_cols=26  Identities=4%  Similarity=-0.055  Sum_probs=21.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +.|+||||||||+|...|+.-.   .|.|
T Consensus       174 v~i~G~~GsGKTTll~~l~g~~~~~~g~i  202 (330)
T 2pt7_A          174 VIVCGGTGSGKTTYIKSIMEFIPKEERII  202 (330)
T ss_dssp             EEEEESTTSCHHHHHHHGGGGSCTTSCEE
T ss_pred             EEEECCCCCCHHHHHHHHhCCCcCCCcEE
Confidence            3489999999999999998765   3555

>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=95.71  E-value=0.0079  Score=40.03  Aligned_cols=23  Identities=9%  Similarity=0.088  Sum_probs=19.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|++++|||+|...|..+
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999999853

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.71  E-value=0.0036  Score=47.37  Aligned_cols=32  Identities=3%  Similarity=-0.246  Sum_probs=27.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      .|.|.|+.|||||.+|..||++++..+ +..|-
T Consensus        16 iI~i~g~~gsGk~~i~~~la~~lg~~~-~d~~~   47 (223)
T 3hdt_A           16 IITIEREYGSGGRIVGKKLAEELGIHF-YDDDI   47 (223)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCEE-ECHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHcCCcE-EcHHH
Confidence            367899999999999999999999988 66553

>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=95.69  E-value=0.0072  Score=40.24  Aligned_cols=23  Identities=4%  Similarity=-0.006  Sum_probs=19.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35788999999999999888744

>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=95.68  E-value=0.0072  Score=40.35  Aligned_cols=24  Identities=8%  Similarity=-0.081  Sum_probs=20.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++++|++++|||+|...|....
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            458899999999999999998653

>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=95.68  E-value=0.0074  Score=39.94  Aligned_cols=23  Identities=17%  Similarity=0.130  Sum_probs=19.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...+..+
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35788999999999999998754

>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=95.62  E-value=0.0076  Score=40.25  Aligned_cols=23  Identities=13%  Similarity=0.065  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35788999999999999999754

>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=95.62  E-value=0.01  Score=39.78  Aligned_cols=23  Identities=4%  Similarity=-0.044  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35789999999999999999854

>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=95.62  E-value=0.0087  Score=47.19  Aligned_cols=37  Identities=5%  Similarity=-0.283  Sum_probs=26.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC-------CceEeecccee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVYL   57 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDSm   57 (115)
                      .+.+++.   |+||+|||||+|+..|+.-+       ...+ |+.|..
T Consensus        88 ~~g~ivg---I~G~sGsGKSTL~~~L~gll~~~~G~~~v~~-v~qd~~  131 (312)
T 3aez_A           88 PVPFIIG---VAGSVAVGKSTTARVLQALLARWDHHPRVDL-VTTDGF  131 (312)
T ss_dssp             CCCEEEE---EECCTTSCHHHHHHHHHHHHHTSTTCCCEEE-EEGGGG
T ss_pred             CCCEEEE---EECCCCchHHHHHHHHHhhccccCCCCeEEE-EecCcc
Confidence            4555655   89999999999999888633       1234 677754

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.61  E-value=0.0094  Score=39.72  Aligned_cols=22  Identities=9%  Similarity=0.018  Sum_probs=19.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|++++|||+|...|...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4788999999999999999864

>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=95.61  E-value=0.0077  Score=41.69  Aligned_cols=26  Identities=8%  Similarity=-0.118  Sum_probs=21.3

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +--+-++++|+.+||||+|...|...
T Consensus         5 ~~~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            5 NVKCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHhcC
Confidence            33456789999999999999999864

>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=95.59  E-value=0.011  Score=43.31  Aligned_cols=31  Identities=0%  Similarity=-0.239  Sum_probs=24.8

Q ss_pred             eeeeccCCCchhHHHHHHhc----CCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD----GPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~----~~~~eI~IsaDS   56 (115)
                      +++.|..|||||+++..||.    +...-+ |.+|.
T Consensus        17 ~~~~GkgGvGKTTl~~~La~~l~~g~~v~v-vd~D~   51 (262)
T 1yrb_A           17 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAY-VNLDT   51 (262)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEE-EECCS
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHCCCeEEE-EeCCC
Confidence            45899999999999999983    445566 88775

>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=95.57  E-value=0.012  Score=39.76  Aligned_cols=26  Identities=4%  Similarity=-0.106  Sum_probs=21.4

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .--+.++++|++++|||+|...|...
T Consensus         5 ~~~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            5 SSLFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHcC
Confidence            33456889999999999999999754

>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=95.57  E-value=0.0086  Score=39.65  Aligned_cols=22  Identities=9%  Similarity=-0.006  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|++++|||+|...|...
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5788999999999999999854

>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=95.57  E-value=0.0084  Score=40.48  Aligned_cols=23  Identities=9%  Similarity=-0.041  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|...
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999998754

>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=95.56  E-value=0.0049  Score=46.19  Aligned_cols=32  Identities=3%  Similarity=-0.347  Sum_probs=24.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC--ceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD--LFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~--~eI~IsaDS   56 (115)
                      .++|.||.|+|||+|+.++++..+  ... +++..
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~~~~~~~~-~~~~~   65 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINELNLPYIY-LDLRK   65 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTCCEEE-EEGGG
T ss_pred             cEEEECCCCCCHHHHHHHHHHhcCCCEEE-EEchh
Confidence            466899999999999999987653  233 55543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=95.55  E-value=0.0055  Score=52.55  Aligned_cols=23  Identities=17%  Similarity=-0.139  Sum_probs=20.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .++++||+|+|||.++..||+.+
T Consensus       209 ~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          209 NPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEcCCCCCHHHHHHHHHHHH
Confidence            45679999999999999999875

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.55  E-value=0.0069  Score=41.91  Aligned_cols=24  Identities=17%  Similarity=0.036  Sum_probs=20.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ..++++|++|||||+|...|....
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            357789999999999999998654

>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=95.53  E-value=0.0075  Score=45.41  Aligned_cols=33  Identities=3%  Similarity=-0.285  Sum_probs=25.2

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++.   |+||+|||||+|..-|+.-.   .|+|
T Consensus        27 ~i~~Ge~~~---iiG~nGsGKSTLl~~l~Gl~~p~~G~I   62 (235)
T 3tif_A           27 NIKEGEFVS---IMGPSGSGKSTMLNIIGCLDKPTEGEV   62 (235)
T ss_dssp             EECTTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEcCCCEEE---EECCCCCcHHHHHHHHhcCCCCCceEE
Confidence            345677776   89999999999988887543   3566

>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=95.53  E-value=0.0036  Score=54.64  Aligned_cols=39  Identities=10%  Similarity=-0.039  Sum_probs=29.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC---CceEeeccceeeeccCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP---DLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~---~~eI~IsaDSmQVYkgld   64 (115)
                      |+++|+.|||||++|..||+.+   +... +..|.-.+-.++.
T Consensus        55 IvLtGlsGSGKSTlAr~La~~L~~~G~~~-v~lDgD~iR~~L~   96 (630)
T 1x6v_B           55 VWLTGLSGAGKTTVSMALEEYLVCHGIPC-YTLDGDNIRQGLN   96 (630)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCE-EEESHHHHTTTTT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhcCCeE-EEechHHhhhccC
Confidence            5679999999999999999987   6555 5555444444554

>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=95.52  E-value=0.007  Score=42.90  Aligned_cols=24  Identities=17%  Similarity=0.036  Sum_probs=20.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ..++++|++|||||+|...|+...
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            347789999999999999998754

>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=95.51  E-value=0.0085  Score=47.71  Aligned_cols=26  Identities=4%  Similarity=-0.296  Sum_probs=21.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.+++.   |+||.|||||.|+..+|...
T Consensus       130 ~G~i~~---I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          130 TQAITE---VFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SSEEEE---EEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHHHHh
Confidence            445665   99999999999999988543

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.50  E-value=0.013  Score=39.67  Aligned_cols=23  Identities=4%  Similarity=-0.090  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+.+||||+|...|...
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998854

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=95.49  E-value=0.0081  Score=44.18  Aligned_cols=14  Identities=0%  Similarity=-0.166  Sum_probs=11.8

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      ++++||||||||.+
T Consensus        79 ~~i~g~TGsGKTt~   92 (235)
T 3llm_A           79 VIIRGATGCGKTTQ   92 (235)
T ss_dssp             EEEECCTTSSHHHH
T ss_pred             EEEEeCCCCCcHHh
Confidence            45899999999964

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=95.47  E-value=0.0081  Score=43.56  Aligned_cols=20  Identities=5%  Similarity=-0.067  Sum_probs=17.8

Q ss_pred             eeeccCCCchhHHHHHHhcC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~   45 (115)
                      +|+||.|||||.++++++.+
T Consensus         7 vi~G~~gsGKTT~ll~~~~~   26 (184)
T 2orw_A            7 VITGPMYSGKTTELLSFVEI   26 (184)
T ss_dssp             EEEESTTSSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHH
Confidence            48999999999999998854

>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=95.47  E-value=0.0094  Score=49.68  Aligned_cols=30  Identities=3%  Similarity=-0.309  Sum_probs=22.9

Q ss_pred             eeeccCCCchhHHHHHHhcC-----CCceEeeccce
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVY   56 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~-----~~~eI~IsaDS   56 (115)
                      +++||+|||||+++..||..     ....+ +.+|-
T Consensus       101 ~lvG~~GsGKTTt~~kLA~~l~~~G~kVll-v~~D~  135 (433)
T 3kl4_A          101 MLVGVQGSGKTTTAGKLAYFYKKRGYKVGL-VAADV  135 (433)
T ss_dssp             EECCCTTSCHHHHHHHHHHHHHHTTCCEEE-EEECC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcCCeEEE-EecCc
Confidence            37999999999999999843     33445 78773

>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=95.45  E-value=0.0085  Score=46.70  Aligned_cols=24  Identities=4%  Similarity=-0.309  Sum_probs=19.9

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++   |+||+|||||.|+..+|..
T Consensus       107 G~i~~---i~G~~GsGKT~la~~la~~  130 (324)
T 2z43_A          107 RTMTE---FFGEFGSGKTQLCHQLSVN  130 (324)
T ss_dssp             TSEEE---EEESTTSSHHHHHHHHHHH
T ss_pred             CcEEE---EECCCCCCHhHHHHHHHHH
Confidence            45554   9999999999999999853

>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=95.45  E-value=0.0092  Score=44.98  Aligned_cols=31  Identities=3%  Similarity=-0.192  Sum_probs=24.5

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||+|||||+|..-|+.-+   .|+|
T Consensus        29 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~I   62 (237)
T 2cbz_A           29 PEGALVA---VVGQVGCGKSSLLSALLAEMDKVEGHV   62 (237)
T ss_dssp             CTTCEEE---EECSTTSSHHHHHHHHTTCSEEEEEEE
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCceE
Confidence            4666666   89999999999999888665   3555

>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=95.45  E-value=0.012  Score=39.62  Aligned_cols=24  Identities=4%  Similarity=-0.172  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++++|++++|||+|...|....
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEECCCCccHHHHHHHHhcCC
Confidence            357889999999999999998654

>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=95.44  E-value=0.0092  Score=45.99  Aligned_cols=24  Identities=4%  Similarity=-0.361  Sum_probs=20.1

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |+||+|||||.|+..+|.
T Consensus        97 ~g~i~~---i~G~~gsGKT~la~~la~  120 (322)
T 2i1q_A           97 SQSVTE---FAGVFGSGKTQIMHQSCV  120 (322)
T ss_dssp             TTEEEE---EEESTTSSHHHHHHHHHH
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHHH
Confidence            345555   999999999999999985

>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=95.44  E-value=0.0076  Score=49.85  Aligned_cols=31  Identities=6%  Similarity=-0.248  Sum_probs=25.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      ++|+|++|||||+++..||..+     ...+ +.+|.
T Consensus       102 I~ivG~~GvGKTTla~~La~~l~~~G~kVll-v~~D~  137 (432)
T 2v3c_C          102 ILLVGIQGSGKTTTAAKLARYIQKRGLKPAL-IAADT  137 (432)
T ss_dssp             EEEECCSSSSTTHHHHHHHHHHHHHHCCEEE-ECCSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEE-Eeccc
Confidence            5589999999999999999754     3556 88884

>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=95.43  E-value=0.0099  Score=39.89  Aligned_cols=22  Identities=5%  Similarity=-0.177  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+++||||+|...|...
T Consensus         4 ki~ivG~~~~GKSsli~~l~~~   25 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGGL   25 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4788999999999999999754

>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=95.43  E-value=0.0089  Score=41.28  Aligned_cols=25  Identities=8%  Similarity=-0.097  Sum_probs=20.8

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -..++++|+++||||+|...|..+.
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3457889999999999999998653

>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=95.42  E-value=0.011  Score=46.64  Aligned_cols=36  Identities=8%  Similarity=-0.134  Sum_probs=25.7

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---Cc--eEeeccce
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DL--FCRTYQVY   56 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~--eI~IsaDS   56 (115)
                      .+.+|+.   |+||+|||||+++..||..+   ++  .+ +.+|-
T Consensus       102 ~~~~vi~---ivG~~GsGKTTl~~~LA~~l~~~g~kV~l-v~~D~  142 (306)
T 1vma_A          102 EPPFVIM---VVGVNGTGKTTSCGKLAKMFVDEGKSVVL-AAADT  142 (306)
T ss_dssp             SSCEEEE---EECCTTSSHHHHHHHHHHHHHHTTCCEEE-EEECT
T ss_pred             CCCeEEE---EEcCCCChHHHHHHHHHHHHHhcCCEEEE-Ecccc
Confidence            3445554   89999999999999998543   33  34 67774

>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=95.41  E-value=0.015  Score=44.46  Aligned_cols=33  Identities=3%  Similarity=-0.072  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCC--ceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPD--LFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~--~eI~I   52 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+.  |+|.+
T Consensus        24 ~~Ge~~~---liG~NGsGKSTLlk~l~Gl~~p~G~i~~   58 (249)
T 2qi9_C           24 RAGEILH---LVGPNGAGKSTLLARMAGMTSGKGSIQF   58 (249)
T ss_dssp             ETTCEEE---EECCTTSSHHHHHHHHTTSSCCEEEEEE
T ss_pred             cCCCEEE---EECCCCCcHHHHHHHHhCCCCCCeEEEE
Confidence            3556665   899999999999998886543  67633

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=95.40  E-value=0.0063  Score=47.44  Aligned_cols=31  Identities=13%  Similarity=-0.072  Sum_probs=24.9

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .|+....||   +.||.|+|||.+|..+|+.+++
T Consensus        20 ~~~~~~a~L---~~G~~G~GKt~~a~~la~~l~~   50 (334)
T 1a5t_A           20 AGRGHHALL---IQALPGMGDDALIYALSRYLLC   50 (334)
T ss_dssp             TTCCCSEEE---EECCTTSCHHHHHHHHHHHHTC
T ss_pred             cCCcceeEE---EECCCCchHHHHHHHHHHHHhC
Confidence            455555555   8999999999999999988754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.39  E-value=0.0089  Score=44.62  Aligned_cols=31  Identities=3%  Similarity=-0.326  Sum_probs=23.7

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+--.   .|+|
T Consensus        28 ~~Ge~~~---iiG~nGsGKSTLl~~l~Gl~~p~~G~i   61 (224)
T 2pcj_A           28 KKGEFVS---IIGASGSGKSTLLYILGLLDAPTEGKV   61 (224)
T ss_dssp             ETTCEEE---EEECTTSCHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            3566666   89999999999988888543   3666

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.38  E-value=0.011  Score=47.86  Aligned_cols=37  Identities=5%  Similarity=-0.215  Sum_probs=26.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEe-eccce
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCR-TYQVY   56 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~-IsaDS   56 (115)
                      .+.+|+.   |+||+|||||++...||..+   +|.|. .++|-
T Consensus       155 ~~g~vi~---lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~  195 (359)
T 2og2_A          155 RKPAVIM---IVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDT  195 (359)
T ss_dssp             SSSEEEE---EECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCC
T ss_pred             CCCeEEE---EEcCCCChHHHHHHHHHhhccccCCEEEEecccc
Confidence            4566766   89999999999999998543   45442 44553

>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=95.38  E-value=0.011  Score=46.50  Aligned_cols=24  Identities=17%  Similarity=0.069  Sum_probs=19.8

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.+++.   |+||+|||||++...||.
T Consensus       101 ~g~vi~---lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVL---VVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEE---EECSTTSSHHHHHHHHHH
T ss_pred             CCeEEE---EECCCCCcHHHHHHHHHH
Confidence            345655   799999999999999984

>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=95.38  E-value=0.01  Score=40.58  Aligned_cols=22  Identities=14%  Similarity=-0.153  Sum_probs=19.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++|+|++|+|||+|...|+..
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4678999999999999999864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.36  E-value=0.0095  Score=40.77  Aligned_cols=23  Identities=9%  Similarity=-0.152  Sum_probs=20.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -++++|++++|||+|...|....
T Consensus        25 ~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           25 EVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCc
Confidence            46789999999999999998664

>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=95.36  E-value=0.011  Score=44.56  Aligned_cols=34  Identities=9%  Similarity=-0.164  Sum_probs=26.0

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      =.+.+++.   |+||+|||||+|..-|+.-.   .|+|.+
T Consensus        25 i~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   61 (243)
T 1mv5_A           25 AQPNSIIA---FAGPSGGGKSTIFSLLERFYQPTAGEITI   61 (243)
T ss_dssp             ECTTEEEE---EECCTTSSHHHHHHHHTTSSCCSBSCEEE
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            35667766   89999999999999888544   366634

>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=95.36  E-value=0.0052  Score=53.98  Aligned_cols=23  Identities=13%  Similarity=-0.135  Sum_probs=20.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++++||+|+|||+++..+|+.+
T Consensus       193 ~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          193 NPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEcCCCCCHHHHHHHHHHHH
Confidence            35679999999999999999876

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.34  E-value=0.0094  Score=41.85  Aligned_cols=16  Identities=6%  Similarity=-0.211  Sum_probs=13.3

Q ss_pred             eeeccCCCchhHHHHH
Q psy7554          26 LSCLPDSVCPHAHQVD   41 (115)
Q Consensus        26 li~GpTasGKS~lai~   41 (115)
                      +|+||+|||||.+.-.
T Consensus        27 ~I~G~NGsGKStil~A   42 (149)
T 1f2t_A           27 LIIGQNGSGKSSLLDA   42 (149)
T ss_dssp             EEECCTTSSHHHHHHH
T ss_pred             EEECCCCCCHHHHHHH
Confidence            5899999999998433

>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=95.34  E-value=0.011  Score=46.64  Aligned_cols=25  Identities=4%  Similarity=-0.277  Sum_probs=20.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++   |+||+|||||.|+..+|..
T Consensus       121 ~G~i~~---I~G~~GsGKTtla~~la~~  145 (343)
T 1v5w_A          121 SMAITE---AFGEFRTGKTQLSHTLCVT  145 (343)
T ss_dssp             SSEEEE---EECCTTCTHHHHHHHHHHH
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHHHH
Confidence            455555   9999999999999999863

>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=95.32  E-value=0.012  Score=39.16  Aligned_cols=22  Identities=18%  Similarity=0.166  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|+++||||+|...|..+
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4788999999999999998754

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.31  E-value=0.0097  Score=40.12  Aligned_cols=23  Identities=13%  Similarity=0.095  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|++++|||+|...|...
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999999754

>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=95.29  E-value=0.0099  Score=46.23  Aligned_cols=31  Identities=6%  Similarity=-0.216  Sum_probs=24.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||+|||||+|..-|+--+   .|+|
T Consensus        32 ~~Ge~~~---iiGpnGsGKSTLl~~l~Gl~~p~~G~I   65 (275)
T 3gfo_A           32 KRGEVTA---ILGGNGVGKSTLFQNFNGILKPSSGRI   65 (275)
T ss_dssp             ETTSEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHHcCCCCCCeEE
Confidence            4566666   89999999999999888543   3666

>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=95.29  E-value=0.011  Score=40.47  Aligned_cols=22  Identities=14%  Similarity=-0.014  Sum_probs=19.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|++++|||+|...|...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4778999999999999999865

>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=95.28  E-value=0.0099  Score=41.88  Aligned_cols=38  Identities=13%  Similarity=-0.015  Sum_probs=25.1

Q ss_pred             ceeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554           8 HYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ||...++....+.--+-++++|+++||||+|...+..+
T Consensus        15 ~~~~~~~~~~~~~~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           15 VPRGSLFSRIFGKKQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             --CCCGGGGTTTTSCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             chHHHHHHHhccCCccEEEEECCCCCCHHHHHHHHHhC
Confidence            34444444333333355889999999999999999754

>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=95.28  E-value=0.014  Score=41.70  Aligned_cols=31  Identities=3%  Similarity=-0.225  Sum_probs=24.7

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC--CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP--DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~--~~eI   50 (115)
                      .+.+++.   |.||.|+|||+|..-|+..+  .|+|
T Consensus        31 ~~Ge~v~---L~G~nGaGKTTLlr~l~g~l~~~G~V   63 (158)
T 1htw_A           31 EKAIMVY---LNGDLGAGKTTLTRGMLQGIGHQGNV   63 (158)
T ss_dssp             SSCEEEE---EECSTTSSHHHHHHHHHHHTTCCSCC
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHHHhCCCCCeE
Confidence            6777766   89999999999998888755  3455

>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=95.27  E-value=0.0099  Score=41.38  Aligned_cols=22  Identities=5%  Similarity=-0.124  Sum_probs=19.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++|+|+.|+|||+|...++..
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            4678999999999999999874

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.27  E-value=0.018  Score=39.42  Aligned_cols=22  Identities=14%  Similarity=-0.153  Sum_probs=19.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|++|+|||+|...|+..
T Consensus         9 ~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4678999999999999999864

>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=95.27  E-value=0.012  Score=40.61  Aligned_cols=23  Identities=13%  Similarity=0.105  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|+.+
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999999854

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.26  E-value=0.022  Score=45.10  Aligned_cols=37  Identities=0%  Similarity=-0.085  Sum_probs=26.5

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---Cc--eEeeccce
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DL--FCRTYQVY   56 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~--eI~IsaDS   56 (115)
                      ..+.+|+.   |+||+|+|||+++..||..+   ++  .+ +.+|-
T Consensus       102 ~~~~~vI~---ivG~~G~GKTT~~~~LA~~l~~~g~kVll-id~D~  143 (320)
T 1zu4_A          102 ENRLNIFM---LVGVNGTGKTTSLAKMANYYAELGYKVLI-AAADT  143 (320)
T ss_dssp             TTSCEEEE---EESSTTSSHHHHHHHHHHHHHHTTCCEEE-EECCC
T ss_pred             CCCCeEEE---EECCCCCCHHHHHHHHHHHHHHCCCeEEE-EeCCC
Confidence            34556655   89999999999998888533   33  34 77775

>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=95.26  E-value=0.012  Score=39.98  Aligned_cols=23  Identities=22%  Similarity=0.277  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++|+|++++|||+|...|...
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999999853

>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=95.24  E-value=0.012  Score=39.99  Aligned_cols=23  Identities=17%  Similarity=0.172  Sum_probs=19.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|...
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999999854

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.23  E-value=0.012  Score=39.81  Aligned_cols=22  Identities=0%  Similarity=-0.324  Sum_probs=18.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|++++|||+|...|...
T Consensus        10 ~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A           10 VVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             EEEEESCTTTTHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3678999999999999999753

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=95.23  E-value=0.0099  Score=45.22  Aligned_cols=26  Identities=8%  Similarity=-0.162  Sum_probs=20.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +..+++   ++||+|+|||.+++.++.+.
T Consensus        11 ~G~i~l---itG~mGsGKTT~ll~~~~r~   36 (223)
T 2b8t_A           11 IGWIEF---ITGPMFAGKTAELIRRLHRL   36 (223)
T ss_dssp             CCEEEE---EECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEE---EECCCCCcHHHHHHHHHHHH
Confidence            445554   99999999999999888654

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.23  E-value=0.0057  Score=44.95  Aligned_cols=21  Identities=0%  Similarity=-0.216  Sum_probs=18.5

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +.|+|+.|||||+|+..|++.
T Consensus         7 i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            7 WQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            568999999999999998865

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=95.21  E-value=0.012  Score=46.48  Aligned_cols=32  Identities=3%  Similarity=-0.361  Sum_probs=23.1

Q ss_pred             eeeeccCCCchhHHHHHHhc---CCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD---GPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~---~~~~eI~IsaDSm   57 (115)
                      .+|+||||||||.+...++.   ..++.| +..|.-
T Consensus        38 ~~i~G~~G~GKs~~~~~~~~~~~~~~~~~-~~~D~~   72 (392)
T 4ag6_A           38 WTILAKPGAGKSFTAKMLLLREYMQGSRV-IIIDPE   72 (392)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTCCE-EEEESS
T ss_pred             eEEEcCCCCCHHHHHHHHHHHHHHCCCEE-EEEeCC
Confidence            56899999999999776663   346666 556643

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.20  E-value=0.0094  Score=50.41  Aligned_cols=24  Identities=4%  Similarity=-0.208  Sum_probs=21.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      .++|.||+|+|||.|+..||..++
T Consensus        62 ~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           62 HVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             EEEEEeCCCCCHHHHHHHHhccCC
Confidence            456899999999999999998774

>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=95.20  E-value=0.013  Score=39.38  Aligned_cols=24  Identities=13%  Similarity=0.059  Sum_probs=20.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++++|+++||||+|...|....
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            458899999999999999998543

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.20  E-value=0.011  Score=42.09  Aligned_cols=31  Identities=0%  Similarity=-0.375  Sum_probs=22.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC----CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP----DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~----~~eI~IsaDS   56 (115)
                      ++|+|+.|||||+|..+|+..+    ...+ |..|.
T Consensus        33 i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~-i~~d~   67 (221)
T 2wsm_A           33 VNIMGAIGSGKTLLIERTIERIGNEVKIGA-MLGDV   67 (221)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHTTTSCEEE-EECSC
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhccCCeEEE-EecCC
Confidence            5689999999999999988653    2344 55553

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=95.19  E-value=0.006  Score=42.85  Aligned_cols=20  Identities=20%  Similarity=0.361  Sum_probs=17.0

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      +++.+|||+|||.+++.++.
T Consensus        51 ~li~~~tGsGKT~~~~~~~~   70 (216)
T 3b6e_A           51 IIICLPTGSGKTRVAVYIAK   70 (216)
T ss_dssp             EEEECSCHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            56899999999988877765

>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=95.18  E-value=0.012  Score=45.41  Aligned_cols=31  Identities=13%  Similarity=-0.026  Sum_probs=24.4

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||+|||||+|..-|+--.   .|+|
T Consensus        35 ~~Ge~~~---liG~nGsGKSTLl~~l~Gl~~p~~G~I   68 (266)
T 4g1u_C           35 ASGEMVA---IIGPNGAGKSTLLRLLTGYLSPSHGEC   68 (266)
T ss_dssp             ETTCEEE---EECCTTSCHHHHHHHHTSSSCCSSCEE
T ss_pred             cCCCEEE---EECCCCCcHHHHHHHHhcCCCCCCcEE
Confidence            4566666   89999999999999988543   4666

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.17  E-value=0.013  Score=39.79  Aligned_cols=22  Identities=18%  Similarity=0.015  Sum_probs=19.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|++++|||+|...|...
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4788999999999999999865

>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=95.17  E-value=0.013  Score=39.61  Aligned_cols=23  Identities=9%  Similarity=-0.033  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            45889999999999999999854

>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=95.17  E-value=0.013  Score=39.44  Aligned_cols=22  Identities=9%  Similarity=-0.090  Sum_probs=19.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~   44 (115)
                      +-++++|+++||||+|...|..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4578899999999999999974

>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=95.17  E-value=0.012  Score=44.69  Aligned_cols=33  Identities=3%  Similarity=-0.303  Sum_probs=24.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      .+.+++.   |+||+|||||+|..-|+.-+   .|+|.+
T Consensus        33 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~I~i   68 (247)
T 2ff7_A           33 KQGEVIG---IVGRSGSGKSTLTKLIQRFYIPENGQVLI   68 (247)
T ss_dssp             ETTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            3556665   89999999999988888654   366633

>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC transporter ATPase domain-like; HET: DNA ADP; 2.70A {Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*

Probab=95.16  E-value=0.0097  Score=47.22  Aligned_cols=17  Identities=6%  Similarity=-0.205  Sum_probs=14.4

Q ss_pred             eeeccCCCchhHH--HHHH
Q psy7554          26 LSCLPDSVCPHAH--QVDL   42 (115)
Q Consensus        26 li~GpTasGKS~l--ai~L   42 (115)
                      +|+||||+|||.+  |+.+
T Consensus        29 vi~G~NGaGKT~ileAI~~   47 (371)
T 3auy_A           29 AIIGENGSGKSSIFEAVFF   47 (371)
T ss_dssp             EEEECTTSSHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHH
Confidence            4899999999998  5554

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.14  E-value=0.013  Score=47.82  Aligned_cols=25  Identities=12%  Similarity=0.197  Sum_probs=20.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      |.++++   |+|++|+|||+|++.+|..
T Consensus       202 ~G~lii---I~G~pG~GKTtl~l~ia~~  226 (454)
T 2r6a_A          202 RSDLII---VAARPSVGKTAFALNIAQN  226 (454)
T ss_dssp             TTCEEE---EECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEE---EECCCCCCHHHHHHHHHHH
Confidence            556665   9999999999999998753

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.13  E-value=0.012  Score=47.78  Aligned_cols=24  Identities=8%  Similarity=0.210  Sum_probs=20.1

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      |.++++   |+|++|+|||+|++.+|.
T Consensus       199 ~G~l~i---i~G~pg~GKT~lal~ia~  222 (444)
T 2q6t_A          199 PGSLNI---IAARPAMGKTAFALTIAQ  222 (444)
T ss_dssp             TTCEEE---EEECTTSCHHHHHHHHHH
T ss_pred             CCcEEE---EEeCCCCCHHHHHHHHHH
Confidence            455655   999999999999998874

>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=95.13  E-value=0.011  Score=39.48  Aligned_cols=23  Identities=13%  Similarity=-0.181  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -++++|++++|||+|...+....
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            46789999999999999997543

>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=95.13  E-value=0.012  Score=44.67  Aligned_cols=31  Identities=13%  Similarity=-0.102  Sum_probs=24.2

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        31 ~~Ge~~~---liG~nGsGKSTLlk~l~Gl~~p~~G~i   64 (257)
T 1g6h_A           31 NKGDVTL---IIGPNGSGKSTLINVITGFLKADEGRV   64 (257)
T ss_dssp             ETTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             eCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            4566666   89999999999999888654   3666

>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=95.11  E-value=0.013  Score=43.87  Aligned_cols=31  Identities=3%  Similarity=-0.160  Sum_probs=23.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        32 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~p~~G~i   65 (229)
T 2pze_A           32 ERGQLLA---VAGSTGAGKTSLLMMIMGELEPSEGKI   65 (229)
T ss_dssp             ETTCEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCCcCCccEE
Confidence            3556665   89999999999998888654   3565

>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=95.11  E-value=0.014  Score=44.27  Aligned_cols=26  Identities=12%  Similarity=-0.018  Sum_probs=21.7

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+.+++.   |+||.|||||+|..-|+.-
T Consensus        27 ~~Ge~~~---l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           27 PKGEVHA---LMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             ETTCEEE---EECSTTSSHHHHHHHHHTC
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCC
Confidence            4566666   8999999999999988864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.08  E-value=0.014  Score=44.66  Aligned_cols=33  Identities=3%  Similarity=-0.313  Sum_probs=24.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC--CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP--DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~--~~eI~I   52 (115)
                      .+.+++.   |+||+|||||+|..-|+.-+  .|+|.+
T Consensus        44 ~~Ge~~~---i~G~nGsGKSTLl~~l~Gl~~~~G~I~i   78 (260)
T 2ghi_A           44 PSGTTCA---LVGHTGSGKSTIAKLLYRFYDAEGDIKI   78 (260)
T ss_dssp             CTTCEEE---EECSTTSSHHHHHHHHTTSSCCEEEEEE
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhccCCCCeEEEE
Confidence            4566665   89999999999998888543  466633

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.08  E-value=0.017  Score=47.69  Aligned_cols=31  Identities=6%  Similarity=-0.107  Sum_probs=24.9

Q ss_pred             eeeeccCCCchhHHHHHHhc------CCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD------GPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~------~~~~eI~IsaDS   56 (115)
                      ++++|++|||||+++..||.      +...-+ |.+|.
T Consensus       103 I~ivG~~GvGKTT~a~~LA~~l~~~~G~kVll-vd~D~  139 (433)
T 2xxa_A          103 VLMAGLQGAGKTTSVGKLGKFLREKHKKKVLV-VSADV  139 (433)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTSCCCEEE-EECCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEE-EecCC
Confidence            34689999999999999982      555667 88985

>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=95.08  E-value=0.017  Score=46.09  Aligned_cols=27  Identities=7%  Similarity=-0.091  Sum_probs=22.0

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ..+.+|+.   |+||+|||||++...||..
T Consensus       126 ~~~g~vi~---lvG~nGaGKTTll~~Lag~  152 (328)
T 3e70_C          126 AEKPYVIM---FVGFNGSGKTTTIAKLANW  152 (328)
T ss_dssp             SCSSEEEE---EECCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEE---EECCCCCCHHHHHHHHHHH
Confidence            34566766   8999999999999998853

>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=95.06  E-value=0.014  Score=39.82  Aligned_cols=23  Identities=4%  Similarity=0.003  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+++||||+|...|...
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45889999999999999998744

>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=95.06  E-value=0.017  Score=38.91  Aligned_cols=23  Identities=9%  Similarity=0.021  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|...
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999999865

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=95.04  E-value=0.019  Score=40.22  Aligned_cols=26  Identities=15%  Similarity=0.051  Sum_probs=21.3

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .--+.++|+|++++|||+|...|...
T Consensus        24 ~~~~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           24 DFKLQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHCC-
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34456889999999999999999754

>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=95.04  E-value=0.016  Score=40.84  Aligned_cols=23  Identities=9%  Similarity=-0.062  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-+.|+||.|+|||+|...|+..
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            45789999999999999999865

>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=95.04  E-value=0.015  Score=44.57  Aligned_cols=26  Identities=15%  Similarity=0.144  Sum_probs=21.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+.+++.   |+||.|||||+|..-|+.-
T Consensus        44 ~~Ge~~~---l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHA---IMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCC
Confidence            4566666   8999999999999988875

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.04  E-value=0.011  Score=43.95  Aligned_cols=39  Identities=13%  Similarity=0.113  Sum_probs=25.5

Q ss_pred             CccccceeeeeccC-CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554           3 LRPATHYQVNLLTG-TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus         3 ~~~~~~~~~~~~~~-~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +||.+--+...|.+ .+.+++.   |+||.|||||+|..-|+.
T Consensus         5 i~pk~~g~~~~l~~i~~Ge~~~---liG~nGsGKSTLl~~l~G   44 (208)
T 3b85_A            5 IRPKTLGQKHYVDAIDTNTIVF---GLGPAGSGKTYLAMAKAV   44 (208)
T ss_dssp             CCCCSHHHHHHHHHHHHCSEEE---EECCTTSSTTHHHHHHHH
T ss_pred             cccCCHhHHHHHHhccCCCEEE---EECCCCCCHHHHHHHHhc
Confidence            45555443322222 3556665   899999999999887764

>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=95.03  E-value=0.014  Score=43.97  Aligned_cols=31  Identities=3%  Similarity=-0.195  Sum_probs=23.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-|+.-.   .|+|
T Consensus        30 ~~Ge~~~---l~G~nGsGKSTLl~~l~Gl~~p~~G~i   63 (240)
T 1ji0_A           30 PRGQIVT---LIGANGAGKTTTLSAIAGLVRAQKGKI   63 (240)
T ss_dssp             ETTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            3556665   89999999999998888543   3666

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.03  E-value=0.009  Score=42.69  Aligned_cols=21  Identities=10%  Similarity=-0.186  Sum_probs=18.6

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|+|..|||||+|..+|+..
T Consensus        41 i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           41 FDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            567899999999999999865

>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=95.02  E-value=0.013  Score=44.01  Aligned_cols=31  Identities=6%  Similarity=-0.150  Sum_probs=23.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-.   .|.|
T Consensus        33 ~~Ge~~~---iiG~NGsGKSTLlk~l~Gl~~p~~G~I   66 (214)
T 1sgw_A           33 EKGNVVN---FHGPNGIGKTTLLKTISTYLKPLKGEI   66 (214)
T ss_dssp             ETTCCEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCeEE
Confidence            3556665   89999999999998888654   3666

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.02  E-value=0.013  Score=44.81  Aligned_cols=31  Identities=3%  Similarity=-0.272  Sum_probs=24.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        30 ~~Ge~~~---liG~nGsGKSTLlk~l~Gl~~p~~G~i   63 (262)
T 1b0u_A           30 RAGDVIS---IIGSSGSGKSTFLRCINFLEKPSEGAI   63 (262)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            4666666   89999999999999888544   3666

>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=95.00  E-value=0.013  Score=41.37  Aligned_cols=24  Identities=8%  Similarity=-0.067  Sum_probs=20.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +-+.|+||.|||||+|...++...
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            457899999999999999998653

>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=95.00  E-value=0.016  Score=40.19  Aligned_cols=23  Identities=9%  Similarity=-0.061  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++|+|++++|||+|...|...
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            45889999999999999998854

>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=95.00  E-value=0.015  Score=44.60  Aligned_cols=31  Identities=3%  Similarity=-0.082  Sum_probs=24.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-|+.-.   .|+|
T Consensus        39 ~~Gei~~---l~G~NGsGKSTLlk~l~Gl~~p~~G~I   72 (256)
T 1vpl_A           39 EEGEIFG---LIGPNGAGKTTTLRIISTLIKPSSGIV   72 (256)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCcEEE---EECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            4666766   89999999999999888544   3566

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.97  E-value=0.015  Score=38.80  Aligned_cols=21  Identities=14%  Similarity=-0.088  Sum_probs=18.5

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -++++|++++|||+|...+..
T Consensus         2 ki~~~G~~~~GKssl~~~l~~   22 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKL   22 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            467899999999999999864

>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=94.97  E-value=0.015  Score=38.88  Aligned_cols=23  Identities=17%  Similarity=0.021  Sum_probs=19.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|..+
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            35788999999999999999643

>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=94.95  E-value=0.017  Score=39.19  Aligned_cols=23  Identities=9%  Similarity=0.050  Sum_probs=19.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35788999999999999988743

>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=94.94  E-value=0.017  Score=39.44  Aligned_cols=23  Identities=9%  Similarity=0.017  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+++||||+|...|..+
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998854

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=94.94  E-value=0.0079  Score=51.36  Aligned_cols=27  Identities=4%  Similarity=-0.229  Sum_probs=23.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .+|+.||+|+|||.||..+|+..+...
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~  355 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAV  355 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEE
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCce
Confidence            577899999999999999999876443

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.94  E-value=0.014  Score=42.80  Aligned_cols=21  Identities=10%  Similarity=-0.050  Sum_probs=17.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +.|+||+|||||+|...||..
T Consensus         4 i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            4 VFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEECCCCChHHHHHHHHHhh
Confidence            348999999999998888854

>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=94.92  E-value=0.014  Score=47.59  Aligned_cols=21  Identities=5%  Similarity=-0.108  Sum_probs=19.0

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|.||+|+|||.||..+|..
T Consensus       126 iLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          126 VIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             EEEECSCSSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHh
Confidence            469999999999999999975

>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=94.92  E-value=0.019  Score=39.42  Aligned_cols=24  Identities=13%  Similarity=-0.029  Sum_probs=20.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++++|+++||||+|...+..+.
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            457889999999999999998654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.91  E-value=0.016  Score=44.30  Aligned_cols=34  Identities=3%  Similarity=-0.321  Sum_probs=25.5

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      =.+.+++.   |+||.|||||+|..-|+.-.   .|+|.+
T Consensus        30 i~~Ge~~~---liG~nGsGKSTLl~~i~Gl~~p~~G~I~~   66 (266)
T 2yz2_A           30 INEGECLL---VAGNTGSGKSTLLQIVAGLIEPTSGDVLY   66 (266)
T ss_dssp             ECTTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EcCCCEEE---EECCCCCcHHHHHHHHhCCCCCCCcEEEE
Confidence            34666666   89999999999998888544   366633

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.90  E-value=0.0075  Score=43.77  Aligned_cols=22  Identities=0%  Similarity=-0.298  Sum_probs=18.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+||+|||||+|...|+..+
T Consensus         5 v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            5 LSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             EEEEESCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999998887543

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=94.88  E-value=0.077  Score=41.82  Aligned_cols=37  Identities=8%  Similarity=-0.276  Sum_probs=23.9

Q ss_pred             eeeeccCCCchhHHHHHHhcC-----CCceEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQVYkg   62 (115)
                      +.|+|+.|+|||+|+.+|+..     ....+ +.+|...-+.+
T Consensus        82 I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~v-i~~Dp~~~~~~  123 (355)
T 3p32_A           82 VGITGVPGVGKSTAIEALGMHLIERGHRVAV-LAVDPSSTRTG  123 (355)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTCCEEE-EEEC-------
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCceEE-EecCCCCCccc
Confidence            568999999999999998744     34456 77885444433

>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=94.87  E-value=0.023  Score=38.48  Aligned_cols=23  Identities=0%  Similarity=-0.162  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46889999999999999998754

>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=94.87  E-value=0.0042  Score=50.89  Aligned_cols=23  Identities=9%  Similarity=-0.211  Sum_probs=20.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++++|..|||||.++..||+.++
T Consensus        42 IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           42 IVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            56899999999999999998753

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.87  E-value=0.016  Score=44.63  Aligned_cols=33  Identities=12%  Similarity=-0.102  Sum_probs=24.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|.+
T Consensus        43 ~~Ge~~~---i~G~nGsGKSTLlk~l~Gl~~p~~G~I~~   78 (271)
T 2ixe_A           43 YPGKVTA---LVGPNGSGKSTVAALLQNLYQPTGGKVLL   78 (271)
T ss_dssp             CTTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCCEEEE
Confidence            3555555   89999999999998888654   366633

>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=94.86  E-value=0.014  Score=39.74  Aligned_cols=22  Identities=18%  Similarity=-0.073  Sum_probs=19.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++|+++||||+|...+..
T Consensus        19 ~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           19 LRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3577899999999999999974

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.84  E-value=0.018  Score=43.68  Aligned_cols=28  Identities=4%  Similarity=-0.241  Sum_probs=22.8

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +++.   |.||.|||||+|..-|+--.   .|+|
T Consensus        25 e~~~---liG~nGsGKSTLl~~l~Gl~~p~~G~i   55 (240)
T 2onk_A           25 DYCV---LLGPTGAGKSVFLELIAGIVKPDRGEV   55 (240)
T ss_dssp             SEEE---EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EEEE---EECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            6666   89999999999999988554   3666

>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=94.84  E-value=0.014  Score=42.53  Aligned_cols=21  Identities=5%  Similarity=-0.197  Sum_probs=18.0

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +.|+||.|||||+|...|++.
T Consensus         9 i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            9 LAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHh
Confidence            458999999999998888754

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=94.82  E-value=0.015  Score=52.06  Aligned_cols=35  Identities=6%  Similarity=-0.191  Sum_probs=29.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      .+|+.||.|+|||.||..+|.+.+... ++.+.-.+
T Consensus       513 gvLl~GPPGtGKT~lAkaiA~e~~~~f-~~v~~~~l  547 (806)
T 3cf2_A          513 GVLFYGPPGCGKTLLAKAIANECQANF-ISIKGPEL  547 (806)
T ss_dssp             CCEEESSTTSSHHHHHHHHHHTTTCEE-EECCHHHH
T ss_pred             eEEEecCCCCCchHHHHHHHHHhCCce-EEeccchh
Confidence            567899999999999999999999887 66654443

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.81  E-value=0.017  Score=47.54  Aligned_cols=25  Identities=12%  Similarity=0.046  Sum_probs=20.7

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .|.++++   |+|++|+|||+|++++|.
T Consensus       195 ~~G~lii---IaG~pG~GKTtlal~ia~  219 (444)
T 3bgw_A          195 KRRNFVL---IAARPSMGKTAFALKQAK  219 (444)
T ss_dssp             CSSCEEE---EEECSSSSHHHHHHHHHH
T ss_pred             CCCcEEE---EEeCCCCChHHHHHHHHH
Confidence            3556665   999999999999998874

>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=94.80  E-value=0.019  Score=38.79  Aligned_cols=23  Identities=17%  Similarity=0.169  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998754

>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=94.78  E-value=0.014  Score=46.06  Aligned_cols=23  Identities=9%  Similarity=-0.230  Sum_probs=19.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +.|+||+|||||+|+..|+..++
T Consensus       173 ~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          173 VAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             EEEECCTTSHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            34899999999999999997654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.78  E-value=0.018  Score=43.96  Aligned_cols=31  Identities=3%  Similarity=-0.265  Sum_probs=23.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-|+.-+   .|+|
T Consensus        29 ~~Ge~~~---l~G~nGsGKSTLl~~l~Gl~~p~~G~I   62 (253)
T 2nq2_C           29 NKGDILA---VLGQNGCGKSTLLDLLLGIHRPIQGKI   62 (253)
T ss_dssp             ETTCEEE---EECCSSSSHHHHHHHHTTSSCCSEEEE
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            3556655   89999999999998888654   3666

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.78  E-value=0.022  Score=48.30  Aligned_cols=32  Identities=6%  Similarity=-0.199  Sum_probs=25.3

Q ss_pred             eeeeeccCCCchhHHHHHHhc-----CCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD-----GPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~-----~~~~eI~IsaDS   56 (115)
                      .++|+|++|||||+++.+||.     +...-+ |.+|.
T Consensus       103 vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVll-Vd~D~  139 (504)
T 2j37_W          103 VIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCL-ICADT  139 (504)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEE-EEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEE-Eeccc
Confidence            356889999999999999994     345556 88875

>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=94.76  E-value=0.022  Score=39.45  Aligned_cols=24  Identities=8%  Similarity=-0.032  Sum_probs=20.4

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+-++|+|+++||||+|...|...
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            356889999999999999998744

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=94.75  E-value=0.027  Score=41.82  Aligned_cols=19  Identities=11%  Similarity=-0.046  Sum_probs=16.6

Q ss_pred             eeeeccCCCchhHHHHHHh
Q psy7554          25 YLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA   43 (115)
                      ++|+|+.|||||.+|+.++
T Consensus         8 ~l~tG~pGsGKT~~a~~~~   26 (199)
T 2r2a_A            8 CLITGTPGSGKTLKMVSMM   26 (199)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            4599999999999998864

>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=94.75  E-value=0.021  Score=39.46  Aligned_cols=24  Identities=8%  Similarity=0.047  Sum_probs=20.3

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+.++++|+++||||+|...|...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            356889999999999999998743

>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=94.74  E-value=0.018  Score=39.89  Aligned_cols=22  Identities=5%  Similarity=-0.141  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++|+|++++|||+|...|+..
T Consensus         6 ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            6 KVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999865

>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=94.74  E-value=0.02  Score=39.18  Aligned_cols=23  Identities=22%  Similarity=0.140  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999999754

>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=94.73  E-value=0.028  Score=38.25  Aligned_cols=23  Identities=9%  Similarity=-0.089  Sum_probs=19.8

Q ss_pred             EeeeeeeccCCCchhHHHHHHhc
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~   44 (115)
                      -+-++++|++++|||+|...|..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            34578899999999999999983

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=94.73  E-value=0.02  Score=40.11  Aligned_cols=23  Identities=9%  Similarity=0.017  Sum_probs=20.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|++++|||+|...|...
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            56889999999999999999754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.73  E-value=0.018  Score=44.68  Aligned_cols=31  Identities=3%  Similarity=-0.197  Sum_probs=23.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        45 ~~Ge~~~---liG~NGsGKSTLlk~l~Gl~~p~~G~I   78 (279)
T 2ihy_A           45 AKGDKWI---LYGLNGAGKTTLLNILNAYEPATSGTV   78 (279)
T ss_dssp             ETTCEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCcHHHHHHHHhCCCCCCCeEE
Confidence            3556655   89999999999999888654   3666

>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=94.73  E-value=0.02  Score=39.77  Aligned_cols=23  Identities=17%  Similarity=0.198  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|++++|||+|...|...
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            45889999999999999999854

>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=94.73  E-value=0.024  Score=39.56  Aligned_cols=24  Identities=17%  Similarity=0.069  Sum_probs=20.7

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+-++|+|+++||||+|...|...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999999864

>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=94.73  E-value=0.0093  Score=41.91  Aligned_cols=22  Identities=9%  Similarity=-0.112  Sum_probs=18.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+|++|+|||+|...|+...
T Consensus        29 v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           29 VAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             EEEEECTTSSHHHHHTTTCCC-
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999998887544

>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=94.72  E-value=0.018  Score=44.46  Aligned_cols=31  Identities=10%  Similarity=-0.147  Sum_probs=24.2

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        48 ~~Gei~~---liG~NGsGKSTLlk~l~Gl~~p~~G~I   81 (263)
T 2olj_A           48 REGEVVV---VIGPSGSGKSTFLRCLNLLEDFDEGEI   81 (263)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EEcCCCCcHHHHHHHHHcCCCCCCcEE
Confidence            4566666   89999999999998888544   3666

>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=94.71  E-value=0.018  Score=39.09  Aligned_cols=23  Identities=9%  Similarity=0.094  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|++++|||+|...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35788999999999999999854

>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=94.70  E-value=0.017  Score=42.75  Aligned_cols=26  Identities=8%  Similarity=-0.134  Sum_probs=21.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +..+++   ++||.+||||..++++|.+.
T Consensus         7 ~g~i~v---~~G~mgsGKTT~ll~~a~r~   32 (191)
T 1xx6_A            7 HGWVEV---IVGPMYSGKSEELIRRIRRA   32 (191)
T ss_dssp             CCEEEE---EECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEE---EECCCCCcHHHHHHHHHHHH
Confidence            345655   89999999999999988654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.69  E-value=0.021  Score=39.24  Aligned_cols=23  Identities=13%  Similarity=0.078  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|++++|||+|...|...
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999999854

>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=94.68  E-value=0.021  Score=39.72  Aligned_cols=23  Identities=9%  Similarity=-0.044  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|++++|||+|...|...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999998754

>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=94.68  E-value=0.024  Score=39.19  Aligned_cols=23  Identities=4%  Similarity=-0.117  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|..+
T Consensus        17 ~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           17 HKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            45788999999999999999854

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=94.67  E-value=0.018  Score=45.99  Aligned_cols=24  Identities=13%  Similarity=0.025  Sum_probs=19.9

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |.||.|||||.|++.+|.
T Consensus        60 ~G~iv~---I~G~pGsGKTtLal~la~   83 (349)
T 2zr9_A           60 RGRVIE---IYGPESSGKTTVALHAVA   83 (349)
T ss_dssp             TTSEEE---EEESTTSSHHHHHHHHHH
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHHH
Confidence            445555   899999999999999884

>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=94.66  E-value=0.0052  Score=52.52  Aligned_cols=23  Identities=9%  Similarity=-0.236  Sum_probs=21.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+|+.|||||++|..|+++++
T Consensus       399 I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          399 IFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEeecCCCCCHHHHHHHHHHHhc
Confidence            56899999999999999999876

>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=94.64  E-value=0.013  Score=46.38  Aligned_cols=34  Identities=15%  Similarity=-0.125  Sum_probs=24.9

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      =.+.+++.   |+||+|||||+|..-|+.-+   .|+|.+
T Consensus        77 i~~Ge~va---ivG~sGsGKSTLl~ll~gl~~p~~G~I~i  113 (306)
T 3nh6_A           77 VMPGQTLA---LVGPSGAGKSTILRLLFRFYDISSGCIRI  113 (306)
T ss_dssp             ECTTCEEE---EESSSCHHHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EcCCCEEE---EECCCCchHHHHHHHHHcCCCCCCcEEEE
Confidence            34556655   89999999999998887654   356633

>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=94.64  E-value=0.022  Score=39.40  Aligned_cols=27  Identities=19%  Similarity=0.130  Sum_probs=21.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ++.. +-++|+|++++|||+|...|...
T Consensus        19 ~~~~-~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           19 SDYM-FKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             CSEE-EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cCce-eEEEEECCCCCCHHHHHHHHHcC
Confidence            3443 45889999999999999999754

>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=94.63  E-value=0.014  Score=45.00  Aligned_cols=23  Identities=0%  Similarity=-0.263  Sum_probs=19.7

Q ss_pred             eeee--eccCCCchhHHHHHHhcCC
Q psy7554          24 SYLS--CLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li--~GpTasGKS~lai~LA~~~   46 (115)
                      .++|  .||.|+|||.|+..+++.+
T Consensus        52 ~~li~i~G~~G~GKT~L~~~~~~~~   76 (412)
T 1w5s_A           52 NMIYGSIGRVGIGKTTLAKFTVKRV   76 (412)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHHHH
T ss_pred             EEEEeCcCcCCCCHHHHHHHHHHHH
Confidence            4567  9999999999999998765

>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=94.63  E-value=0.022  Score=39.22  Aligned_cols=24  Identities=4%  Similarity=-0.119  Sum_probs=20.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++++|+++||||+|...|..+.
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~~   45 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMNE   45 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTTS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999998653

>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=94.62  E-value=0.024  Score=48.50  Aligned_cols=38  Identities=13%  Similarity=-0.127  Sum_probs=27.4

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee-ccce
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT-YQVY   56 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I-saDS   56 (115)
                      -.+.+|+.   |+||+|||||+|...||..+   +|.|.+ +.|-
T Consensus       290 i~~GeVI~---LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~  331 (503)
T 2yhs_A          290 GKAPFVIL---MVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDT  331 (503)
T ss_dssp             SCTTEEEE---EECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCT
T ss_pred             ccCCeEEE---EECCCcccHHHHHHHHHHHhhhcCCeEEEecCcc
Confidence            34566766   89999999999999998543   455534 4564

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.62  E-value=0.03  Score=47.42  Aligned_cols=34  Identities=12%  Similarity=-0.247  Sum_probs=25.8

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      =.|.+++.   |+||+|||||+|..-|+.-.   .|+|.+
T Consensus       378 i~~G~~~~---ivG~sGsGKSTll~~l~g~~~p~~G~i~~  414 (598)
T 3qf4_B          378 IKPGQKVA---LVGPTGSGKTTIVNLLMRFYDVDRGQILV  414 (598)
T ss_dssp             CCTTCEEE---EECCTTSSTTHHHHHHTTSSCCSEEEEEE
T ss_pred             EcCCCEEE---EECCCCCcHHHHHHHHhcCcCCCCeEEEE
Confidence            35667666   89999999999998888655   366644

>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=94.61  E-value=0.022  Score=39.98  Aligned_cols=23  Identities=13%  Similarity=0.088  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999999753

>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=94.60  E-value=0.023  Score=39.67  Aligned_cols=23  Identities=13%  Similarity=-0.067  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|..+
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999999854

>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=94.59  E-value=0.019  Score=40.53  Aligned_cols=22  Identities=18%  Similarity=-0.079  Sum_probs=19.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|+++||||+|...|...
T Consensus         9 ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            9 AVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4778999999999999999854

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=94.58  E-value=0.019  Score=40.25  Aligned_cols=14  Identities=0%  Similarity=-0.135  Sum_probs=12.3

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++.+|||||||..
T Consensus        41 ~li~~~TGsGKT~~   54 (207)
T 2gxq_A           41 LIGQARTGTGKTLA   54 (207)
T ss_dssp             EEEECCTTSCHHHH
T ss_pred             EEEECCCCChHHHH
Confidence            66899999999965

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.58  E-value=0.021  Score=45.98  Aligned_cols=26  Identities=4%  Similarity=-0.008  Sum_probs=21.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .|.++++   |+|++|+|||+|++.+|..
T Consensus        44 ~~G~Lii---IaG~pG~GKTt~al~ia~~   69 (338)
T 4a1f_A           44 NKGSLVI---IGARPSMGKTSLMMNMVLS   69 (338)
T ss_dssp             CTTCEEE---EEECTTSCHHHHHHHHHHH
T ss_pred             CCCcEEE---EEeCCCCCHHHHHHHHHHH
Confidence            4666666   9999999999999998754

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=94.57  E-value=0.031  Score=47.00  Aligned_cols=33  Identities=3%  Similarity=-0.263  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      .|.+++.   |+||+|||||+|..-|+.-.   .|+|.+
T Consensus       367 ~~G~~~~---ivG~sGsGKSTLl~~l~g~~~p~~G~i~~  402 (582)
T 3b60_A          367 PAGKTVA---LVGRSGSGKSTIASLITRFYDIDEGHILM  402 (582)
T ss_dssp             CTTCEEE---EEECTTSSHHHHHHHHTTTTCCSEEEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhhccCCCCCeEEE
Confidence            4555555   89999999999999888654   366633

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=94.56  E-value=0.018  Score=45.98  Aligned_cols=16  Identities=6%  Similarity=-0.074  Sum_probs=13.4

Q ss_pred             eeccCCCchhHHHHHH
Q psy7554          27 SCLPDSVCPHAHQVDL   42 (115)
Q Consensus        27 i~GpTasGKS~lai~L   42 (115)
                      |+||||||||+|--.+
T Consensus        28 i~G~NGaGKTTll~ai   43 (365)
T 3qf7_A           28 VEGPNGAGKSSLFEAI   43 (365)
T ss_dssp             EECCTTSSHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHH
Confidence            8999999999994443

>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=94.56  E-value=0.012  Score=50.08  Aligned_cols=24  Identities=8%  Similarity=-0.157  Sum_probs=21.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |+++|+.|||||++|..||++++.
T Consensus       398 I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          398 IVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             EEecccCCCCHHHHHHHHHHHHHH
Confidence            667999999999999999999873

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.55  E-value=0.024  Score=39.85  Aligned_cols=28  Identities=14%  Similarity=0.064  Sum_probs=21.6

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      |..--+-++++|++++|||+|...|...
T Consensus        20 ~~~~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           20 PLVRYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CCCCcEEEEEECCCCcCHHHHHHHHHhC
Confidence            4444566889999999999999999854

>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=94.53  E-value=0.011  Score=44.09  Aligned_cols=23  Identities=9%  Similarity=-0.035  Sum_probs=20.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |++.||.|||||+++-.|++.++
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~   31 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLR   31 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999998764

>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=94.52  E-value=0.03  Score=43.77  Aligned_cols=30  Identities=3%  Similarity=-0.318  Sum_probs=22.6

Q ss_pred             eeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      +++|++|+|||.++..||..+     ...+ +.+|-
T Consensus       102 ~i~G~~G~GKTT~~~~la~~~~~~g~~v~l-~~~D~  136 (297)
T 1j8m_F          102 MLVGVQGTGKTTTAGKLAYFYKKKGFKVGL-VGADV  136 (297)
T ss_dssp             EEECSSCSSTTHHHHHHHHHHHHTTCCEEE-EECCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCeEEE-EecCC
Confidence            368999999999999998433     3345 77773

>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=94.50  E-value=0.025  Score=39.86  Aligned_cols=23  Identities=4%  Similarity=0.043  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++|+|+++||||+|...|...
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC-
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46889999999999999999754

>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=94.47  E-value=0.037  Score=38.26  Aligned_cols=28  Identities=11%  Similarity=0.146  Sum_probs=22.8

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +..--+-++++|++++|||+|...|...
T Consensus        14 ~~~~~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           14 PGALMLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcC
Confidence            3344567899999999999999999854

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.47  E-value=0.0093  Score=50.63  Aligned_cols=31  Identities=3%  Similarity=-0.385  Sum_probs=25.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc-----eEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL-----FCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~-----eI~IsaDS   56 (115)
                      ++++|+.|||||++|..|++.++.     .+ +..|.
T Consensus       375 I~l~G~~GsGKSTia~~La~~L~~~G~~~~~-ld~D~  410 (546)
T 2gks_A          375 VWLTGLPCAGKSTIAEILATMLQARGRKVTL-LDGDV  410 (546)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEE-ECHHH
T ss_pred             EEccCCCCCCHHHHHHHHHHHhhhcCCeEEE-ECchH
Confidence            567999999999999999998753     55 66664

>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=94.45  E-value=0.03  Score=39.01  Aligned_cols=24  Identities=8%  Similarity=-0.119  Sum_probs=20.8

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+.++|+|++++|||+|...|...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999999754

>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=94.45  E-value=0.022  Score=41.06  Aligned_cols=23  Identities=4%  Similarity=-0.089  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .-++++|++++|||+|...|...
T Consensus        30 ~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           30 KTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45788999999999999999764

>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=94.43  E-value=0.02  Score=46.09  Aligned_cols=25  Identities=8%  Similarity=0.044  Sum_probs=20.1

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +..+++   |+||.|||||.||+.+|..
T Consensus        62 ~G~ii~---I~G~pGsGKTtLal~la~~   86 (356)
T 1u94_A           62 MGRIVE---IYGPESSGKTTLTLQVIAA   86 (356)
T ss_dssp             TTSEEE---EECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHHHH
Confidence            344554   8999999999999998853

>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=94.42  E-value=0.024  Score=45.94  Aligned_cols=25  Identities=4%  Similarity=-0.110  Sum_probs=20.3

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++.+   |.||.|||||.|+..+|..
T Consensus        60 ~G~i~~---I~GppGsGKSTLal~la~~   84 (356)
T 3hr8_A           60 RGRIVE---IFGQESSGKTTLALHAIAE   84 (356)
T ss_dssp             TTEEEE---EEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEE---EECCCCCCHHHHHHHHHHH
Confidence            345555   9999999999999998854

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.40  E-value=0.03  Score=39.00  Aligned_cols=23  Identities=13%  Similarity=0.034  Sum_probs=19.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...+...
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999999854

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=94.39  E-value=0.025  Score=42.34  Aligned_cols=18  Identities=6%  Similarity=-0.163  Sum_probs=13.9

Q ss_pred             eeeeeccCCCchhHHHHH
Q psy7554          24 SYLSCLPDSVCPHAHQVD   41 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~   41 (115)
                      ++++.+|||||||..++.
T Consensus        46 ~~l~~~~TGsGKT~~~~~   63 (367)
T 1hv8_A           46 NIVAQARTGSGKTASFAI   63 (367)
T ss_dssp             EEEEECCSSSSHHHHHHH
T ss_pred             CEEEECCCCChHHHHHHH
Confidence            355799999999976543

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=94.38  E-value=0.021  Score=39.65  Aligned_cols=24  Identities=13%  Similarity=-0.035  Sum_probs=20.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      ..++++|+.++|||+|...|....
T Consensus        17 ~ki~ivG~~~vGKSsL~~~l~~~~   40 (181)
T 1fzq_A           17 VRILLLGLDNAGKTTLLKQLASED   40 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            357889999999999999998764

>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=94.37  E-value=0.028  Score=38.74  Aligned_cols=23  Identities=9%  Similarity=0.060  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|...
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHHcC
Confidence            35788999999999999999753

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.37  E-value=0.031  Score=38.52  Aligned_cols=30  Identities=10%  Similarity=0.061  Sum_probs=21.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .|..-..-++|+|+.++|||+|...|....
T Consensus        12 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           12 GQSKTKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             ----CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             cCCCCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            344555668899999999999999997643

>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=94.34  E-value=0.036  Score=46.61  Aligned_cols=33  Identities=3%  Similarity=-0.345  Sum_probs=24.8

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      .|.+++.   |+||+|||||+|..-|+.-.   .|+|.+
T Consensus       367 ~~G~~~~---ivG~sGsGKSTll~~l~g~~~p~~G~i~~  402 (582)
T 3b5x_A          367 PQGKTVA---LVGRSGSGKSTIANLFTRFYDVDSGSICL  402 (582)
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCCEEEE
Confidence            4556655   89999999999998888654   466633

>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=94.34  E-value=0.018  Score=39.07  Aligned_cols=23  Identities=9%  Similarity=-0.145  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+.++|||+|..++..+
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35788999999999999999864

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=94.33  E-value=0.028  Score=39.02  Aligned_cols=23  Identities=4%  Similarity=-0.107  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+.++|||+|...|...
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999843

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=94.32  E-value=0.041  Score=43.85  Aligned_cols=48  Identities=13%  Similarity=0.046  Sum_probs=32.4

Q ss_pred             CCCccccceeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCC-----CceEeeccc
Q psy7554           1 MSLRPATHYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQV   55 (115)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~-----~~eI~IsaD   55 (115)
                      |+|||.-.+   ++......|.   ++.|--|+|||.+|..||..+     ..-+ |.+|
T Consensus         1 ~~l~~~l~~---~l~~~~~~i~---~~sgkGGvGKTt~a~~lA~~la~~g~~vll-id~D   53 (334)
T 3iqw_A            1 MSMEPTLQS---ILDQRSLRWI---FVGGKGGVGKTTTSCSLAIQLAKVRRSVLL-LSTD   53 (334)
T ss_dssp             -CCCSSSHH---HHHCTTCCEE---EEECSTTSSHHHHHHHHHHHHTTSSSCEEE-EECC
T ss_pred             CCccccHHH---HhcCCCeEEE---EEeCCCCccHHHHHHHHHHHHHhCCCcEEE-EECC
Confidence            788887653   4544434333   579999999999888887432     3445 8888

>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=94.32  E-value=0.028  Score=39.32  Aligned_cols=23  Identities=17%  Similarity=-0.172  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|+.+||||+|..++...
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999888754

>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=94.31  E-value=0.024  Score=46.42  Aligned_cols=23  Identities=4%  Similarity=-0.263  Sum_probs=19.2

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHh
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA   43 (115)
                      +.+++.   |+||.|||||.|+..||
T Consensus       177 ~Gei~~---I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          177 TGSITE---LFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             TTSEEE---EEESTTSSHHHHHHHHH
T ss_pred             CCcEEE---EEcCCCCChHHHHHHHH
Confidence            455655   99999999999999776

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=94.28  E-value=0.025  Score=39.77  Aligned_cols=16  Identities=6%  Similarity=0.002  Sum_probs=12.8

Q ss_pred             eeeeccCCCchhHHHH
Q psy7554          25 YLSCLPDSVCPHAHQV   40 (115)
Q Consensus        25 ~li~GpTasGKS~lai   40 (115)
                      +++.+|||||||..++
T Consensus        43 ~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           43 ILARAKNGTGKSGAYL   58 (206)
T ss_dssp             EEEECCSSSTTHHHHH
T ss_pred             EEEECCCCCchHHHHH
Confidence            5689999999995433

>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=94.28  E-value=0.017  Score=39.40  Aligned_cols=24  Identities=8%  Similarity=0.033  Sum_probs=10.1

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+.++++|+++||||+|...|...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356889999999999999888754

>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=94.28  E-value=0.023  Score=39.38  Aligned_cols=24  Identities=13%  Similarity=-0.056  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +-++++|++++|||+|...|....
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            357889999999999999997543

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.27  E-value=0.02  Score=47.04  Aligned_cols=24  Identities=4%  Similarity=-0.090  Sum_probs=20.1

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |+|++|+|||+|++++|.
T Consensus       241 ~G~l~l---i~G~pG~GKT~lal~~a~  264 (503)
T 1q57_A          241 GGEVIM---VTSGSGMVMSTFVRQQAL  264 (503)
T ss_dssp             TTCEEE---EEESSCHHHHHHHHHHHH
T ss_pred             CCeEEE---EeecCCCCchHHHHHHHH
Confidence            455665   999999999999998874

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=94.27  E-value=0.024  Score=42.55  Aligned_cols=20  Identities=25%  Similarity=0.129  Sum_probs=16.8

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      .++++|||+|||..++.++.
T Consensus       131 ~ll~~~tGsGKT~~~~~~~~  150 (282)
T 1rif_A          131 RILNLPTSAGRSLIQALLAR  150 (282)
T ss_dssp             EEECCCTTSCHHHHHHHHHH
T ss_pred             eEEEcCCCCCcHHHHHHHHH
Confidence            35799999999998877765

>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=94.26  E-value=0.032  Score=38.94  Aligned_cols=24  Identities=8%  Similarity=-0.114  Sum_probs=20.6

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+-++++|+.+||||+|..++...
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            356889999999999999998754

>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=94.25  E-value=0.03  Score=39.97  Aligned_cols=24  Identities=8%  Similarity=0.021  Sum_probs=20.5

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+-++++|++++|||+|...|...
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            456889999999999999999854

>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=94.25  E-value=0.028  Score=39.23  Aligned_cols=23  Identities=13%  Similarity=0.065  Sum_probs=20.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|++++|||+|...|...
T Consensus        21 ~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           21 MKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999998843

>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=94.23  E-value=0.024  Score=39.80  Aligned_cols=22  Identities=14%  Similarity=-0.082  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|+.++|||+|...+..+
T Consensus        25 ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           25 KLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4678999999999999999863

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=94.20  E-value=0.025  Score=41.91  Aligned_cols=20  Identities=5%  Similarity=-0.305  Sum_probs=15.4

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      +++.+|||+|||..+...+.
T Consensus        34 ~lv~~~TGsGKT~~~~~~~~   53 (337)
T 2z0m_A           34 VVVRAKTGSGKTAAYAIPIL   53 (337)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHH
Confidence            56799999999976555543

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.19  E-value=0.012  Score=44.76  Aligned_cols=24  Identities=13%  Similarity=-0.180  Sum_probs=18.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |+|.||.|||||+++-.|++.++.
T Consensus        28 I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           28 ITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             EEEECCC---CHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            567999999999999999998854

>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=94.18  E-value=0.032  Score=38.72  Aligned_cols=25  Identities=12%  Similarity=0.082  Sum_probs=21.4

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      --+-++++|+.++|||+|...+...
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcC
Confidence            3456889999999999999999864

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.16  E-value=0.03  Score=43.11  Aligned_cols=21  Identities=5%  Similarity=-0.083  Sum_probs=18.1

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      .+.|+||+|+|||+|..-|+.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g   24 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFK   24 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            467899999999999888774

>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=94.14  E-value=0.03  Score=43.84  Aligned_cols=31  Identities=3%  Similarity=-0.160  Sum_probs=24.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |+||.|||||+|..-|+.-+   .|+|
T Consensus        62 ~~Ge~~~---i~G~NGsGKSTLlk~l~Gl~~p~~G~I   95 (290)
T 2bbs_A           62 ERGQLLA---VAGSTGAGKTSLLMMIMGELEPSEGKI   95 (290)
T ss_dssp             CTTCEEE---EEESTTSSHHHHHHHHTTSSCEEEEEE
T ss_pred             cCCCEEE---EECCCCCcHHHHHHHHhcCCCCCCcEE
Confidence            4566666   89999999999998888654   3555

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=94.12  E-value=0.026  Score=38.93  Aligned_cols=23  Identities=17%  Similarity=0.016  Sum_probs=19.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|..+
T Consensus        23 ~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           23 IRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999999643

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.12  E-value=0.013  Score=48.19  Aligned_cols=25  Identities=4%  Similarity=-0.166  Sum_probs=21.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +++|+||.|+|||.++..||+.++.
T Consensus        26 ~i~l~G~~G~GKTTl~~~la~~l~~   50 (359)
T 2ga8_A           26 CVILVGSPGSGKSTIAEELCQIINE   50 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhCC
Confidence            5778999999999999999987654

>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=94.12  E-value=0.031  Score=39.52  Aligned_cols=23  Identities=0%  Similarity=-0.094  Sum_probs=20.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|+++||||+|...|...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            45788999999999999999864

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.10  E-value=0.037  Score=38.40  Aligned_cols=23  Identities=17%  Similarity=0.085  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|+.++|||+|...|...
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            45889999999999999998854

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.10  E-value=0.053  Score=41.96  Aligned_cols=41  Identities=10%  Similarity=0.023  Sum_probs=28.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC-----CCceEeeccce------eeeccCCc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVY------LMVYKGLD   64 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~-----~~~eI~IsaDS------mQVYkgld   64 (115)
                      +.+++.|+.|+|||.+++.+|..     ....+ +.+|.      ....+++.
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v-~d~D~q~~~~~~al~~gl~   58 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMA-GVVETHGRAETEALLNGLP   58 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEE-EECCCTTCHHHHHHHTTSC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEE-EEeCCCCChhHHHHhcCcc
Confidence            44677999999999998888844     34445 77775      34555554

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=94.09  E-value=0.028  Score=46.06  Aligned_cols=21  Identities=0%  Similarity=-0.244  Sum_probs=18.6

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|.||.|+|||+||.+++..
T Consensus       150 v~I~G~~GiGKTtLa~~~~~~  170 (591)
T 1z6t_A          150 VTIHGMAGCGKSVLAAEAVRD  170 (591)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEcCCCCCHHHHHHHHHhc
Confidence            568999999999999999764

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.09  E-value=0.016  Score=43.70  Aligned_cols=24  Identities=13%  Similarity=-0.211  Sum_probs=21.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |++.|+.|||||+++-.|++.++.
T Consensus         8 i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            8 ILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcc
Confidence            568999999999999999998875

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=94.08  E-value=0.028  Score=45.19  Aligned_cols=22  Identities=23%  Similarity=0.054  Sum_probs=17.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      ..+++||||+|||..++.++..
T Consensus       130 ~~ll~~~tGsGKT~~~~~~~~~  151 (510)
T 2oca_A          130 RRILNLPTSAGRSLIQALLARY  151 (510)
T ss_dssp             EEEEECCSTTTHHHHHHHHHHH
T ss_pred             CcEEEeCCCCCHHHHHHHHHHH
Confidence            3578999999999988777753

>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=94.08  E-value=0.015  Score=44.43  Aligned_cols=23  Identities=0%  Similarity=-0.207  Sum_probs=20.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |+|.||.|||||+++..|++.++
T Consensus        30 i~~eG~~GsGKsT~~~~l~~~l~   52 (236)
T 3lv8_A           30 IVIEGLEGAGKSTAIQVVVETLQ   52 (236)
T ss_dssp             EEEEESTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            56899999999999999998774

>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=94.07  E-value=0.026  Score=40.46  Aligned_cols=25  Identities=8%  Similarity=-0.132  Sum_probs=21.4

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .-+-++++|+++||||+|...|...
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999999864

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.07  E-value=0.034  Score=47.10  Aligned_cols=33  Identities=3%  Similarity=-0.236  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      .|.+++.   |+||+|||||+|..-|+.-+   .|+|.+
T Consensus       367 ~~Ge~~~---ivG~sGsGKSTll~~l~g~~~~~~G~i~i  402 (587)
T 3qf4_A          367 KPGSLVA---VLGETGSGKSTLMNLIPRLIDPERGRVEV  402 (587)
T ss_dssp             CTTCEEE---EECSSSSSHHHHHHTTTTSSCCSEEEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhCCccCCCcEEEE
Confidence            4556665   89999999999998888655   366633

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=94.06  E-value=0.024  Score=40.83  Aligned_cols=15  Identities=0%  Similarity=-0.113  Sum_probs=12.4

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      +++.+|||||||..+
T Consensus        60 ~l~~apTGsGKT~~~   74 (228)
T 3iuy_A           60 LIVVAQTGTGKTLSY   74 (228)
T ss_dssp             EEEECCTTSCHHHHH
T ss_pred             EEEECCCCChHHHHH
Confidence            568999999999643

>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=94.05  E-value=0.032  Score=39.51  Aligned_cols=24  Identities=4%  Similarity=-0.129  Sum_probs=20.4

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhc
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      --+-++++|+.+||||+|...++.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            345688999999999999999963

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=94.04  E-value=0.022  Score=45.39  Aligned_cols=24  Identities=8%  Similarity=-0.058  Sum_probs=19.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      .++++|||+|||..++.++...+.
T Consensus       111 ~ll~~~TGsGKT~~~l~~i~~~~~  134 (472)
T 2fwr_A          111 GCIVLPTGSGKTHVAMAAINELST  134 (472)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHCS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHcCC
Confidence            668999999999988877765543

>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=94.01  E-value=0.066  Score=36.41  Aligned_cols=29  Identities=3%  Similarity=-0.114  Sum_probs=22.7

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +--+-++++|+.++|||+|...|...+..
T Consensus        12 ~~~~ki~vvG~~~~GKssL~~~l~~~~~~   40 (198)
T 3t1o_A           12 EINFKIVYYGPGLSGKTTNLKWIYSKVPE   40 (198)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHTSCG
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHhhccc
Confidence            44466889999999999998777666543

>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=94.01  E-value=0.041  Score=38.84  Aligned_cols=28  Identities=18%  Similarity=0.116  Sum_probs=22.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ..+.. +-++|+|+.++|||+|...|...
T Consensus        21 ~~~~~-~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           21 DYDYL-IKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             CCSEE-EEEEEESCTTSSHHHHHHHHHCS
T ss_pred             Cccee-EEEEEECcCCCCHHHHHHHHhcC
Confidence            33444 45889999999999999999864

>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=93.97  E-value=0.044  Score=38.53  Aligned_cols=26  Identities=0%  Similarity=-0.079  Sum_probs=21.9

Q ss_pred             eeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          20 QVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        20 ~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.-+.++++|++++|||+|...+...
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhC
Confidence            34567899999999999999999854

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=93.96  E-value=0.031  Score=40.84  Aligned_cols=17  Identities=6%  Similarity=-0.144  Sum_probs=13.7

Q ss_pred             eeeccCCCchhHHHHHH
Q psy7554          26 LSCLPDSVCPHAHQVDL   42 (115)
Q Consensus        26 li~GpTasGKS~lai~L   42 (115)
                      +|+||+|+|||.+.-.|
T Consensus        27 ~I~G~NgsGKStil~ai   43 (203)
T 3qks_A           27 LIIGQNGSGKSSLLDAI   43 (203)
T ss_dssp             EEECCTTSSHHHHHHHH
T ss_pred             EEEcCCCCCHHHHHHHH
Confidence            48999999999984433

>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=93.94  E-value=0.027  Score=39.85  Aligned_cols=22  Identities=14%  Similarity=-0.078  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|+.++|||+|...+..+
T Consensus        27 ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           27 KLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             EEEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4678999999999999999753

>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=93.91  E-value=0.033  Score=41.07  Aligned_cols=23  Identities=9%  Similarity=-0.064  Sum_probs=19.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|++++|||+|...|...
T Consensus        23 ~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           23 LRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999999754

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=93.89  E-value=0.029  Score=45.44  Aligned_cols=21  Identities=10%  Similarity=-0.054  Sum_probs=18.0

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|.||.|||||.|++.+|..
T Consensus        77 i~I~G~pGsGKTtlal~la~~   97 (366)
T 1xp8_A           77 TEIYGPESGGKTTLALAIVAQ   97 (366)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCChHHHHHHHHHH
Confidence            348999999999999998853

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=93.87  E-value=0.033  Score=40.30  Aligned_cols=14  Identities=7%  Similarity=-0.080  Sum_probs=12.2

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++++|||||||..
T Consensus        65 ~li~a~TGsGKT~~   78 (236)
T 2pl3_A           65 VLGAAKTGSGKTLA   78 (236)
T ss_dssp             EEEECCTTSCHHHH
T ss_pred             EEEEeCCCCcHHHH
Confidence            56899999999975

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=93.86  E-value=0.03  Score=44.63  Aligned_cols=32  Identities=6%  Similarity=-0.287  Sum_probs=20.3

Q ss_pred             eeeeeccCCCchhHHHHHHhc---CCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD---GPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~---~~~~eI~IsaDS   56 (115)
                      .++|+||||||||.+...+..   ..+..+ |-.|-
T Consensus        55 h~~i~G~tGsGKs~~~~~li~~~~~~g~~v-iv~Dp   89 (437)
T 1e9r_A           55 HLLVNGATGTGKSVLLRELAYTGLLRGDRM-VIVDP   89 (437)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHHHHHTTCEE-EEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHCCCcE-EEEeC
Confidence            467899999999987533332   234444 44454

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.84  E-value=0.019  Score=43.69  Aligned_cols=24  Identities=8%  Similarity=-0.259  Sum_probs=21.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |++.|+.|||||+++..|++.++.
T Consensus        24 i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           24 ITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            467999999999999999988755

>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=93.83  E-value=0.047  Score=42.90  Aligned_cols=32  Identities=0%  Similarity=-0.403  Sum_probs=23.1

Q ss_pred             eeeccCCCchhHHHHHHhcC-----CCceEeeccceee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLM   58 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQ   58 (115)
                      .|+|++|+|||+|...|+..     ....+ +..|-..
T Consensus        60 ~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v-~~~d~~~   96 (341)
T 2p67_A           60 GVTGTPGAGKSTFLEAFGMLLIREGLKVAV-IAVDPSS   96 (341)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHTTCCEEE-EEECCC-
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHhcCCeEEE-EeecCCc
Confidence            47999999999999999743     33455 6666543

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=93.83  E-value=0.028  Score=40.10  Aligned_cols=14  Identities=7%  Similarity=-0.035  Sum_probs=12.3

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++.+|||||||..
T Consensus        54 ~lv~~pTGsGKT~~   67 (224)
T 1qde_A           54 VLAQAQSGTGKTGT   67 (224)
T ss_dssp             EEEECCTTSSHHHH
T ss_pred             EEEECCCCCcHHHH
Confidence            66899999999965

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.82  E-value=0.038  Score=39.60  Aligned_cols=23  Identities=13%  Similarity=0.033  Sum_probs=20.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++++|++++|||+|...|...
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46889999999999999998754

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.81  E-value=0.012  Score=50.20  Aligned_cols=27  Identities=4%  Similarity=-0.236  Sum_probs=22.0

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +.+++   +|+|+.|||||+|+..||+.++
T Consensus       368 ~G~iI---~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          368 QGFTV---FFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             SCEEE---EEEESSCHHHHHHHHHHHHHHH
T ss_pred             cceEE---EEECCCCChHHHHHHHHHHhhc
Confidence            44554   4899999999999999998764

>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=93.79  E-value=0.039  Score=39.12  Aligned_cols=22  Identities=9%  Similarity=0.046  Sum_probs=19.4

Q ss_pred             eeeeeeccCCCchhHHHHHHhc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~   44 (115)
                      +-++++|++++|||+|...+..
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~   52 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTT   52 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECcCCCCHHHHHHHHHh
Confidence            4578999999999999988884

>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=93.77  E-value=0.042  Score=38.49  Aligned_cols=25  Identities=8%  Similarity=-0.253  Sum_probs=20.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +-++++|+.+||||+|...+..++.
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~~~   45 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHKMS   45 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4578899999999999887777653

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=93.74  E-value=0.021  Score=40.39  Aligned_cols=30  Identities=10%  Similarity=-0.094  Sum_probs=23.2

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .|..--..++++|++++|||+|...|....
T Consensus        24 ~~~~~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           24 LPPTVQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             SCCCCSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCCCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            333334567889999999999999998764

>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=93.74  E-value=0.032  Score=43.28  Aligned_cols=24  Identities=4%  Similarity=-0.128  Sum_probs=19.9

Q ss_pred             eEeeeeeeccCCCchhHHHHHHhc
Q psy7554          21 VYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        21 ~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +=+.+.|+||+|+|||+|...|+.
T Consensus        17 ~~~~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           17 FEFTLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHhC
Confidence            446678999999999999998774

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=93.73  E-value=0.018  Score=39.92  Aligned_cols=24  Identities=13%  Similarity=-0.151  Sum_probs=5.1

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+.++++|++++|||+|...|...
T Consensus        20 ~~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           20 RCKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEEC-----------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356889999999999999888765

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=93.72  E-value=0.034  Score=41.98  Aligned_cols=16  Identities=6%  Similarity=-0.101  Sum_probs=12.7

Q ss_pred             eeeeccCCCchhHHHH
Q psy7554          25 YLSCLPDSVCPHAHQV   40 (115)
Q Consensus        25 ~li~GpTasGKS~lai   40 (115)
                      +++.+|||||||..+.
T Consensus        47 ~lv~a~TGsGKT~~~~   62 (395)
T 3pey_A           47 MIAQSQSGTGKTAAFS   62 (395)
T ss_dssp             EEEECCTTSCHHHHHH
T ss_pred             EEEECCCCCcHHHHHH
Confidence            4579999999997543

>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=93.71  E-value=0.038  Score=38.98  Aligned_cols=22  Identities=5%  Similarity=-0.156  Sum_probs=19.4

Q ss_pred             eeeeeeccCCCchhHHHHHHhc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~   44 (115)
                      +-++|+|++++|||+|..++..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4578899999999999999984

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=93.71  E-value=0.037  Score=39.49  Aligned_cols=17  Identities=18%  Similarity=-0.083  Sum_probs=13.6

Q ss_pred             eeeeccCCCchhHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVD   41 (115)
Q Consensus        25 ~li~GpTasGKS~lai~   41 (115)
                      +++++|||+|||..++-
T Consensus        54 ~li~~~TGsGKT~~~~~   70 (220)
T 1t6n_A           54 VLCQAKSGMGKTAVFVL   70 (220)
T ss_dssp             EEEECCTTSCHHHHHHH
T ss_pred             EEEECCCCCchhhhhhH
Confidence            66899999999975443

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=93.68  E-value=0.044  Score=39.24  Aligned_cols=24  Identities=8%  Similarity=-0.043  Sum_probs=20.7

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+-++|+|++++|||+|...|...
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999999854

>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=93.67  E-value=0.033  Score=43.93  Aligned_cols=34  Identities=6%  Similarity=-0.057  Sum_probs=25.4

Q ss_pred             eeeccCC-CceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          11 VNLLTGT-PDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        11 ~~~~~~~-~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.|.|. |+.  +.+++.||.|+|||.+|..||..+
T Consensus        94 ~~~l~~~~~~~--n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           94 LGWATKKFGKR--NTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHTTCSTTC--CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHhCCCCCC--cEEEEECCCCCCHHHHHHHHHhhh
Confidence            3556776 433  234579999999999999999853

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=93.66  E-value=0.039  Score=42.88  Aligned_cols=36  Identities=3%  Similarity=-0.250  Sum_probs=24.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC---CceE-eeccce
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC-RTYQVY   56 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI-~IsaDS   56 (115)
                      +.++..   ++|+.|+|||+++..||..+   ++.+ .+.+|-
T Consensus        97 ~~~~i~---i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~  136 (295)
T 1ls1_A           97 DRNLWF---LVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADT  136 (295)
T ss_dssp             SSEEEE---EECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCS
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCc
Confidence            455554   67999999999999888432   3332 166664

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=93.60  E-value=0.047  Score=40.93  Aligned_cols=24  Identities=13%  Similarity=0.019  Sum_probs=20.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++++|++|+|||+|...|....
T Consensus        40 ~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           40 LTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            457899999999999999998543

>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=93.59  E-value=0.056  Score=38.19  Aligned_cols=24  Identities=13%  Similarity=0.044  Sum_probs=20.6

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+-++|+|+.++|||+|...|...
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            356889999999999999999754

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=93.59  E-value=0.038  Score=43.28  Aligned_cols=17  Identities=6%  Similarity=-0.144  Sum_probs=14.1

Q ss_pred             eeeccCCCchhHHHHHH
Q psy7554          26 LSCLPDSVCPHAHQVDL   42 (115)
Q Consensus        26 li~GpTasGKS~lai~L   42 (115)
                      +|+||+|+|||.+.-.+
T Consensus        27 ~i~G~NGsGKS~lleAi   43 (339)
T 3qkt_A           27 LIIGQNGSGKSSLLDAI   43 (339)
T ss_dssp             EEECCTTSSHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHH
Confidence            38999999999995554

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.50  E-value=0.053  Score=41.73  Aligned_cols=29  Identities=3%  Similarity=-0.172  Sum_probs=22.2

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCC--CceE
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGP--DLFC   50 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~--~~eI   50 (115)
                      .+++.   |.||.|||||+|..-|+.-.  .|+|
T Consensus        30 Ge~~~---i~G~NGsGKSTLlk~l~Gl~p~~G~I   60 (263)
T 2pjz_A           30 GEKVI---ILGPNGSGKTTLLRAISGLLPYSGNI   60 (263)
T ss_dssp             SSEEE---EECCTTSSHHHHHHHHTTSSCCEEEE
T ss_pred             CEEEE---EECCCCCCHHHHHHHHhCCCCCCcEE
Confidence            55655   89999999999998888543  3455

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.49  E-value=0.046  Score=44.26  Aligned_cols=30  Identities=3%  Similarity=-0.274  Sum_probs=23.2

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +.+++.   |.||+|||||+|..-||--.   .|+|
T Consensus        40 ~Ge~~~---llGpnGsGKSTLLr~iaGl~~p~~G~I   72 (355)
T 1z47_A           40 EGEMVG---LLGPSGSGKTTILRLIAGLERPTKGDV   72 (355)
T ss_dssp             TTCEEE---EECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             CCCEEE---EECCCCCcHHHHHHHHhCCCCCCccEE
Confidence            455655   89999999999999888543   3666

>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=93.47  E-value=0.043  Score=44.65  Aligned_cols=32  Identities=6%  Similarity=-0.173  Sum_probs=24.7

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++.   |+||.|||||+|..-||--.   .|+|
T Consensus        27 i~~Ge~~~---llGpsGsGKSTLLr~iaGl~~p~~G~I   61 (359)
T 3fvq_A           27 LDPGEILF---IIGASGCGKTTLLRCLAGFEQPDSGEI   61 (359)
T ss_dssp             ECTTCEEE---EEESTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EcCCCEEE---EECCCCchHHHHHHHHhcCCCCCCcEE
Confidence            34566666   89999999999999998543   3666

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.47  E-value=0.043  Score=45.51  Aligned_cols=23  Identities=4%  Similarity=-0.028  Sum_probs=19.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHH
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDL   42 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~L   42 (115)
                      .+.++++   |+||+|||||.|+..+
T Consensus        37 ~~Ge~~~---l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           37 PIGRSTL---VSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             ETTSEEE---EEESTTSSHHHHHHHH
T ss_pred             CCCeEEE---EEcCCCCCHHHHHHHH
Confidence            4677877   9999999999999884

>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=93.46  E-value=0.063  Score=41.79  Aligned_cols=20  Identities=5%  Similarity=-0.243  Sum_probs=17.7

Q ss_pred             eeeccCCCchhHHHHHHhcC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~   45 (115)
                      +|+|+.|||||+|...|+..
T Consensus         8 ~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            8 LLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEESSSSSCHHHHHHHHHS
T ss_pred             EEEecCCCCHHHHHHHHHhh
Confidence            48999999999999888854

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=93.46  E-value=0.048  Score=38.32  Aligned_cols=24  Identities=8%  Similarity=0.117  Sum_probs=20.4

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+-++++|+.++|||+|...+...
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            356789999999999999999854

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.43  E-value=0.023  Score=42.53  Aligned_cols=23  Identities=0%  Similarity=-0.143  Sum_probs=20.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |++.|+.|||||+++-.|++.+.
T Consensus         6 i~~eG~~gsGKsT~~~~l~~~l~   28 (213)
T 4tmk_A            6 IVIEGLEGAGKTTARNVVVETLE   28 (213)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            56799999999999999998774

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=93.41  E-value=0.041  Score=45.80  Aligned_cols=36  Identities=3%  Similarity=-0.254  Sum_probs=26.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---Cc-e-Eeeccc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DL-F-CRTYQV   55 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~-e-I~IsaD   55 (115)
                      .+.+++.   |+||+|||||+|..-|+.-.   .| . |.++.|
T Consensus       136 ~~Ge~v~---IvGpnGsGKSTLlr~L~Gl~~p~~G~~pI~vdg~  176 (460)
T 2npi_A          136 FEGPRVV---IVGGSQTGKTSLSRTLCSYALKFNAYQPLYINLD  176 (460)
T ss_dssp             SSCCCEE---EEESTTSSHHHHHHHHHHTTHHHHCCCCEEEECC
T ss_pred             CCCCEEE---EECCCCCCHHHHHHHHhCcccccCCceeEEEcCC
Confidence            3566766   89999999999998888654   45 4 545543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.41  E-value=0.059  Score=42.73  Aligned_cols=20  Identities=5%  Similarity=-0.197  Sum_probs=17.9

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      +.|+|++|||||+|-..|+.
T Consensus        77 v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           77 VGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            55899999999999999885

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=93.35  E-value=0.03  Score=41.95  Aligned_cols=15  Identities=7%  Similarity=-0.093  Sum_probs=12.5

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      +++++|||||||..+
T Consensus        94 ~lv~a~TGsGKT~~~  108 (262)
T 3ly5_A           94 LLAAAKTGSGKTLAF  108 (262)
T ss_dssp             CEECCCTTSCHHHHH
T ss_pred             EEEEccCCCCchHHH
Confidence            568999999999653

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.34  E-value=0.048  Score=45.23  Aligned_cols=24  Identities=8%  Similarity=0.051  Sum_probs=19.2

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |.||+|||||.|+..+|.
T Consensus       280 ~G~i~~---i~G~~GsGKSTLl~~l~g  303 (525)
T 1tf7_A          280 KDSIIL---ATGATGTGKTLLVSRFVE  303 (525)
T ss_dssp             SSCEEE---EEECTTSSHHHHHHHHHH
T ss_pred             CCcEEE---EEeCCCCCHHHHHHHHHH
Confidence            344554   999999999999988873

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=93.32  E-value=0.032  Score=45.62  Aligned_cols=26  Identities=8%  Similarity=0.171  Sum_probs=20.6

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      |-|.-+   ++|.||.|||||.|++.++.
T Consensus        25 Gl~~Gi---teI~G~pGsGKTtL~Lq~~~   50 (333)
T 3io5_A           25 GMQSGL---LILAGPSKSFKSNFGLTMVS   50 (333)
T ss_dssp             CBCSEE---EEEEESSSSSHHHHHHHHHH
T ss_pred             CCcCCe---EEEECCCCCCHHHHHHHHHH
Confidence            445553   57999999999999988764

>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=93.31  E-value=0.049  Score=44.69  Aligned_cols=31  Identities=3%  Similarity=-0.200  Sum_probs=24.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++-   |+||+|||||+|..-||--.   .|+|
T Consensus        27 ~~Ge~~~---llGpsGsGKSTLLr~iaGl~~p~~G~I   60 (381)
T 3rlf_A           27 HEGEFVV---FVGPSGCGKSTLLRMIAGLETITSGDL   60 (381)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             CCCCEEE---EEcCCCchHHHHHHHHHcCCCCCCeEE
Confidence            4667766   89999999999999998543   3666

>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=93.30  E-value=0.049  Score=44.51  Aligned_cols=32  Identities=6%  Similarity=-0.216  Sum_probs=24.6

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++-   |+||.|||||+|..-|+.-.   .|+|
T Consensus        51 i~~Gei~~---IiGpnGaGKSTLlr~i~GL~~p~~G~I   85 (366)
T 3tui_C           51 VPAGQIYG---VIGASGAGKSTLIRCVNLLERPTEGSV   85 (366)
T ss_dssp             ECTTCEEE---EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EcCCCEEE---EEcCCCchHHHHHHHHhcCCCCCceEE
Confidence            35667777   89999999999988887543   3566

>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=93.30  E-value=0.068  Score=44.35  Aligned_cols=35  Identities=3%  Similarity=-0.172  Sum_probs=24.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC---Cc--eEeeccce
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DL--FCRTYQVY   56 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~---~~--eI~IsaDS   56 (115)
                      +.+|+.   ++||+|||||+++..||..+   ++  .+ +.+|-
T Consensus        97 ~~~vi~---i~G~~GsGKTT~~~~LA~~l~~~g~~Vll-vd~D~  136 (425)
T 2ffh_A           97 DRNLWF---LVGLQGSGKTTTAAKLALYYKGKGRRPLL-VAADT  136 (425)
T ss_dssp             SSEEEE---EECCTTSSHHHHHHHHHHHHHTTTCCEEE-EECCS
T ss_pred             CCeEEE---EECCCCCCHHHHHHHHHHHHHHcCCeEEE-eeccc
Confidence            445544   68999999999999988432   33  34 67773

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=93.23  E-value=0.027  Score=46.60  Aligned_cols=21  Identities=5%  Similarity=-0.040  Sum_probs=17.1

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +++++|||||||..++.++.+
T Consensus       201 ~ll~~~TGsGKT~~~~~~~~~  221 (590)
T 3h1t_A          201 SLITMATGTGKTVVAFQISWK  221 (590)
T ss_dssp             EEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEecCCCChHHHHHHHHHH
Confidence            457999999999888877743

>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=93.23  E-value=0.057  Score=38.72  Aligned_cols=24  Identities=8%  Similarity=-0.190  Sum_probs=20.9

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+.++++|+.++|||+|..+|...
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999999754

>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A

Probab=93.22  E-value=0.047  Score=47.64  Aligned_cols=19  Identities=11%  Similarity=0.090  Sum_probs=15.6

Q ss_pred             eeeeccCCCchhHHHHHHh
Q psy7554          25 YLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA   43 (115)
                      ++++||||||||..++...
T Consensus       158 vlv~apTGSGKT~~al~~l  176 (677)
T 3rc3_A          158 IFHSGPTNSGKTYHAIQKY  176 (677)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH
Confidence            4589999999999877654

>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=93.21  E-value=0.055  Score=43.93  Aligned_cols=31  Identities=3%  Similarity=-0.154  Sum_probs=23.7

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-||--.   .|+|
T Consensus        27 ~~Ge~~~---llGpnGsGKSTLLr~iaGl~~p~~G~I   60 (372)
T 1g29_1           27 KDGEFMI---LLGPSGCGKTTTLRMIAGLEEPSRGQI   60 (372)
T ss_dssp             ETTCEEE---EECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCcHHHHHHHHHHcCCCCCccEE
Confidence            3556665   89999999999998888543   3666

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=93.21  E-value=0.046  Score=39.96  Aligned_cols=15  Identities=0%  Similarity=-0.082  Sum_probs=12.6

Q ss_pred             eeeeeccCCCchhHH
Q psy7554          24 SYLSCLPDSVCPHAH   38 (115)
Q Consensus        24 ~~li~GpTasGKS~l   38 (115)
                      ++++.+|||||||..
T Consensus        68 ~~l~~apTGsGKT~~   82 (242)
T 3fe2_A           68 DMVGVAQTGSGKTLS   82 (242)
T ss_dssp             CEEEEECTTSCHHHH
T ss_pred             CEEEECCCcCHHHHH
Confidence            466799999999965

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.20  E-value=0.044  Score=42.52  Aligned_cols=18  Identities=6%  Similarity=-0.103  Sum_probs=15.2

Q ss_pred             eeeccCCCchhHHHHHHh
Q psy7554          26 LSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        26 li~GpTasGKS~lai~LA   43 (115)
                      +|+||+|+|||.|.-.|.
T Consensus        28 ~i~G~NGsGKS~ll~ai~   45 (322)
T 1e69_A           28 AIVGPNGSGKSNIIDAIK   45 (322)
T ss_dssp             EEECCTTTCSTHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHH
Confidence            489999999999966665

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=93.18  E-value=0.06  Score=40.25  Aligned_cols=24  Identities=13%  Similarity=0.015  Sum_probs=20.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.++++|.+++|||+|...|...-
T Consensus        37 ~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           37 MTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            457899999999999999998643

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=93.15  E-value=0.032  Score=40.81  Aligned_cols=14  Identities=7%  Similarity=-0.019  Sum_probs=12.2

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++++|||||||..
T Consensus        70 ~li~apTGsGKT~~   83 (237)
T 3bor_A           70 VIAQAQSGTGKTAT   83 (237)
T ss_dssp             EEECCCSSHHHHHH
T ss_pred             EEEECCCCCcHHHH
Confidence            56899999999965

>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=93.15  E-value=0.051  Score=44.48  Aligned_cols=32  Identities=6%  Similarity=-0.305  Sum_probs=24.2

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC--CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP--DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~--~~eI   50 (115)
                      =.+.+++.   |+||+|||||+|..-||.-.  .|+|
T Consensus        44 i~~Ge~~~---llGpsGsGKSTLLr~iaGl~~~~G~I   77 (390)
T 3gd7_A           44 ISPGQRVG---LLGRTGSGKSTLLSAFLRLLNTEGEI   77 (390)
T ss_dssp             ECTTCEEE---EEESTTSSHHHHHHHHHTCSEEEEEE
T ss_pred             EcCCCEEE---EECCCCChHHHHHHHHhCCCCCCeEE
Confidence            34566666   89999999999998888432  3555

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=93.12  E-value=0.055  Score=40.74  Aligned_cols=21  Identities=5%  Similarity=-0.042  Sum_probs=18.4

Q ss_pred             eeeeeeccCCCchhHHHHHHh
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA   43 (115)
                      +.++++|.+|+|||+|...|.
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~   29 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLF   29 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            467899999999999998875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.07  E-value=0.057  Score=43.80  Aligned_cols=31  Identities=3%  Similarity=-0.210  Sum_probs=24.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-||--.   .|+|
T Consensus        27 ~~Ge~~~---llGpnGsGKSTLLr~iaGl~~p~~G~I   60 (362)
T 2it1_A           27 KDGEFMA---LLGPSGSGKSTLLYTIAGIYKPTSGKI   60 (362)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             CCCCEEE---EECCCCchHHHHHHHHhcCCCCCceEE
Confidence            4556665   89999999999999888543   3666

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=93.04  E-value=0.053  Score=39.67  Aligned_cols=14  Identities=14%  Similarity=0.273  Sum_probs=12.1

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++++|||||||..
T Consensus        63 ~l~~a~TGsGKT~~   76 (253)
T 1wrb_A           63 IMACAQTGSGKTAA   76 (253)
T ss_dssp             EEEECCTTSSHHHH
T ss_pred             EEEECCCCChHHHH
Confidence            56799999999964

>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=93.04  E-value=0.049  Score=44.92  Aligned_cols=27  Identities=4%  Similarity=-0.143  Sum_probs=21.6

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.+=+.+.|+||+|+|||+|...|+..
T Consensus        28 ~~vsf~I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           28 RGFEFTLMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             -CCCEEEEEECCTTSSHHHHHHHHTTC
T ss_pred             cCCCEEEEEECCCCCcHHHHHHHHhCC
Confidence            344456789999999999999999854

>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=93.03  E-value=0.058  Score=43.69  Aligned_cols=31  Identities=6%  Similarity=-0.187  Sum_probs=23.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-||--.   .|+|
T Consensus        27 ~~Ge~~~---llGpnGsGKSTLLr~iaGl~~p~~G~I   60 (359)
T 2yyz_A           27 KDGEFVA---LLGPSGCGKTTTLLMLAGIYKPTSGEI   60 (359)
T ss_dssp             CTTCEEE---EECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             cCCCEEE---EEcCCCchHHHHHHHHHCCCCCCccEE
Confidence            4556665   89999999999999888543   3666

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=93.02  E-value=0.032  Score=41.90  Aligned_cols=23  Identities=9%  Similarity=-0.045  Sum_probs=19.2

Q ss_pred             eeeeecc-CCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLP-DSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~Gp-TasGKS~lai~LA~~~   46 (115)
                      +++|+|+ |++|||.++..|++.+
T Consensus         6 ~i~Itgt~t~vGKT~vt~~L~~~l   29 (228)
T 3of5_A            6 KFFIIGTDTEVGKTYISTKLIEVC   29 (228)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHH
Confidence            4678999 9999999998888654

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=93.01  E-value=0.052  Score=41.64  Aligned_cols=16  Identities=19%  Similarity=0.054  Sum_probs=13.0

Q ss_pred             eeeeccCCCchhHHHH
Q psy7554          25 YLSCLPDSVCPHAHQV   40 (115)
Q Consensus        25 ~li~GpTasGKS~lai   40 (115)
                      +++.+|||||||..++
T Consensus        61 ~li~a~TGsGKT~~~~   76 (400)
T 1s2m_A           61 ILARAKNGTGKTAAFV   76 (400)
T ss_dssp             EEEECCTTSCHHHHHH
T ss_pred             EEEECCCCcHHHHHHH
Confidence            5679999999996543

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=93.00  E-value=0.045  Score=39.75  Aligned_cols=14  Identities=14%  Similarity=0.147  Sum_probs=12.0

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++.+|||||||..
T Consensus        69 ~l~~a~TGsGKT~~   82 (245)
T 3dkp_A           69 LLASAPTGSGKTLA   82 (245)
T ss_dssp             EEEECCTTSCHHHH
T ss_pred             EEEECCCCCcHHHH
Confidence            46799999999965

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=92.98  E-value=0.03  Score=39.54  Aligned_cols=24  Identities=13%  Similarity=-0.074  Sum_probs=20.2

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+.++|+|++++|||+|...|...
T Consensus        11 ~~ki~vvG~~~~GKSsli~~l~~~   34 (218)
T 4djt_A           11 TYKICLIGDGGVGKTTYINRVLDG   34 (218)
T ss_dssp             EEEEEEECCTTSSHHHHHCBCTTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999988843

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=92.98  E-value=0.04  Score=39.49  Aligned_cols=14  Identities=0%  Similarity=-0.159  Sum_probs=12.2

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++++|||||||..
T Consensus        44 ~lv~a~TGsGKT~~   57 (219)
T 1q0u_A           44 MVGQSQTGTGKTHA   57 (219)
T ss_dssp             EEEECCSSHHHHHH
T ss_pred             EEEECCCCChHHHH
Confidence            56899999999975

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=92.95  E-value=0.043  Score=42.83  Aligned_cols=17  Identities=18%  Similarity=0.257  Sum_probs=13.4

Q ss_pred             eeeeeccCCCchhHHHH
Q psy7554          24 SYLSCLPDSVCPHAHQV   40 (115)
Q Consensus        24 ~~li~GpTasGKS~lai   40 (115)
                      .+++++|||||||..++
T Consensus        38 ~~lv~apTGsGKT~~~l   54 (414)
T 3oiy_A           38 SFTMVAPTGVGKTTFGM   54 (414)
T ss_dssp             CEECCSCSSSSHHHHHH
T ss_pred             CEEEEeCCCCCHHHHHH
Confidence            35689999999997443

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=92.93  E-value=0.054  Score=41.36  Aligned_cols=15  Identities=7%  Similarity=-0.081  Sum_probs=12.3

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      +++.+|||||||..+
T Consensus        67 ~lv~apTGsGKT~~~   81 (412)
T 3fht_A           67 LIAQSQSGTGKTAAF   81 (412)
T ss_dssp             EEEECCTTSCHHHHH
T ss_pred             EEEECCCCchHHHHH
Confidence            457999999999764

>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=92.90  E-value=0.074  Score=39.02  Aligned_cols=23  Identities=4%  Similarity=-0.197  Sum_probs=20.3

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .-++|+|.+++|||+|..++...
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~~~   60 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFAGV   60 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            56889999999999999999853

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.89  E-value=0.11  Score=40.93  Aligned_cols=25  Identities=8%  Similarity=-0.280  Sum_probs=20.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .+.+++.   |+||+|||||+|...|+.
T Consensus        53 ~~g~~v~---i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           53 GRAIRVG---ITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCSEEEE---EECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEE---EECCCCCCHHHHHHHHHH
Confidence            3445555   899999999999988874

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=92.88  E-value=0.042  Score=46.29  Aligned_cols=33  Identities=0%  Similarity=-0.415  Sum_probs=24.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      .|.+++.   |+||+|||||+|..-|+.-.   .|+|.+
T Consensus       365 ~~G~~~~---ivG~sGsGKSTll~~l~g~~~p~~G~i~~  400 (578)
T 4a82_A          365 EKGETVA---FVGMSGGGKSTLINLIPRFYDVTSGQILI  400 (578)
T ss_dssp             CTTCEEE---EECSTTSSHHHHHTTTTTSSCCSEEEEEE
T ss_pred             CCCCEEE---EECCCCChHHHHHHHHhcCCCCCCcEEEE
Confidence            4566665   89999999999988887654   356633

>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=92.87  E-value=0.063  Score=43.69  Aligned_cols=31  Identities=3%  Similarity=-0.137  Sum_probs=23.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-||--.   .|+|
T Consensus        35 ~~Ge~~~---llGpnGsGKSTLLr~iaGl~~p~~G~I   68 (372)
T 1v43_A           35 KDGEFLV---LLGPSGCGKTTTLRMIAGLEEPTEGRI   68 (372)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             CCCCEEE---EECCCCChHHHHHHHHHcCCCCCceEE
Confidence            4556665   89999999999999888543   3666

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=92.85  E-value=0.052  Score=46.03  Aligned_cols=15  Identities=13%  Similarity=-0.002  Sum_probs=13.0

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      ++|+||||||||..+
T Consensus        49 ~lv~apTGsGKT~~~   63 (715)
T 2va8_A           49 LLLTSPTGSGKTLIA   63 (715)
T ss_dssp             EEEECCTTSCHHHHH
T ss_pred             EEEEcCCCCcHHHHH
Confidence            458999999999876

>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=92.82  E-value=0.065  Score=49.67  Aligned_cols=37  Identities=11%  Similarity=-0.167  Sum_probs=0.0

Q ss_pred             ccCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEeec
Q psy7554          14 LTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRTY   53 (115)
Q Consensus        14 ~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~Is   53 (115)
                      ++=.|.|.+-   |+||||||||+|..-|.+-.   .|.|.|+
T Consensus      1100 l~I~~Ge~va---IVG~SGsGKSTL~~lL~rl~~p~~G~I~iD 1139 (1321)
T 4f4c_A         1100 FSVEPGQTLA---LVGPSGCGKSTVVALLERFYDTLGGEIFID 1139 (1321)
T ss_dssp             EEECTTCEEE---EECSTTSSTTSHHHHHTTSSCCSSSEEEET
T ss_pred             EEECCCCEEE---EECCCCChHHHHHHHHhcCccCCCCEEEEC

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=92.78  E-value=0.034  Score=44.93  Aligned_cols=16  Identities=6%  Similarity=-0.188  Sum_probs=13.2

Q ss_pred             eeeeeccCCCchhHHH
Q psy7554          24 SYLSCLPDSVCPHAHQ   39 (115)
Q Consensus        24 ~~li~GpTasGKS~la   39 (115)
                      .+|++||||||||..+
T Consensus         4 ~~lv~a~TGsGKT~~~   19 (431)
T 2v6i_A            4 LTVLDLHPGAGKTRRV   19 (431)
T ss_dssp             EEEEECCTTSCTTTTH
T ss_pred             EEEEEcCCCCCHHHHH
Confidence            3568999999999764

>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=92.72  E-value=0.049  Score=43.88  Aligned_cols=31  Identities=3%  Similarity=-0.152  Sum_probs=24.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||+|||||+|..-||--.   .|+|
T Consensus        24 ~~Ge~~~---llGpnGsGKSTLLr~iaGl~~p~~G~I   57 (348)
T 3d31_A           24 ESGEYFV---ILGPTGAGKTLFLELIAGFHVPDSGRI   57 (348)
T ss_dssp             CTTCEEE---EECCCTHHHHHHHHHHHTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCccHHHHHHHHHcCCCCCCcEE
Confidence            4556665   89999999999999998543   3666

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=92.64  E-value=0.064  Score=39.80  Aligned_cols=15  Identities=0%  Similarity=-0.155  Sum_probs=12.5

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      +++++|||||||..+
T Consensus        83 ~lv~a~TGsGKT~~~   97 (249)
T 3ber_A           83 IIGLAETGSGKTGAF   97 (249)
T ss_dssp             EEEECCTTSCHHHHH
T ss_pred             EEEEcCCCCCchhHh
Confidence            567999999999653

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=92.55  E-value=0.025  Score=42.97  Aligned_cols=18  Identities=0%  Similarity=-0.151  Sum_probs=15.4

Q ss_pred             eeeccCCCchhHHHHHHh
Q psy7554          26 LSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        26 li~GpTasGKS~lai~LA   43 (115)
                      .|+||+|||||+|.-.|+
T Consensus        31 ~i~GpnGsGKSTll~~i~   48 (227)
T 1qhl_A           31 TLSGGNGAGKSTTMAAFV   48 (227)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHh
Confidence            489999999999976666

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	115
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.49
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.45
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	98.32
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.3
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	98.3
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.25
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	98.25
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	98.23
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.11
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	98.06
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.03
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.03
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.03
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	98.02
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	98.01
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	98.01
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.96
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.96
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.95
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.94
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.93
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.91
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.89
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.88
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.88
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.88
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.88
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.83
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.83
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.82
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.81
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.79
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.78
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.76
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.75
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.74
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.7
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.69
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	97.68
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.63
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.59
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.58
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.56
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	97.56
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.48
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.47
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.44
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.43
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.43
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.39
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.36
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.32
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.29
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.28
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.2
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.2
d1okkd2	207	GTPase domain of the signal recognition particle r	97.19
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.17
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.15
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.15
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	97.13
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.13
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.12
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	97.09
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.07
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.06
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	97.05
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.03
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.02
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.0
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.98
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.98
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.96
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.96
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.95
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.94
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.92
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	96.86
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	96.82
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.82
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.77
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.77
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	96.76
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.73
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.69
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.69
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.69
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.67
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.63
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.54
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.53
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.51
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.48
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.39
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.37
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.36
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.35
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.27
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.27
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.25
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.24
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.24
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.23
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.21
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.15
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	96.09
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.99
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.99
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.99
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.97
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	95.97
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.97
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.94
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.9
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.87
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	95.87
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	95.86
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.84
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.83
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.7
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.45
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	95.41
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.4
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.34
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.32
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.32
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.29
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.27
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.27
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.22
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.22
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.17
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.13
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.12
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	95.02
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.98
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.98
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.95
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.94
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.9
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.89
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.85
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.84
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.83
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.82
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.79
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.77
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.76
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.74
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.73
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.73
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.68
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.67
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.64
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	94.62
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.51
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.49
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	94.46
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.42
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.42
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.41
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.38
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.37
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.37
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.35
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.3
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.3
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.28
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.26
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.26
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.25
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.22
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.19
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.17
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.16
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.14
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.14
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.11
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.09
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.08
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.07
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.05
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.98
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.96
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.95
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	93.94
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.94
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.91
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.89
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.88
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.84
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.84
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.8
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.78
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.74
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.73
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.72
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	93.72
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.71
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.68
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	93.65
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.64
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.59
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.42
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.41
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.4
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.37
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.37
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.35
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	93.3
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.14
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.1
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	92.95
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.92
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.91
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.84
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.76
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	92.51
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.45
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.37
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	92.21
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	92.15
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.13
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.08
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.94
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.89
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.71
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	91.69
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.67
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	91.55
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.53
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.45
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	91.45
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.38
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	91.26
d1kjwa2	199	Guanylate kinase-like domain of Psd-95 {Rat (Rattu	90.91
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	90.87
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.81
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.8
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	90.54
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.28
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.44
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	88.67
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	87.9
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	87.81
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	87.35
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	87.27
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	87.06
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	87.04
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	86.91
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	85.98
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	85.93
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	85.85
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	84.47
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	84.45
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	84.29
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	83.63
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.14
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	81.99
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	81.95
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	81.54
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	81.49
d1xpua3	289	Transcription termination factor Rho, ATPase domai	81.38
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	80.93
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	80.47

>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=98.49  E-value=1.8e-08  Score=67.28  Aligned_cols=40  Identities=5%  Similarity=-0.304  Sum_probs=34.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDV   65 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldI   65 (115)
                      |+|+||+|||||+||..||+.++... ++.|...+......
T Consensus        10 I~i~G~~GsGKTTla~~La~~~~~~~-i~~~~~~~~~~~~~   49 (192)
T d1lw7a2          10 VAILGGESSGKSVLVNKLAAVFNTTS-AWEYGREFVFEKLG   49 (192)
T ss_dssp             EEEECCTTSHHHHHHHHHHHHTTCEE-ECCTTHHHHHHSSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe-EeeehHHHhhhhcc
Confidence            67899999999999999999999999 99888876665443

>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=98.45  E-value=2.8e-08  Score=65.04  Aligned_cols=32  Identities=6%  Similarity=-0.125  Sum_probs=27.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      +|+++||.|||||++|..||++++... +..|.
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~~~~-id~~~   35 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLNMEF-YDSDQ   35 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTCEE-EEHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCe-Eeech
Confidence            466699999999999999999999988 76654

>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=98.32  E-value=1.5e-07  Score=66.55  Aligned_cols=51  Identities=10%  Similarity=-0.051  Sum_probs=42.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      |+|+||+||||++|+-.|++++...+         .......|-.|-+.|..++.||+++
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~~~~~---------~~~~~~TTR~~r~~E~~g~dy~fvs   54 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEYPDSF---------GFSVSSTTRTPRAGEVNGKDYNFVS   54 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTTTE---------EECCEEECSCCCTTCCBTTTEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCcce---------eEEEeeccCCCCCCCcCCccceecc
Confidence            67899999999999999999886544         2344667888888899999999984

>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=98.30  E-value=7e-08  Score=64.60  Aligned_cols=32  Identities=16%  Similarity=-0.056  Sum_probs=28.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |+|+||.|||||++|..||++++... ++.|.+
T Consensus         7 I~i~G~pGsGKTTia~~La~~l~~~~-i~~~~~   38 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASKSGLKY-INVGDL   38 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCcE-EechHH
Confidence            67899999999999999999999999 877654

>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=98.30  E-value=1.3e-07  Score=62.68  Aligned_cols=32  Identities=16%  Similarity=-0.010  Sum_probs=27.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||+|||||++|-+||+.++....++.|.
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~~~~~~~~~d~   36 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQLDNSAYIEGDI   36 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSSEEEEEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCEEEehHH
Confidence            56899999999999999999998875366664

>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=98.25  E-value=2.4e-07  Score=62.21  Aligned_cols=38  Identities=8%  Similarity=-0.158  Sum_probs=30.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGL   63 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgl   63 (115)
                      ++|.||.|||||++|..||++++... ++.|.=.+++.+
T Consensus         7 I~l~G~~GsGKSTia~~La~~lg~~~-~~~~~d~~~~~~   44 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANLPGVPK-VHFHSDDLWGYI   44 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCSSSCE-EEECTTHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EEecHHHHHHHH
Confidence            45799999999999999999999877 655554444444

>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=98.25  E-value=2.6e-07  Score=62.14  Aligned_cols=39  Identities=10%  Similarity=0.025  Sum_probs=32.6

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |+....||+   |+||.|||||++|..||++++... ++.|-.
T Consensus         2 ~~~~~~iiv---l~G~~GsGKsT~a~~La~~l~~~~-~~~d~~   40 (171)
T d1knqa_           2 TNHDHHIYV---LMGVSGSGKSAVASEVAHQLHAAF-LDGDFL   40 (171)
T ss_dssp             CCTTSEEEE---EECSTTSCHHHHHHHHHHHHTCEE-EEGGGG
T ss_pred             CCCCCeEEE---EECCCCCCHHHHHHHHHHHhCCCe-echhhh
Confidence            345556666   899999999999999999999988 888753

>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=98.23  E-value=3.6e-07  Score=65.03  Aligned_cols=51  Identities=10%  Similarity=-0.069  Sum_probs=38.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||+||||++|..+|.+++...+         ..-..-.|-+|.+.|..++.||+++
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~~~~~~---------~~~v~~TTR~~R~~E~~G~dY~Fvs   56 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITKHPDRF---------AYPIPHTTRPPKKDEENGKNYYFVS   56 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTTTE---------ECCCCEECSCC---CCBTTTBEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCcCe---------eeccccccCCCCCccccCccceeee
Confidence            56799999999999999998876544         1224566889999999999999984

>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=98.11  E-value=5.8e-07  Score=59.61  Aligned_cols=32  Identities=3%  Similarity=-0.094  Sum_probs=25.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-CceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-DLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-~~eI~IsaDSm   57 (115)
                      ++|+||+|||||+||.+|+++. +... ++.|..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~~~~~~-~~~d~~   37 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKNPGFYN-INRDDY   37 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSTTEEE-ECHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCCEE-echHHH
Confidence            4589999999999999997665 4555 887654

>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=98.06  E-value=7.9e-07  Score=59.17  Aligned_cols=26  Identities=8%  Similarity=-0.325  Sum_probs=23.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |+|+||.|||||++|..||++++...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l~~~~   31 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVLPEPW   31 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSSSCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCe
Confidence            45799999999999999999998654

>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=98.03  E-value=8.6e-07  Score=63.31  Aligned_cols=32  Identities=3%  Similarity=-0.195  Sum_probs=26.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce-Eeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF-CRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e-I~IsaDS   56 (115)
                      +|+.||+|+|||.||..||..+++. ++||+|.
T Consensus        35 ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~   67 (273)
T d1gvnb_          35 FLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDT   67 (273)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHTTTCCEEECTHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhcceEEEecHH
Confidence            5579999999999999999988552 2388875

>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=98.03  E-value=8.1e-07  Score=72.15  Aligned_cols=32  Identities=13%  Similarity=-0.122  Sum_probs=28.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +|++||||||||.||..||+.+|... +.+|.-
T Consensus        52 ILliGPTGvGKTlLAr~LAk~l~VPF-v~~daT   83 (443)
T d1g41a_          52 ILMIGPTGVGKTEIARRLAKLANAPF-IKVEAT   83 (443)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCCE-EEEEGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EEeecc
Confidence            67899999999999999999999988 777653

>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=98.03  E-value=1.1e-06  Score=59.01  Aligned_cols=31  Identities=10%  Similarity=-0.159  Sum_probs=25.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      |+|+||.|||||++|-.||+++++.-.++.|
T Consensus         8 I~i~G~~GsGKTT~~~~La~~l~~~~~~~~~   38 (174)
T d1y63a_           8 ILITGTPGTGKTSMAEMIAAELDGFQHLEVG   38 (174)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSTTEEEEEHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCcEEeHH
Confidence            5679999999999999999999875425544

>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=98.02  E-value=1.1e-06  Score=62.31  Aligned_cols=51  Identities=12%  Similarity=0.061  Sum_probs=40.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      |+|+||+|||||+|+-.|++.++..+ .        ...+-.|-.|...|..++.||++.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~~~~-~--------~~~~~TTR~~r~~E~~g~dy~fvs   53 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHSSIF-G--------FSVSHTTRNPRPGEEDGKDYYFVT   53 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTTE-E--------ECCCEECSCCCTTCCBTTTBEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCce-e--------EEEEEeccCCCCCCccCceeEEee
Confidence            56799999999999999999987654 1        134445777888899999999874

>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=98.01  E-value=9e-07  Score=61.88  Aligned_cols=31  Identities=3%  Similarity=-0.213  Sum_probs=27.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||++|-.||+++|... |+.+.
T Consensus        11 I~i~GppGSGKsT~a~~La~~~g~~~-is~gd   41 (196)
T d1ukza_          11 IFVLGGPGAGKGTQCEKLVKDYSFVH-LSAGD   41 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EehhH
Confidence            66899999999999999999999988 88754

>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=98.01  E-value=9.5e-07  Score=62.34  Aligned_cols=36  Identities=3%  Similarity=-0.142  Sum_probs=31.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYk   61 (115)
                      +|++|+.|||||++|.+|++..+..+ ||.|.+.-++
T Consensus        17 iil~G~pGsGKST~a~~l~~~~~~~~-i~~D~~~~~~   52 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFIQEHLVSAGYVH-VNRDTLGSWQ   52 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHTGGGTCEE-EEHHHHCSHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCEE-EchHHHHHHH
Confidence            34799999999999999999999888 9999887654

>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=97.96  E-value=2.1e-06  Score=59.70  Aligned_cols=50  Identities=18%  Similarity=0.177  Sum_probs=40.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||.|||||+|+-.|.+++.. +         +.-....|-+|.+.|..++.||+++
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~~~~-~---------~~~~~~tTR~~r~~e~~G~dy~fvs   54 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRERIPN-L---------HFSVSATTRAPRPGEVDGVDYHFID   54 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSTT-C---------EECCCEESSCCCTTCCBTTTBEECC
T ss_pred             EEEECCCCCCHHHHHHHHHhhCCC-C---------eEEEEeeccCCCccccCCcceeecc
Confidence            458999999999999999988753 2         2224568888888999999999986

>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=97.96  E-value=1.1e-06  Score=60.60  Aligned_cols=31  Identities=3%  Similarity=-0.201  Sum_probs=27.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+++||.|||||++|..||+++|... +..|-
T Consensus         5 Iil~G~~GsGKSTia~~LA~~Lg~~~-id~D~   35 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELARALGYEF-VDTDI   35 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHTCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-Eehhh
Confidence            44589999999999999999999999 87774

>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=97.95  E-value=9.4e-07  Score=61.50  Aligned_cols=30  Identities=7%  Similarity=-0.145  Sum_probs=26.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|.||.|||||++|..||+++|... |+.+
T Consensus         6 iil~G~pGSGKsT~a~~La~~~g~~~-i~~g   35 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAKNFCVCH-LATG   35 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCEE-EEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeE-EeHH
Confidence            46789999999999999999999888 8774

>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=97.94  E-value=9.5e-07  Score=61.50  Aligned_cols=31  Identities=0%  Similarity=-0.251  Sum_probs=27.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|+||.|||||++|-.||+++|... |+.|.
T Consensus         9 I~i~G~pGSGKsT~a~~La~~~g~~~-i~~g~   39 (194)
T d1qf9a_           9 VFVLGGPGSGKGTQCANIVRDFGWVH-LSAGD   39 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCce-Echhh
Confidence            45799999999999999999999887 87755

>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=97.93  E-value=1.2e-06  Score=59.75  Aligned_cols=31  Identities=0%  Similarity=-0.242  Sum_probs=28.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|.||.|||||++|..||+++|... |+.|.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~~~~-i~~~~   33 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYGIPH-ISTGD   33 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCce-echhH
Confidence            67899999999999999999999988 87754

>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=97.91  E-value=1e-06  Score=61.38  Aligned_cols=31  Identities=3%  Similarity=-0.255  Sum_probs=27.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|.||.|||||++|-.||++++..- |++|.
T Consensus         6 I~i~GppGsGKsT~a~~La~~~~~~~-is~~~   36 (189)
T d1zaka1           6 VMISGAPASGKGTQCELIKTKYQLAH-ISAGD   36 (189)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCEE-CCHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCcE-EehhH
Confidence            56799999999999999999999988 88754

>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=97.89  E-value=1.3e-06  Score=60.58  Aligned_cols=31  Identities=0%  Similarity=-0.298  Sum_probs=27.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|.||.|||||++|..||++++..- |+++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g~~~-is~gd   33 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYGTPH-ISTGD   33 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCce-eeHHH
Confidence            67899999999999999999999988 77754

>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=97.88  E-value=2.2e-06  Score=67.82  Aligned_cols=35  Identities=11%  Similarity=-0.049  Sum_probs=28.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      ++|.+||||+|||.||..||+-.+..+ +-.|...+
T Consensus        70 niLfiGPTGvGKTElAk~LA~~~~~~~-ir~D~s~~  104 (364)
T d1um8a_          70 NILLIGPTGSGKTLMAQTLAKHLDIPI-AISDATSL  104 (364)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTTCCE-EEEEGGGC
T ss_pred             ceeeeCCCCccHHHHHHHHHhhcccce-eehhhhhc
Confidence            356899999999999999999988777 66665443

>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=97.88  E-value=1.7e-06  Score=66.12  Aligned_cols=31  Identities=13%  Similarity=-0.079  Sum_probs=25.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      ++|++||||+|||.||..||+.++... +..|
T Consensus        51 ~iLl~GPpG~GKT~lAkalA~~~~~~~-~~i~   81 (309)
T d1ofha_          51 NILMIGPTGVGKTEIARRLAKLANAPF-IKVE   81 (309)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTCCE-EEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhhccccch-hccc
Confidence            455899999999999999999987765 4444

>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=97.88  E-value=1.8e-06  Score=59.55  Aligned_cols=32  Identities=13%  Similarity=-0.081  Sum_probs=28.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      |+|+||.|||||+++..||+++|... +..|..
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~~~-~d~d~~   34 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDLVF-LDSDFL   34 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCE-EecCch
Confidence            56689999999999999999999999 877753

>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=97.88  E-value=3.5e-06  Score=59.50  Aligned_cols=35  Identities=6%  Similarity=-0.178  Sum_probs=28.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc----------eEeeccceeeeccC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL----------FCRTYQVYLMVYKG   62 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~----------eI~IsaDSmQVYkg   62 (115)
                      |-|+||+|||||+||-.|++.++.          .+ |+.|+.  |+.
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~v-i~~D~y--y~~   49 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVI-LSQDSF--YRV   49 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEE-EEGGGG--BCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhchhccccCCCceEE-Eecccc--ccc
Confidence            447999999999999999988753          45 777766  654

>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=97.83  E-value=1.9e-06  Score=59.51  Aligned_cols=33  Identities=15%  Similarity=-0.000  Sum_probs=29.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      -|+|.||.|||||++|..||++++... |++|.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~-i~~~~l   34 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQ-ISTGEL   34 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCE-EEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCce-EchHHH
Confidence            367899999999999999999999888 887654

>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=97.83  E-value=4e-06  Score=60.98  Aligned_cols=51  Identities=16%  Similarity=0.237  Sum_probs=40.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce-EeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF-CRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e-I~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++|+||+|||||+|.-.|.+..... +         ....+-.|-+|-+.|..++.||+++
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~p~~~~---------~~~is~TTR~~R~~E~~G~dY~Fvs   56 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQPLYDT---------QVSVSHTTRQPRPGEVHGEHYFFVN   56 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSCTTTE---------EECCCEECSCCCTTCCBTTTBEECC
T ss_pred             EEEECCCCCCHHHHHHHHHhhCCccCc---------eEEEEEeccCCCccccccccceeec
Confidence            4589999999999999998876531 2         1234557778889999999999985

>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=97.82  E-value=2.8e-06  Score=59.43  Aligned_cols=31  Identities=0%  Similarity=-0.278  Sum_probs=27.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      |+|.||.|||||++|-.||++++... |+++.
T Consensus        11 I~l~G~pGSGKsT~a~~La~~~g~~~-is~g~   41 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKIVQKYGYTH-LSTGD   41 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTCCEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCee-EeccH
Confidence            45799999999999999999999888 77654

>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=97.81  E-value=2.3e-06  Score=59.30  Aligned_cols=36  Identities=0%  Similarity=-0.203  Sum_probs=29.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGL   63 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgl   63 (115)
                      |+|.||.|||||++|-.||++++..- |+.+.  ++|..
T Consensus         4 I~i~GppGSGKsT~a~~La~~~g~~~-i~~g~--llR~~   39 (194)
T d1teva_           4 VFVLGGPGAGKGTQCARIVEKYGYTH-LSAGE--LLRDE   39 (194)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEE-EEHHH--HHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-EcHHH--HHHHH
Confidence            56799999999999999999999887 76544  46543

>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=97.79  E-value=3.2e-06  Score=60.02  Aligned_cols=31  Identities=6%  Similarity=-0.231  Sum_probs=27.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      -++|+||.|||||++|..||+++|..- |++|
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~-is~g   38 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKH-LSSG   38 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEE-EEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeE-EcHH
Confidence            467899999999999999999999888 8774

>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=97.78  E-value=2.5e-06  Score=58.76  Aligned_cols=31  Identities=0%  Similarity=-0.285  Sum_probs=27.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|.||.|||||++|-.||++++... |+++.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~~~~-i~~~~   33 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYGIPQ-ISTGD   33 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCCE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-echhh
Confidence            67899999999999999999999888 87654

>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=97.76  E-value=8.8e-07  Score=60.45  Aligned_cols=30  Identities=3%  Similarity=-0.289  Sum_probs=24.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      |+++|+.|||||++|..||++++-.. ++.|
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~~-~~~~   51 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCHG-IPCY   51 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHTT-CCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcC-CCcc
Confidence            45799999999999999999987655 4443

>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=97.75  E-value=2.5e-06  Score=56.56  Aligned_cols=24  Identities=8%  Similarity=-0.248  Sum_probs=21.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |+|+|+.|||||++|..||++++.
T Consensus         9 I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           9 IFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            346999999999999999999854

>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=97.74  E-value=3.6e-06  Score=58.39  Aligned_cols=32  Identities=6%  Similarity=-0.100  Sum_probs=28.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      ++|.||.|||||++|..||++++..- |++|.+
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g~~~-i~~~d~   36 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFHAAH-LATGDM   36 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCce-Eecccc
Confidence            56789999999999999999999888 888654

>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=97.70  E-value=6.1e-06  Score=61.36  Aligned_cols=33  Identities=12%  Similarity=0.001  Sum_probs=28.5

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      -|+|+.||+|+|||.+|..||+..+..+ +..++
T Consensus        41 ~~vLL~GppGtGKT~la~alA~~~~~~~-~~i~~   73 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALAAKIAEESNFPF-IKICS   73 (246)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTCSE-EEEEC
T ss_pred             eEEEEECcCCCCHHHHHHHHhhcccccc-ccccc
Confidence            5789999999999999999999999877 55443

>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=97.69  E-value=5.2e-06  Score=56.77  Aligned_cols=31  Identities=3%  Similarity=-0.295  Sum_probs=27.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++++|+.|||||+++..||++++... +..|.
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~f-iD~D~   34 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGL-LDTDV   34 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe-Eeecc
Confidence            45579999999999999999999998 76663

>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=97.68  E-value=5.8e-06  Score=60.34  Aligned_cols=47  Identities=9%  Similarity=0.063  Sum_probs=40.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCH
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTP   72 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~   72 (115)
                      .++|+||.|+|||++|++|.++ +..+ |+=|...+++.-+-..++|+.
T Consensus        17 gvli~G~sG~GKS~lal~l~~~-G~~l-vaDD~v~~~~~~~~l~~~~p~   63 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK-NHLF-VGDDAIEIYRLGNRLFGRAQE   63 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT-TCEE-EEEEEEEEEEETTEEEEEECT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc-CCce-ecCCeEEEEEECCEEEEcCCh
Confidence            3568999999999999999875 7788 999999999988877777655

>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=97.63  E-value=1.1e-05  Score=61.91  Aligned_cols=35  Identities=17%  Similarity=0.089  Sum_probs=28.2

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      +|..+|   +++||||+|||.||..||+.++... +-.|
T Consensus        50 ~p~~~~---lf~Gp~GvGKT~lak~la~~l~~~~-i~~d   84 (315)
T d1r6bx3          50 KPVGSF---LFAGPTGVGKTEVTVQLSKALGIEL-LRFD   84 (315)
T ss_dssp             SCSEEE---EEECSTTSSHHHHHHHHHHHHTCEE-EEEE
T ss_pred             CCceEE---EEECCCcchhHHHHHHHHhhccCCe-eEec
Confidence            444554   4899999999999999999998776 5555

>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=97.59  E-value=4.1e-06  Score=56.82  Aligned_cols=25  Identities=4%  Similarity=-0.332  Sum_probs=21.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      |-|+||+|||||+||-.|++.++..
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhccc
Confidence            4589999999999999999876543

>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=97.58  E-value=9.6e-06  Score=57.76  Aligned_cols=28  Identities=7%  Similarity=-0.142  Sum_probs=25.1

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      -++|+.||+|+|||.+|..||+.++.+.
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~~~~~~   63 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASELQTNI   63 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHHTCCE
T ss_pred             CeEEEECCCCCcHHHHHHHHHhccCCCc
Confidence            3678999999999999999999988765

>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=97.56  E-value=1.2e-05  Score=55.63  Aligned_cols=34  Identities=6%  Similarity=-0.046  Sum_probs=27.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYk   61 (115)
                      |.|.||.|||||++|..||+++|..- ||+  =.+||
T Consensus         6 I~I~GppGSGKgT~ak~La~~~gl~~-iSt--GdLlR   39 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAEALQWHL-LDS--GAIYR   39 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCEE-EEH--HHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE-ECH--HHHHH
Confidence            45789999999999999999999877 553  33455

>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=97.56  E-value=2.1e-05  Score=52.00  Aligned_cols=25  Identities=4%  Similarity=-0.278  Sum_probs=22.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .|.+|++   |+||+|||||.|++++|-
T Consensus        21 ~~G~v~~---i~G~~GsGKT~l~l~la~   45 (242)
T d1n0wa_          21 ETGSITE---MFGEFRTGKTQICHTLAV   45 (242)
T ss_dssp             ETTSEEE---EECCTTSSHHHHHHHHHH
T ss_pred             cCCEEEE---EEeCCCCCHHHHHHHHHH
Confidence            4678888   999999999999999984

>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=97.48  E-value=1.4e-05  Score=52.70  Aligned_cols=22  Identities=9%  Similarity=-0.082  Sum_probs=19.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++|+||.|||||.|+.++++.+
T Consensus         4 v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           4 VFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHH
Confidence            5679999999999999999665

>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=97.47  E-value=1.1e-05  Score=53.60  Aligned_cols=23  Identities=9%  Similarity=-0.142  Sum_probs=20.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |+|.||.|||||+++-.||+.++
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            45899999999999999998663

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=97.44  E-value=1.6e-05  Score=55.70  Aligned_cols=30  Identities=10%  Similarity=-0.114  Sum_probs=24.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |+....+++|.||+|+|||+++..||+.+.
T Consensus        39 ~~~~~~~lll~GppGtGKT~l~~~l~~~l~   68 (276)
T d1fnna2          39 PGHHYPRATLLGRPGTGKTVTLRKLWELYK   68 (276)
T ss_dssp             TTSSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCCceEEECCCCCCHHHHHHHHHHHHh
Confidence            445566788899999999999999997653

>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=97.43  E-value=3.5e-05  Score=54.77  Aligned_cols=28  Identities=4%  Similarity=-0.136  Sum_probs=24.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ..+|+.||.|+|||.++..||+.++..+
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~~~~~~   80 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQELGYDI   80 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHTTCEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence            3466899999999999999999998865

>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=97.43  E-value=1.9e-05  Score=56.29  Aligned_cols=29  Identities=7%  Similarity=-0.095  Sum_probs=24.9

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .-++|+.||+|+|||.+|..+|+.++.+.
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~~~~~~   63 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHELGVNL   63 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHHTCCE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            34678899999999999999999887654

>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=97.39  E-value=5.9e-05  Score=51.52  Aligned_cols=31  Identities=6%  Similarity=-0.345  Sum_probs=25.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC-----ceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD-----LFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~-----~eI~IsaDS   56 (115)
                      |+++|.+|||||++|.+||+.++     ..+ +++|-
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~~~~~~~~~-~~~D~   40 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLNFIGVPTRE-FNVGQ   40 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEE-EEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCCCeE-Ecccc
Confidence            45699999999999999997653     456 88874

>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=97.36  E-value=3.1e-05  Score=54.10  Aligned_cols=34  Identities=9%  Similarity=-0.108  Sum_probs=28.7

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      .|.||.|||||++|-.||+++|..-   .|+=++||.
T Consensus         7 aIdGp~GsGKgT~ak~La~~lg~~~---istGdl~R~   40 (223)
T d1q3ta_           7 AIDGPASSGKSTVAKIIAKDFGFTY---LDTGAMYRA   40 (223)
T ss_dssp             EEECSSCSSHHHHHHHHHHHHCCEE---EEHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHhCCcE---ECHHHHHHH
Confidence            3569999999999999999999977   456667775

>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=97.32  E-value=4.5e-05  Score=51.16  Aligned_cols=23  Identities=4%  Similarity=-0.093  Sum_probs=20.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+||+|||||+|+..++..+.
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCC
Confidence            67899999999999999997664

>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=97.29  E-value=1.7e-05  Score=56.33  Aligned_cols=24  Identities=17%  Similarity=-0.018  Sum_probs=21.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +|+.||.|+|||.+|..+|+++++
T Consensus        48 lll~Gp~G~GKTtla~~iak~l~~   71 (231)
T d1iqpa2          48 LLFAGPPGVGKTTAALALARELFG   71 (231)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHh
Confidence            568999999999999999998754

>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=97.28  E-value=8.2e-05  Score=54.61  Aligned_cols=33  Identities=3%  Similarity=-0.273  Sum_probs=25.1

Q ss_pred             eeeccCCCchhHHHHHHhcC-----CCceEeeccceeee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLMV   59 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQV   59 (115)
                      +++||||||||+...+||..     ...-+ |++|...+
T Consensus        14 ~lvGp~GvGKTTTiaKLA~~~~~~g~kV~l-it~Dt~R~   51 (207)
T d1ls1a2          14 FLVGLQGSGKTTTAAKLALYYKGKGRRPLL-VAADTQRP   51 (207)
T ss_dssp             EEECCTTTTHHHHHHHHHHHHHHTTCCEEE-EECCSSCH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCcEEE-Eecccccc
Confidence            47999999999988888843     34456 99986543

>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=97.20  E-value=4.2e-05  Score=50.98  Aligned_cols=23  Identities=9%  Similarity=-0.132  Sum_probs=20.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|+|+.|||||+++-.||+.++
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~   26 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            46799999999999999998764

>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=97.20  E-value=7.3e-05  Score=55.68  Aligned_cols=32  Identities=6%  Similarity=-0.183  Sum_probs=28.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+.||.|+|||.|+..+|..++..+ +..+.
T Consensus        43 giLL~Gp~GtGKT~l~~ala~~~~~~~-~~~~~   74 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIANECQANF-ISIKG   74 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHHHTTCEE-EEECH
T ss_pred             eEEEECCCCCcchhHHHHHHHHhCCcE-EEEEH
Confidence            477899999999999999999999988 66654

>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=97.19  E-value=0.00013  Score=53.60  Aligned_cols=30  Identities=10%  Similarity=-0.119  Sum_probs=23.3

Q ss_pred             eeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      +++||||||||+...+||..+     ..-+ |++|.
T Consensus        10 ~lvGptGvGKTTTiaKLA~~~~~~g~kV~l-it~Dt   44 (207)
T d1okkd2          10 LVVGVNGVGKTTTIAKLGRYYQNLGKKVMF-CAGDT   44 (207)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHTTTCCEEE-ECCCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCcEEE-EEecc
Confidence            479999999999888888432     3446 89986

>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=97.17  E-value=6.1e-05  Score=52.97  Aligned_cols=30  Identities=10%  Similarity=-0.128  Sum_probs=24.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      |..+...++++||+|+|||.++..+|+.+.
T Consensus        42 ~~~~~~~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          42 LSDVNMIYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             BCCEEEEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             CCCcceEEEeECCCCCCHHHHHHHHHHHHH
Confidence            444566677899999999999999998763

>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=97.15  E-value=7.1e-05  Score=56.09  Aligned_cols=35  Identities=6%  Similarity=-0.175  Sum_probs=28.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      ++|+.||.|+|||.+|..||+.++..+ +..+.-.+
T Consensus        47 ~iLL~GppGtGKT~la~~iA~~~~~~~-~~i~~~~l   81 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAGEAKVPF-FTISGSDF   81 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCE-EEECSCSS
T ss_pred             eEEeeCCCCCCccHHHHHHHHHcCCCE-EEEEhHHh
Confidence            467899999999999999999998877 66655333

>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=97.15  E-value=8.6e-05  Score=55.15  Aligned_cols=32  Identities=9%  Similarity=-0.095  Sum_probs=27.4

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccce
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVY   56 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDS   56 (115)
                      ++|+.||.|+|||.||..+|+.++..+ +..|.
T Consensus        44 giLl~GppGtGKT~la~aia~~~~~~~-~~i~~   75 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGEARVPF-ITASG   75 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTCCE-EEEEH
T ss_pred             eEEEecCCCCChhHHHHHHHHHcCCCE-EEEEh
Confidence            467899999999999999999999877 55554

>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=97.13  E-value=0.00011  Score=52.10  Aligned_cols=31  Identities=3%  Similarity=-0.380  Sum_probs=26.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +-|+|+.|||||++|--|. ++|..+ +++|.+
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~v-idaD~i   35 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPL-VDADVV   35 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCE-EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeE-EEchHH
Confidence            4479999999999997775 689999 999964

>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=97.13  E-value=0.00012  Score=53.99  Aligned_cols=61  Identities=8%  Similarity=-0.103  Sum_probs=35.1

Q ss_pred             eeeccCCCchhHHHHHHhcCC-----CceEeecccee--------eecc---CCceecCCCCHHH------------hcC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYL--------MVYK---GLDVITNKVTPEE------------AEG   77 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSm--------QVYk---gldIgTAKPs~eE------------~~~   77 (115)
                      +++||||||||+...+||..+     ..-+ |++|..        +.|.   ++++-.+....+-            .+.
T Consensus        16 ~lvGptGvGKTTTiAKLA~~~~~~g~kV~l-it~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~~~~~~~~   94 (211)
T d1j8yf2          16 MLVGVQGTGKATTAGKLAYFYKKKGFKVGL-VGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEK   94 (211)
T ss_dssp             EEECSCCC----HHHHHHHHHHHTTCCEEE-EECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHHHTT
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCceEE-EEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHHHHhhccC
Confidence            369999999999988888433     4456 889864        3343   3455444433221            355


Q ss_pred             CCeeeecccC
Q psy7554          78 IPHHLLDFLD   87 (115)
Q Consensus        78 IpHHLid~ld   87 (115)
                      ...=|||.--
T Consensus        95 ~d~IlIDTaG  104 (211)
T d1j8yf2          95 MEIIIVDTAG  104 (211)
T ss_dssp             CSEEEEECCC
T ss_pred             CceEEEecCC
Confidence            6778888654

>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=97.12  E-value=0.00011  Score=50.45  Aligned_cols=26  Identities=8%  Similarity=-0.138  Sum_probs=23.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |.|.|+.|||||+++-.|++.++...
T Consensus        12 I~ieG~~GsGKTTl~~~L~~~l~~~~   37 (197)
T d2vp4a1          12 VLIEGNIGSGKTTYLNHFEKYKNDIC   37 (197)
T ss_dssp             EEEECSTTSCHHHHHHTTGGGTTTEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcE
Confidence            46899999999999999999998765

>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=97.09  E-value=4.8e-05  Score=54.75  Aligned_cols=47  Identities=6%  Similarity=-0.031  Sum_probs=35.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC-CceecCCCCH
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG-LDVITNKVTP   72 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg-ldIgTAKPs~   72 (115)
                      .++|+|+.|+|||.+|++|.++ +..+ |+=|-.-|++. =+...++|+.
T Consensus        17 gvli~G~sg~GKS~la~~l~~~-g~~l-i~DD~~~~~~~~~~~l~~~~p~   64 (169)
T d1ko7a2          17 GVLITGDSGIGKSETALELIKR-GHRL-VADDNVEIREISKDELIGRAPK   64 (169)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT-TCEE-EESSEEEEEESSSSCEEEECCG
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc-CCeE-EeCCeEEEEEecCCEEEecCCc
Confidence            4568999999999999999988 6677 88899888763 3433444433

>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=97.07  E-value=0.00031  Score=51.92  Aligned_cols=32  Identities=9%  Similarity=-0.069  Sum_probs=24.2

Q ss_pred             eeeccCCCchhHHHHHHhcC-----CCceEeeccceee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLM   58 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQ   58 (115)
                      +++||||||||+...+||..     ...-+ |++|...
T Consensus        13 ~lvGptGvGKTTTiAKLA~~~~~~g~kV~l-it~Dt~R   49 (211)
T d2qy9a2          13 LMVGVNGVGKTTTIGKLARQFEQQGKSVML-AAGDTFR   49 (211)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHTTTCCEEE-ECCCTTC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCcEEE-Eeccccc
Confidence            37999999999998888832     23445 8988743

>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=97.06  E-value=5.7e-05  Score=53.23  Aligned_cols=23  Identities=17%  Similarity=0.014  Sum_probs=20.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +|+.||+|+|||+++..+|+.++
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHHHhh
Confidence            56899999999999999998764

>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=97.05  E-value=0.00011  Score=52.21  Aligned_cols=31  Identities=0%  Similarity=-0.280  Sum_probs=26.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      +-|+|+.|||||++|--|. ++|..+ +++|.+
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~v-idaD~i   36 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINV-IDADII   36 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEE-EEHHHH
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcE-EEchHH
Confidence            4579999999999997775 678888 999875

>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=97.03  E-value=8.3e-05  Score=49.03  Aligned_cols=21  Identities=5%  Similarity=-0.197  Sum_probs=18.6

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +.|+|+.|||||+|+..|+++
T Consensus         5 i~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            458999999999999999864

>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=97.02  E-value=0.00019  Score=47.13  Aligned_cols=33  Identities=3%  Similarity=-0.120  Sum_probs=23.7

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      |-+.+|.+|||||||.++..++...+..+.+.+
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~   40 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLN   40 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHHTTTCCEEEEE
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEc
Confidence            445668999999999988777766654442444

>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=97.00  E-value=0.00015  Score=50.81  Aligned_cols=22  Identities=18%  Similarity=0.075  Sum_probs=19.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++.||+|+|||+++..+|+++
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHHH
Confidence            5689999999999999999875

>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=96.98  E-value=0.00029  Score=50.92  Aligned_cols=37  Identities=14%  Similarity=0.027  Sum_probs=30.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKG   62 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkg   62 (115)
                      .++|+|+.|+|||++|++|.++ +..+ |+=|-.-|.+.
T Consensus        16 gvl~~G~sG~GKStlal~l~~~-g~~l-v~DD~~~i~~~   52 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQR-GHRL-IADDRVDVYQQ   52 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT-TCEE-EEEEEEEEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc-CCeE-EecCeEEEEEe
Confidence            4568999999999999999986 6677 88888877764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.98  E-value=0.00015  Score=53.51  Aligned_cols=35  Identities=9%  Similarity=-0.067  Sum_probs=28.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCceEeeccceeee
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMV   59 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQV   59 (115)
                      ++|+.||.|+|||.++-.+|...+..+ +..+.-++
T Consensus        40 giLL~GppGtGKT~l~~ala~~~~~~~-~~i~~~~l   74 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVANETGAFF-FLINGPEI   74 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTCEE-EEECHHHH
T ss_pred             eeEEecCCCCCchHHHHHHHHHhCCeE-EEEEchhh
Confidence            567899999999999999999999877 65554443

>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=96.96  E-value=0.00032  Score=48.16  Aligned_cols=24  Identities=4%  Similarity=-0.292  Sum_probs=20.8

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      ++.+++   |+||+|||||.|++++|.
T Consensus        33 ~G~~~l---i~G~pGsGKT~l~lq~~~   56 (251)
T d1szpa2          33 TGSITE---LFGEFRTGKSQLCHTLAV   56 (251)
T ss_dssp             SSSEEE---EEESTTSSHHHHHHHHTT
T ss_pred             CCeEEE---EEcCCCCCHHHHHHHHHH
Confidence            556776   999999999999999974

>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=96.96  E-value=7.3e-05  Score=52.91  Aligned_cols=25  Identities=4%  Similarity=-0.290  Sum_probs=21.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLF   49 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~e   49 (115)
                      +|+.||.|+|||++|..+|+.++++
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~~~   63 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELLGR   63 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGG
T ss_pred             EEEECCCCCCchhhHHHHHHHHhcc
Confidence            5689999999999999999887653

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.95  E-value=0.00023  Score=49.67  Aligned_cols=24  Identities=4%  Similarity=-0.248  Sum_probs=20.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.++++   |+||+|||||.|++++|.
T Consensus        35 ~G~~~l---i~G~pGsGKT~~~lq~~~   58 (254)
T d1pzna2          35 TQAITE---VFGEFGSGKTQLAHTLAV   58 (254)
T ss_dssp             SSEEEE---EEESTTSSHHHHHHHHHH
T ss_pred             CCEEEE---EEcCCCCCHHHHHHHHHH
Confidence            456776   999999999999999974

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.94  E-value=0.00012  Score=56.32  Aligned_cols=23  Identities=22%  Similarity=0.121  Sum_probs=20.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++++||||+|||.+|..||+.+
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHHHh
Confidence            45599999999999999999986

>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=96.92  E-value=0.00013  Score=50.28  Aligned_cols=30  Identities=7%  Similarity=-0.396  Sum_probs=26.0

Q ss_pred             eeeccCCCchhHHHHHHhcCCCceEeecccee
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYL   57 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~~eI~IsaDSm   57 (115)
                      -|+|+.|||||++|-.|. +++..+ +++|..
T Consensus         7 gitG~~gSGKstva~~l~-~~g~~~-~~~D~~   36 (191)
T d1uf9a_           7 GITGNIGSGKSTVAALLR-SWGYPV-LDLDAL   36 (191)
T ss_dssp             EEEECTTSCHHHHHHHHH-HTTCCE-EEHHHH
T ss_pred             EEECCCCCCHHHHHHHHH-HCCCeE-EEccHH
Confidence            378999999999998885 578888 999885

>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=96.86  E-value=0.00022  Score=50.67  Aligned_cols=30  Identities=0%  Similarity=-0.303  Sum_probs=27.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeec-cc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTY-QV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~Is-aD   55 (115)
                      |-|+|+-|||||++|--|++++|..+ ++ +|
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~-i~~aD   34 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVK-YQLAG   34 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEE-CCTTH
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeE-EcccH
Confidence            56899999999999999999999888 87 67

>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=96.82  E-value=0.00016  Score=49.33  Aligned_cols=23  Identities=13%  Similarity=0.120  Sum_probs=19.3

Q ss_pred             eeeeecc-CCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLP-DSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~Gp-TasGKS~lai~LA~~~   46 (115)
                      .|+|+|. ||+|||.++..||..+
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHHHHH
Confidence            3678999 7999999999988654

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.82  E-value=0.00036  Score=47.65  Aligned_cols=24  Identities=4%  Similarity=-0.361  Sum_probs=21.4

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +.+|++   |.||+|+|||.|++++|-
T Consensus        33 ~G~l~~---i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          33 SQSVTE---FAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             TTEEEE---EEESTTSSHHHHHHHHHH
T ss_pred             CCeEEE---EEeCCCCCHHHHHHHHHH
Confidence            567877   999999999999999984

>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=96.77  E-value=0.00028  Score=54.50  Aligned_cols=25  Identities=4%  Similarity=-0.088  Sum_probs=21.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      +++|+||||||||++...|+...+.
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            4789999999999999999987753

>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=96.77  E-value=0.00041  Score=50.03  Aligned_cols=25  Identities=4%  Similarity=-0.092  Sum_probs=21.6

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +|.++++   |+|+||+|||.|+.++|.
T Consensus        33 ~~G~l~v---i~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          33 RGGEVIM---VTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             CTTCEEE---EECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEE---EEeCCCCCHHHHHHHHHH
Confidence            5778887   999999999999888773

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.76  E-value=0.00064  Score=49.06  Aligned_cols=39  Identities=13%  Similarity=0.052  Sum_probs=25.8

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAE   76 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~   76 (115)
                      +||+|+..||||++|-+||...+..+             =|.|++|..+||+
T Consensus         2 iLVtGGarSGKS~~AE~l~~~~~~~~-------------YiAT~~~~D~em~   40 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGDAPQVL-------------YIATSQILDDEMA   40 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCSCSSEE-------------EEECCCC------
T ss_pred             EEEECCCCccHHHHHHHHHhcCCCcE-------------EEEccCCCCHHHH
Confidence            57999999999999999986644322             3667888777653

>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=96.73  E-value=0.00023  Score=49.49  Aligned_cols=26  Identities=8%  Similarity=-0.290  Sum_probs=22.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      ++|.||.|+|||+|+.++++..+...
T Consensus        32 i~i~G~~G~GKTsLl~~~~~~~~~~~   57 (283)
T d2fnaa2          32 TLVLGLRRTGKSSIIKIGINELNLPY   57 (283)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCCE
T ss_pred             EEEEcCCCCcHHHHHHHHHHHCCCCe
Confidence            45899999999999999998776544

>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=96.69  E-value=0.00033  Score=54.92  Aligned_cols=39  Identities=10%  Similarity=-0.069  Sum_probs=32.2

Q ss_pred             eccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeecc
Q psy7554          13 LLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQ   54 (115)
Q Consensus        13 ~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~Isa   54 (115)
                      ++.|.|+.=  .+++.||.|+|||.+|..||+.+++.+ ++.
T Consensus       147 ~~~~~~~~~--~~~~~g~~~~gk~~~~~~~~~~~~~~~-i~i  185 (362)
T d1svma_         147 MVYNIPKKR--YWLFKGPIDSGKTTLAAALLELCGGKA-LNV  185 (362)
T ss_dssp             HHHCCTTCC--EEEEECSTTSSHHHHHHHHHHHHCCEE-ECC
T ss_pred             HHhCCCCcC--eEEEECCCCCCHHHHHHHHHHHcCCCE-EEE
Confidence            356777753  457899999999999999999999988 553

>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=96.69  E-value=0.00029  Score=49.69  Aligned_cols=23  Identities=13%  Similarity=0.122  Sum_probs=20.6

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+|+.||.|+|||+++..+|+.+
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhh
Confidence            46789999999999999999864

>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=96.69  E-value=0.00028  Score=51.02  Aligned_cols=29  Identities=3%  Similarity=-0.136  Sum_probs=22.9

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      |++-+.+++|.||+|||||.|+..+|.++
T Consensus        32 ~~~~~n~l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          32 LGSLYNPIFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             TTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCCCcEEEECCCCCcHHHHHHHHHHHh
Confidence            44455666779999999999998888654

>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=96.67  E-value=0.00015  Score=49.96  Aligned_cols=34  Identities=15%  Similarity=0.224  Sum_probs=21.9

Q ss_pred             ceeeeeccCCCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554           8 HYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      -||+.++.-..++   ..|+++|||||||-.+..++.
T Consensus        12 ~~Q~~~~~~~~~~---n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          12 IYQEVIYAKCKET---NCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             HHHHHHHHHGGGS---CEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC---CeEEEeCCCCcHHHHHHHHHH
Confidence            4666555322232   246889999999987666663

>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=96.63  E-value=0.00087  Score=49.32  Aligned_cols=30  Identities=3%  Similarity=-0.155  Sum_probs=23.8

Q ss_pred             eeeccCCCchhHHHHHHhcC-----CCceEeeccce
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVY   56 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~-----~~~eI~IsaDS   56 (115)
                      +++||||||||....+||..     ...-+ |++|.
T Consensus        15 ~lvGptGvGKTTTiAKLAa~~~~~~~kV~l-it~Dt   49 (213)
T d1vmaa2          15 MVVGVNGTGKTTSCGKLAKMFVDEGKSVVL-AAADT   49 (213)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHTTCCEEE-EEECT
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCceEE-Eeecc
Confidence            46999999999998888843     34556 89985

>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=96.54  E-value=0.00097  Score=46.24  Aligned_cols=31  Identities=0%  Similarity=-0.239  Sum_probs=23.5

Q ss_pred             eeeeccCCCchhHHHHHHhc----CCCceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD----GPDLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~----~~~~eI~IsaDS   56 (115)
                      ++|+||.|||||+|.-+|.+    +....+ ||.|.
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~i-vn~d~   37 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAY-VNLDT   37 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEE-EECCS
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEE-EecCc
Confidence            57899999999999888863    334455 77664

>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=96.53  E-value=0.00082  Score=46.45  Aligned_cols=24  Identities=4%  Similarity=-0.273  Sum_probs=20.7

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +..+++   |+||+|+|||.||..+|.
T Consensus        36 ~G~~~~---i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          36 SMAITE---AFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             SSEEEE---EECCTTCTHHHHHHHHHH
T ss_pred             CCEEEE---EECCCCCCHHHHHHHHHH
Confidence            456766   999999999999999983

>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=96.51  E-value=0.00038  Score=49.70  Aligned_cols=31  Identities=13%  Similarity=-0.073  Sum_probs=23.8

Q ss_pred             ccCCCceeEeeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          14 LTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        14 ~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      ..|+....   +|+.||.|+|||++|..+|+.+.
T Consensus        19 ~~~~l~h~---lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          19 QAGRGHHA---LLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             HTTCCCSE---EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             HcCCcCeE---EEEECCCCCcHHHHHHHHHHhcc
Confidence            35554443   44899999999999999998664

>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=96.48  E-value=0.00078  Score=45.86  Aligned_cols=23  Identities=4%  Similarity=-0.048  Sum_probs=19.6

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHh
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA   43 (115)
                      +..+++   |.|++|+|||.|++++|
T Consensus        25 ~G~~~~---I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          25 IGRSTL---VSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             TTSEEE---EEESTTSSHHHHHHHHH
T ss_pred             CCeEEE---EEeCCCCCHHHHHHHHH
Confidence            556666   99999999999999876

>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=96.39  E-value=0.00083  Score=47.05  Aligned_cols=20  Identities=5%  Similarity=-0.044  Sum_probs=18.0

Q ss_pred             eeeccCCCchhHHHHHHhcC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~   45 (115)
                      +|.||+|||||.|+.++|..
T Consensus        30 li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          30 LATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeCCCCCHHHHHHHHHHH
Confidence            49999999999999999865

>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=96.37  E-value=0.00046  Score=49.68  Aligned_cols=22  Identities=9%  Similarity=-0.108  Sum_probs=19.1

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      |+++|.+|||||++|..|++++
T Consensus        27 IwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          27 IWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            3489999999999999998654

>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=96.36  E-value=0.00066  Score=47.31  Aligned_cols=26  Identities=4%  Similarity=-0.362  Sum_probs=23.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |.|-|+.|||||+++-.|++.++..-
T Consensus         5 I~ieG~dGsGKST~~~~L~~~l~~~~   30 (241)
T d1p5zb_           5 ISIEGNIAAGKSTFVNILKQLCEDWE   30 (241)
T ss_dssp             EEEECSTTSSHHHHHTTTGGGCTTEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhcCC
Confidence            67899999999999999999997654

>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=96.35  E-value=0.00039  Score=50.06  Aligned_cols=25  Identities=20%  Similarity=0.126  Sum_probs=21.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      ++|+.||.|+|||++|..+|+.++.
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~~l~~   60 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAKGLNC   60 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhcC
Confidence            4568999999999999999987644

>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=96.27  E-value=0.0013  Score=50.82  Aligned_cols=72  Identities=6%  Similarity=-0.144  Sum_probs=45.2

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHhcCC-------CceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCc
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLTDGP-------DLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTR   91 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA~~~-------~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~   91 (115)
                      +.-|+ +-|+|+.|||||++|..|++.+       ...+ |+.|..  |+.         .+++..  +-+..-.+.-+.
T Consensus        78 k~P~i-IGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~-Is~D~F--~~~---------~~~l~~--~~~~~~~g~Pes  142 (308)
T d1sq5a_          78 RIPYI-ISIAGSVAVGKSTTARVLQALLSRWPEHRRVEL-ITTDGF--LHP---------NQVLKE--RGLMKKKGFPES  142 (308)
T ss_dssp             CCCEE-EEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEE-EEGGGG--BCC---------HHHHHH--HTCTTCTTSGGG
T ss_pred             CCCEE-EEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEE-Eeeeee--ECC---------chHHHH--hcCCccCCchHh
Confidence            33344 6689999999999999988643       3456 999987  432         122211  112222333467


Q ss_pred             cCHHHHHHHHHHHH
Q psy7554          92 FTVVDYRNRALKHT  105 (115)
Q Consensus        92 ySv~~F~~~A~~~I  105 (115)
                      |++..|.+....+.
T Consensus       143 ~D~~~L~~~L~~lk  156 (308)
T d1sq5a_         143 YDMHRLVKFVSDLK  156 (308)
T ss_dssp             BCHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHH
Confidence            88888887665554

>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=96.27  E-value=0.0021  Score=46.94  Aligned_cols=23  Identities=13%  Similarity=-0.135  Sum_probs=20.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +++++||.|+|||+++-.||+++
T Consensus        45 n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHHHH
Confidence            45689999999999999999754

>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=96.25  E-value=0.0014  Score=49.63  Aligned_cols=40  Identities=15%  Similarity=-0.143  Sum_probs=28.7

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC----------CceEeeccceeeeccCCc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP----------DLFCRTYQVYLMVYKGLD   64 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~----------~~eI~IsaDSmQVYkgld   64 (115)
                      +++++||.|+|||++.-.||+++          +..| ++.|-..+..|+.
T Consensus        41 n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i-~~l~~~~liag~~   90 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTI-YSLDIGSLLAGTK   90 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEE-EECCCC---CCCC
T ss_pred             CcEEECCCCCcHHHHHHHHHHHHHhCCccccccccee-EEeeechHhccCc
Confidence            56679999999999999999752          4467 7777777766653

>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=96.24  E-value=0.0012  Score=47.13  Aligned_cols=24  Identities=13%  Similarity=0.058  Sum_probs=19.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      |..+.+   |+|++|+|||.|+++||.
T Consensus        28 pg~~~~---i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          28 AGTVGA---LVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             TTSEEE---EEESTTSSHHHHHHHHHH
T ss_pred             CCcEEE---EEeCCCCCHHHHHHHHHH
Confidence            345555   899999999999988874

>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=96.24  E-value=0.0005  Score=51.19  Aligned_cols=39  Identities=15%  Similarity=0.163  Sum_probs=33.9

Q ss_pred             eeccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeec
Q psy7554          12 NLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTY   53 (115)
Q Consensus        12 ~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~Is   53 (115)
                      ++|.|.|++  +-+++.||..+|||.++..|++-++|.+ ||
T Consensus        45 ~~l~~~PKk--n~i~~~GP~~TGKS~f~~sl~~~l~G~v-is   83 (205)
T d1tuea_          45 SFLKGTPKK--NCLVFCGPANTGKSYFGMSFIHFIQGAV-IS   83 (205)
T ss_dssp             HHHHTCTTC--SEEEEESCGGGCHHHHHHHHHHHHTCEE-CC
T ss_pred             HHHcCCCCc--eEEEEECCCCccHHHHHHHHHHHhCCEE-Ee
Confidence            357899999  5558899999999999999999999988 66

>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=96.23  E-value=0.00051  Score=53.02  Aligned_cols=34  Identities=0%  Similarity=-0.233  Sum_probs=25.0

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDSmQVYk   61 (115)
                      |-|+|++|||||.++..|++.+     +..+ |+.||.  ||
T Consensus         7 IgIaG~SGSGKTTva~~l~~i~~~~~v~~~i-I~~Dsf--yr   45 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQIFRREGVKAVS-IEGDAF--HR   45 (288)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHHHTCCEEE-EEGGGG--BS
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhhcCCCeEE-EeCCCC--Cc
Confidence            4589999999999999988755     4457 999996  65

>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=96.21  E-value=0.00087  Score=51.45  Aligned_cols=68  Identities=9%  Similarity=-0.048  Sum_probs=46.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC--------CceEeeccceeeeccCCceecCCCCHHHhc----CCC-eeeecccCCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP--------DLFCRTYQVYLMVYKGLDVITNKVTPEEAE----GIP-HHLLDFLDPNTR   91 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~--------~~eI~IsaDSmQVYkgldIgTAKPs~eE~~----~Ip-HHLid~ldp~e~   91 (115)
                      +-|+|++|||||+||..|.+.+        ...+ ||.|..  |+         |.+|+.    .++ |-|+....+-..
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~-iS~Ddf--Y~---------t~~~r~~L~~~~~~~pl~~~RG~PgT   97 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGY-ASIDDF--YL---------THEDQLKLNEQFKNNKLLQGRGLPGT   97 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEE-EEGGGG--BC---------CHHHHHHHHHHTTTCGGGSSSCSTTS
T ss_pred             EEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEe-eccCCC--CC---------CHHHHHHHhhhccccccceecCCCcc
Confidence            4579999999999998775443        3455 899986  64         344432    233 558888888888


Q ss_pred             cCHHHHHHHHHHH
Q psy7554          92 FTVVDYRNRALKH  104 (115)
Q Consensus        92 ySv~~F~~~A~~~  104 (115)
                      +++....+.-.+.
T Consensus        98 hD~~ll~~~l~~l  110 (286)
T d1odfa_          98 HDMKLLQEVLNTI  110 (286)
T ss_dssp             BCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHH
Confidence            8886665444433

>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=96.15  E-value=0.00072  Score=53.15  Aligned_cols=21  Identities=10%  Similarity=-0.103  Sum_probs=16.2

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +||+||||||||+....+-+.
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhh
Confidence            449999999999886665443

>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=96.09  E-value=0.00044  Score=45.06  Aligned_cols=18  Identities=0%  Similarity=-0.234  Sum_probs=14.5

Q ss_pred             eeeccCCCchhHH--HHHHh
Q psy7554          26 LSCLPDSVCPHAH--QVDLT   43 (115)
Q Consensus        26 li~GpTasGKS~l--ai~LA   43 (115)
                      +|+||+|||||.+  |+.++
T Consensus        28 vi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHH
Confidence            4799999999999  55544

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.99  E-value=0.0013  Score=46.25  Aligned_cols=26  Identities=12%  Similarity=-0.245  Sum_probs=22.6

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      |+|-|+.|||||+++-.|++.++..-
T Consensus         5 IviEG~~GsGKST~~~~L~~~l~~~~   30 (241)
T d2ocpa1           5 LSIEGNIAVGKSTFVKLLTKTYPEWH   30 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCTTSE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhhcC
Confidence            45799999999999999999987644

>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=95.99  E-value=0.0026  Score=43.49  Aligned_cols=30  Identities=13%  Similarity=0.206  Sum_probs=26.3

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +| |++.-+-++|+|..+||||+|..++...
T Consensus         3 ~~-~~~~~~Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1           3 HG-PGALMLKCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             SC-CEEEEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CC-CCCcEEEEEEECCCCCCHHHHHHHHhhC
Confidence            34 8888889999999999999999998854

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=95.99  E-value=0.003  Score=46.84  Aligned_cols=38  Identities=8%  Similarity=-0.095  Sum_probs=27.7

Q ss_pred             eeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          11 VNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        11 ~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      || ++=.|.+++-   |+||+|||||+|..-|+.-+   .|+|.+
T Consensus        21 is-l~i~~Ge~va---ivG~sGsGKSTLl~ll~gl~~p~~G~I~i   61 (242)
T d1mv5a_          21 IS-FEAQPNSIIA---FAGPSGGGKSTIFSLLERFYQPTAGEITI   61 (242)
T ss_dssp             EE-EEECTTEEEE---EECCTTSSHHHHHHHHTTSSCCSBSCEEE
T ss_pred             eE-EEEcCCCEEE---EECCCCCCHHHHHHHHHHhhCCCCCEEEE
Confidence            44 3456777776   89999999999998887544   366633

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.97  E-value=0.0037  Score=46.50  Aligned_cols=33  Identities=3%  Similarity=-0.233  Sum_probs=25.3

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++-   |+||+|||||+|..-++--.   .|+|
T Consensus        22 ~i~~Gei~~---liGpsGsGKSTLl~~i~Gl~~p~sG~I   57 (232)
T d2awna2          22 DIHEGEFVV---FVGPSGCGKSTLLRMIAGLETITSGDL   57 (232)
T ss_dssp             EECTTCEEE---EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EEcCCCEEE---EECCCCChHHHHHHHHhcCCCCCCCEE
Confidence            346778877   89999999999988776433   3566

>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=95.97  E-value=0.0018  Score=45.74  Aligned_cols=31  Identities=6%  Similarity=-0.168  Sum_probs=23.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~eI~IsaD   55 (115)
                      .++.+|||+|||-+++.++++++..+.|-+.
T Consensus        88 ~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~p  118 (206)
T d2fz4a1          88 GCIVLPTGSGKTHVAMAAINELSTPTLIVVP  118 (206)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             cEEEeCCCCCceehHHhHHHHhcCceeEEEc
Confidence            3578999999999999999888765434444

>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=95.97  E-value=0.0031  Score=46.81  Aligned_cols=35  Identities=3%  Similarity=-0.314  Sum_probs=25.7

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceEee
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFCRT   52 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI~I   52 (115)
                      +=.+.+.+-   |+||+|||||+|..-|+.-+   .|+|.|
T Consensus        25 ~i~~Ge~va---IvG~sGsGKSTLl~ll~gl~~p~~G~I~i   62 (241)
T d2pmka1          25 SIKQGEVIG---IVGRSGSGKSTLTKLIQRFYIPENGQVLI   62 (241)
T ss_dssp             EEETTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEcCCCEEE---EECCCCCCHHHHHHHHHhcCCCCCCEEEE
Confidence            334566665   89999999999998888654   356633

>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=95.94  E-value=0.001  Score=44.69  Aligned_cols=21  Identities=0%  Similarity=-0.276  Sum_probs=17.9

Q ss_pred             eeeccCCCchhHHHHHHhcCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~   46 (115)
                      -|+|+.|||||+|..+|++++
T Consensus         5 ~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           5 QVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHH
Confidence            389999999999999887543

>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=95.90  E-value=0.0093  Score=42.56  Aligned_cols=31  Identities=6%  Similarity=-0.150  Sum_probs=24.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++.   |.||.|||||+|..-|+.-+   .|+|
T Consensus        25 ~~Gei~~---l~G~NGsGKSTLl~~i~gl~~p~~G~I   58 (200)
T d1sgwa_          25 EKGNVVN---FHGPNGIGKTTLLKTISTYLKPLKGEI   58 (200)
T ss_dssp             ETTCCEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCChHHHHHHHHhcccccCCCEE
Confidence            4566666   89999999999999998644   4777

>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=95.87  E-value=0.0022  Score=40.92  Aligned_cols=22  Identities=14%  Similarity=-0.097  Sum_probs=19.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++|+.++|||+|..+|..+.
T Consensus         3 I~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6789999999999999998654

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.87  E-value=0.0015  Score=46.52  Aligned_cols=19  Identities=16%  Similarity=0.322  Sum_probs=14.5

Q ss_pred             eeeeeccCCCchhHHHHHH
Q psy7554          24 SYLSCLPDSVCPHAHQVDL   42 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~L   42 (115)
                      |++|++|||+|||..++-.
T Consensus        60 ~~~i~apTGsGKT~~~~~~   78 (237)
T d1gkub1          60 SFAATAPTGVGKTSFGLAM   78 (237)
T ss_dssp             CEECCCCBTSCSHHHHHHH
T ss_pred             CEEEEecCCChHHHHHHHH
Confidence            4678999999999654433

>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=95.86  E-value=0.0016  Score=41.10  Aligned_cols=15  Identities=0%  Similarity=-0.141  Sum_probs=11.9

Q ss_pred             eeeccCCCchhHHHH
Q psy7554          26 LSCLPDSVCPHAHQV   40 (115)
Q Consensus        26 li~GpTasGKS~lai   40 (115)
                      +|.+|||||||..++
T Consensus        11 il~~~tGsGKT~~~~   25 (140)
T d1yksa1          11 VLDFHPGAGKTRRFL   25 (140)
T ss_dssp             EECCCTTSSTTTTHH
T ss_pred             EEEcCCCCChhHHHH
Confidence            489999999994443

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.84  E-value=0.0025  Score=40.98  Aligned_cols=21  Identities=14%  Similarity=-0.088  Sum_probs=18.9

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -++|+|+.+||||+|..+|..
T Consensus         2 kivlvG~~~vGKSsLi~~l~~   22 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKL   22 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999974

>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=95.83  E-value=0.0027  Score=42.40  Aligned_cols=22  Identities=14%  Similarity=-0.014  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      +++|+|+|++|||+|--.|..+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998753

>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=95.70  E-value=0.0015  Score=44.77  Aligned_cols=22  Identities=9%  Similarity=-0.173  Sum_probs=19.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      |.|.|+-|||||+++-.|++.+
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6779999999999999999765

>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=95.45  E-value=0.0049  Score=40.26  Aligned_cols=22  Identities=5%  Similarity=-0.141  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++++|+++||||+|--+|..+
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999744

>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=95.41  E-value=0.0034  Score=46.36  Aligned_cols=18  Identities=6%  Similarity=0.017  Sum_probs=14.5

Q ss_pred             eeeccCCCchhHH--HHHHh
Q psy7554          26 LSCLPDSVCPHAH--QVDLT   43 (115)
Q Consensus        26 li~GpTasGKS~l--ai~LA   43 (115)
                      +|+||+|||||.+  |+.++
T Consensus        29 ~i~G~NGsGKS~ileAi~~~   48 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAISFV   48 (427)
T ss_dssp             EEECSTTSSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHH
Confidence            4889999999998  55544

>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=95.40  E-value=0.0035  Score=40.99  Aligned_cols=23  Identities=13%  Similarity=-0.087  Sum_probs=19.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -++++|+++||||+|-.+|..+.
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~~~   37 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKDDR   37 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSCC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999997654

>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=95.34  E-value=0.0048  Score=45.87  Aligned_cols=31  Identities=13%  Similarity=-0.060  Sum_probs=23.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .|.+++-   |+||+|||||+|..-|+.-+   .|+|
T Consensus        38 ~~Ge~va---ivG~sGsGKSTLl~li~gl~~p~~G~I   71 (251)
T d1jj7a_          38 RPGEVTA---LVGPNGSGKSTVAALLQNLYQPTGGQL   71 (251)
T ss_dssp             CTTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCcHHHHHHHHhcccCCCcCEE
Confidence            5666666   89999999999998887544   3555

>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=95.32  E-value=0.0048  Score=40.72  Aligned_cols=23  Identities=9%  Similarity=-0.088  Sum_probs=19.9

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -++++|+.+||||.|..+|....
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            46899999999999999997643

>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=95.32  E-value=0.0023  Score=45.63  Aligned_cols=22  Identities=9%  Similarity=-0.043  Sum_probs=19.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      |.|.||.|||||+++-.|++.+
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            4567999999999999998865

>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=95.29  E-value=0.002  Score=44.69  Aligned_cols=15  Identities=13%  Similarity=0.175  Sum_probs=12.9

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      +++++|||||||..+
T Consensus        43 ~il~apTGsGKT~~a   57 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLA   57 (202)
T ss_dssp             EEEECSSHHHHHHHH
T ss_pred             EEEEcCCCCchhHHH
Confidence            567999999999765

>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=95.27  E-value=0.0024  Score=44.42  Aligned_cols=22  Identities=0%  Similarity=-0.191  Sum_probs=19.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      |+|-|+.|||||+++-.|++.+
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            4578999999999999999865

>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=95.27  E-value=0.005  Score=41.05  Aligned_cols=22  Identities=14%  Similarity=-0.091  Sum_probs=18.2

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+|+++||||+|..+|....
T Consensus         3 V~liG~~n~GKSsLi~~L~~~~   24 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKKK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC--
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5689999999999999998544

>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=95.22  E-value=0.0052  Score=45.71  Aligned_cols=37  Identities=8%  Similarity=-0.145  Sum_probs=26.3

Q ss_pred             eeeeccCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          10 QVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        10 ~~~~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .|| ++=.+.+++-   |+||+|||||+|+.-|+.-+   .|+|
T Consensus        33 ~is-l~i~~Ge~ia---ivG~sGsGKSTLl~ll~gl~~p~~G~I   72 (253)
T d3b60a1          33 NIN-LKIPAGKTVA---LVGRSGSGKSTIASLITRFYDIDEGHI   72 (253)
T ss_dssp             EEE-EEECTTCEEE---EEECTTSSHHHHHHHHTTTTCCSEEEE
T ss_pred             ceE-EEEcCCCEEE---EECCCCChHHHHHHHHhcccCCCccEE
Confidence            344 2345667666   89999999999988887543   3666

>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=95.22  E-value=0.0055  Score=41.40  Aligned_cols=22  Identities=18%  Similarity=0.080  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++|+|+.+||||+|..++...
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3678999999999999999854

>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=95.17  E-value=0.0054  Score=42.11  Aligned_cols=22  Identities=18%  Similarity=-0.079  Sum_probs=19.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      +|+|+|+.+||||+|-.+|..+
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999998754

>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=95.13  E-value=0.004  Score=44.28  Aligned_cols=24  Identities=13%  Similarity=-0.211  Sum_probs=21.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |.|-|+.|||||+++-.|++.+..
T Consensus         6 I~iEG~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHh
Confidence            467999999999999999998854

>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=95.12  E-value=0.0035  Score=46.69  Aligned_cols=23  Identities=9%  Similarity=-0.181  Sum_probs=20.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+|+.||.|+|||.||..+|+-+
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHHHS
T ss_pred             eEEEECCCCccHHHHHHHHHHhC
Confidence            46789999999999999999755

>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=95.02  E-value=0.0049  Score=43.85  Aligned_cols=25  Identities=20%  Similarity=0.119  Sum_probs=21.7

Q ss_pred             EeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .-++++.||.|+|||.+|+.||+.+
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i   39 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYV   39 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH
Confidence            3478899999999999999999644

>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=94.98  E-value=0.0089  Score=40.41  Aligned_cols=28  Identities=14%  Similarity=0.240  Sum_probs=23.4

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      |.|.+|  -++|+|..+||||+|..++.++
T Consensus         1 ~~p~~i--KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           1 GSPQAI--KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             CCCEEE--EEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCceeE--EEEEECCCCCCHHHHHHHHHhC
Confidence            567775  4689999999999999998864

>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=94.98  E-value=0.0065  Score=39.04  Aligned_cols=22  Identities=18%  Similarity=-0.020  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++|+|..++|||+|-.++..+
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3678999999999999998755

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.95  E-value=0.0066  Score=40.28  Aligned_cols=23  Identities=9%  Similarity=0.042  Sum_probs=19.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+.++|||+|..++..+
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34678999999999999999853

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=94.94  E-value=0.035  Score=40.74  Aligned_cols=31  Identities=3%  Similarity=-0.082  Sum_probs=25.1

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      .+.+++-   |+||.|+|||+|.--|+.-.   .|+|
T Consensus        26 ~~Gei~g---lvG~nGaGKSTLl~~l~G~~~p~~G~i   59 (238)
T d1vpla_          26 EEGEIFG---LIGPNGAGKTTTLRIISTLIKPSSGIV   59 (238)
T ss_dssp             CTTCEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             cCCCEEE---EECCCCCCHHHHHHHHhcCCCCCCCEE
Confidence            5778887   89999999999988888654   3555

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.90  E-value=0.0067  Score=40.53  Aligned_cols=23  Identities=17%  Similarity=0.075  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|+.+||||+|..+|...
T Consensus         6 ~Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           6 FKILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHcC
Confidence            34789999999999999999753

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.85  E-value=0.0071  Score=40.35  Aligned_cols=22  Identities=9%  Similarity=0.061  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..++|||+|..++...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999999843

>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=94.84  E-value=0.0083  Score=44.38  Aligned_cols=27  Identities=4%  Similarity=-0.218  Sum_probs=21.1

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      +=.+.+++-   |+||+|||||+|..-++-
T Consensus        27 ~i~~Ge~~~---iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          27 NIKEGEFVS---IMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EECTTCEEE---EECSTTSSHHHHHHHHTT
T ss_pred             EEcCCCEEE---EECCCCCCcchhhHhccC
Confidence            345667776   899999999999776664

>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=94.83  E-value=0.0081  Score=39.55  Aligned_cols=24  Identities=4%  Similarity=-0.119  Sum_probs=20.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .-++++|..+||||+|..+|...-
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~~   39 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMNE   39 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            357899999999999999998653

>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=94.82  E-value=0.0079  Score=40.64  Aligned_cols=22  Identities=18%  Similarity=0.067  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .++|+|++++|||+|--+|..+
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4678999999999999999754

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=94.79  E-value=0.009  Score=39.57  Aligned_cols=22  Identities=5%  Similarity=-0.155  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+.+||||+|..++..+
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4678999999999999999754

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.77  E-value=0.0077  Score=39.95  Aligned_cols=22  Identities=18%  Similarity=0.135  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..+||||+|..++..+
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999999864

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=94.76  E-value=0.0089  Score=44.52  Aligned_cols=27  Identities=4%  Similarity=-0.074  Sum_probs=21.9

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      .+.+++-   |+||+|||||+|..-|+--.
T Consensus        27 ~~Ge~~~---liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          27 KDGEFMI---LLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             ETTCEEE---EECSTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEE---EECCCCChHHHHHHHHhcCC
Confidence            4567766   89999999999998887543

>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=94.74  E-value=0.0079  Score=39.59  Aligned_cols=21  Identities=10%  Similarity=0.031  Sum_probs=18.9

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|..+||||+|..++...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999854

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.73  E-value=0.013  Score=42.76  Aligned_cols=20  Identities=10%  Similarity=-0.119  Sum_probs=17.6

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++|.|++||||+.+|..|++
T Consensus        26 vlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          26 VLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHH
Confidence            45799999999999999974

>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=94.73  E-value=0.0075  Score=40.49  Aligned_cols=21  Identities=0%  Similarity=-0.164  Sum_probs=18.7

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|+|..|||||+|..++...
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578999999999999998865

>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=94.68  E-value=0.0051  Score=48.50  Aligned_cols=38  Identities=11%  Similarity=-0.180  Sum_probs=23.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCC----------CceEeeccceeeeccCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP----------DLFCRTYQVYLMVYKGL   63 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~----------~~eI~IsaDSmQVYkgl   63 (115)
                      .+++||.|+|||++.-.||+++          +..| ++.|--++-.|+
T Consensus        46 ~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i-~~ld~~~l~ag~   93 (387)
T d1qvra2          46 PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRI-VSLQMGSLLAGA   93 (387)
T ss_dssp             CEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEE-EEECC-------
T ss_pred             CeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceE-EEeeHhhhhccc
Confidence            3569999999999988888642          3456 777776665554

>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=94.67  E-value=0.01  Score=44.69  Aligned_cols=29  Identities=0%  Similarity=-0.210  Sum_probs=23.2

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +=.+.+++-   |+||+|||||+|..-|+.-+
T Consensus        58 ~i~~Ge~va---ivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          58 NIEKGEMLA---ITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EECTTCEEE---EEESTTSSHHHHHHHHHTSS
T ss_pred             EEcCCCEEE---EECCCCChHHHHHHHHhCCC
Confidence            335677766   89999999999998888654

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.64  E-value=0.01  Score=39.37  Aligned_cols=21  Identities=10%  Similarity=0.022  Sum_probs=18.5

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|..++|||+|..++...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998753

>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=94.62  E-value=0.0094  Score=44.52  Aligned_cols=34  Identities=9%  Similarity=0.093  Sum_probs=25.1

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc---CCCceEeeccc
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD---GPDLFCRTYQV   55 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~---~~~~eI~IsaD   55 (115)
                      +.+|..   |.||.|||||.|++.+|.   +.++.+ +..|
T Consensus        53 ~g~ite---i~G~~gsGKTtl~l~~~~~~q~~g~~~-vyid   89 (263)
T d1u94a1          53 MGRIVE---IYGPESSGKTTLTLQVIAAAQREGKTC-AFID   89 (263)
T ss_dssp             TTSEEE---EECSTTSSHHHHHHHHHHHHHHTTCCE-EEEE
T ss_pred             CceEEE---EecCCCcHHHHHHHHHHHHHHcCCCEE-EEEc
Confidence            566777   999999999999999884   334544 4443

>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=94.51  E-value=0.0055  Score=47.54  Aligned_cols=22  Identities=5%  Similarity=-0.120  Sum_probs=19.5

Q ss_pred             eeeccCCCchhHHHHHHhcCCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~~   47 (115)
                      |+.||.|+|||.||..||.+.+
T Consensus       127 l~~G~pG~GKT~la~ala~~~~  148 (321)
T d1w44a_         127 IVTGKGNSGKTPLVHALGEALG  148 (321)
T ss_dssp             EEECSSSSCHHHHHHHHHHHHH
T ss_pred             EEECCCCccHHHHHHHHHHHhc
Confidence            3689999999999999998864

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=94.49  E-value=0.0085  Score=44.40  Aligned_cols=29  Identities=3%  Similarity=-0.105  Sum_probs=23.8

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~   46 (115)
                      +=.+.+++-   |+||+|||||+|..-|+--.
T Consensus        22 ~i~~Ge~~~---liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          22 KVESGEYFV---ILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EECTTCEEE---EECCCTHHHHHHHHHHHTSS
T ss_pred             EECCCCEEE---EECCCCCcHHHHHHHHhcCc
Confidence            346777877   89999999999999988543

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=94.46  E-value=0.0094  Score=44.15  Aligned_cols=20  Identities=10%  Similarity=-0.059  Sum_probs=16.8

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      .|++|.||||||.+++..+.
T Consensus        79 ~LL~GdvGsGKT~V~~~a~~   98 (233)
T d2eyqa3          79 RLVCGDVGFGKTEVAMRAAF   98 (233)
T ss_dssp             EEEECCCCTTTHHHHHHHHH
T ss_pred             eEEEcCCCCCcHHHHHHHHH
Confidence            35799999999999887764

>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=94.42  E-value=0.011  Score=40.04  Aligned_cols=21  Identities=10%  Similarity=-0.054  Sum_probs=18.4

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -+.|+|+++||||+|--.|..
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            367899999999999999974

>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=94.42  E-value=0.01  Score=39.72  Aligned_cols=22  Identities=18%  Similarity=0.176  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+.++|||+|..++...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3778999999999999998744

>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=94.41  E-value=0.01  Score=39.62  Aligned_cols=22  Identities=14%  Similarity=-0.097  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+.|||||+|..++...
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3678999999999999999854

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.38  E-value=0.011  Score=39.26  Aligned_cols=22  Identities=14%  Similarity=0.043  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..++|||+|..++..+
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999998753

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=94.37  E-value=0.0096  Score=44.96  Aligned_cols=18  Identities=11%  Similarity=-0.071  Sum_probs=14.7

Q ss_pred             eeeeccCCCchhHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDL   42 (115)
Q Consensus        25 ~li~GpTasGKS~lai~L   42 (115)
                      ++|+|+||||||.+...+
T Consensus        53 ~~I~G~tGsGKT~~l~~l   70 (433)
T d1e9ra_          53 LLVNGATGTGKSVLLREL   70 (433)
T ss_dssp             EEEEECTTSSHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHH
Confidence            678999999999875443

>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=94.37  E-value=0.012  Score=39.39  Aligned_cols=21  Identities=10%  Similarity=-0.183  Sum_probs=18.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +.++|.++||||+|...|..+
T Consensus         8 I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           8 VAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999999865

>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=94.35  E-value=0.017  Score=38.74  Aligned_cols=23  Identities=4%  Similarity=-0.197  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .-++++|..+||||+|..++...
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34788999999999999998754

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.30  E-value=0.011  Score=39.75  Aligned_cols=22  Identities=9%  Similarity=0.051  Sum_probs=19.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..+||||+|..++...
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999998753

>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=94.30  E-value=0.013  Score=42.66  Aligned_cols=23  Identities=13%  Similarity=0.033  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|.||||||+|.-.|..+
T Consensus        33 l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          33 LTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCcHHHHHHHHhCC
Confidence            45788999999999999988743

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.26  E-value=0.014  Score=38.99  Aligned_cols=22  Identities=14%  Similarity=-0.191  Sum_probs=18.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      ++++|..+||||+|...+....
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEECCCCcCHHHHHHHHhCCc
Confidence            6789999999999999987654

>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=94.26  E-value=0.013  Score=43.59  Aligned_cols=26  Identities=8%  Similarity=-0.147  Sum_probs=20.7

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      =.+.+++-   |+||+|||||+|..-|+-
T Consensus        28 i~~Ge~~~---iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          28 VPAGQIYG---VIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             ECSSCEEE---EEESTTSSHHHHHHHHTT
T ss_pred             EcCCCEEE---EECCCCCCHHHHHHHHcC
Confidence            34556666   899999999999887764

>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=94.25  E-value=0.012  Score=43.87  Aligned_cols=33  Identities=3%  Similarity=-0.250  Sum_probs=25.7

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++-   |+||.|||||+|..-|+--.   .|+|
T Consensus        24 ~i~~GEi~~---iiG~sGsGKSTLl~~i~Gl~~p~~G~I   59 (258)
T d1b0ua_          24 QARAGDVIS---IIGSSGSGKSTFLRCINFLEKPSEGAI   59 (258)
T ss_dssp             EECTTCEEE---EECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEcCCCEEE---EECCCCCcHHHHHHHHHcCccCCCCCE
Confidence            446778877   89999999999999987433   3555

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=94.22  E-value=0.018  Score=38.10  Aligned_cols=29  Identities=21%  Similarity=0.108  Sum_probs=22.3

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +.|++-+ -++++|+.+||||+|..+|..+
T Consensus        11 ~~~~~~~-kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          11 SAPDQEV-RILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SCCSSCE-EEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCCCCEE-EEEEECCCCCCHHHHHHHHhcC
Confidence            3444433 5789999999999999999654

>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=94.19  E-value=0.011  Score=44.20  Aligned_cols=27  Identities=0%  Similarity=-0.397  Sum_probs=20.6

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      =.+.+.+.   |+||+|||||+|..-|+.-
T Consensus        41 i~~Ge~va---ivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          41 IEKGETVA---FVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             ECTTCEEE---EECSTTSSHHHHHTTTTTS
T ss_pred             EcCCCEEE---EECCCCCcHHHHHHHHHhc
Confidence            35666666   8999999999997666543

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.17  E-value=0.013  Score=39.06  Aligned_cols=22  Identities=18%  Similarity=0.146  Sum_probs=19.2

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+.++|||+|..++...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999988754

>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=94.16  E-value=0.013  Score=38.88  Aligned_cols=22  Identities=5%  Similarity=-0.076  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..++|||+|..++...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999998853

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.14  E-value=0.012  Score=39.18  Aligned_cols=22  Identities=14%  Similarity=0.004  Sum_probs=19.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..+||||+|..++...
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999999864

>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=94.14  E-value=0.012  Score=40.00  Aligned_cols=21  Identities=5%  Similarity=-0.156  Sum_probs=18.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|..+||||+|..++..+
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999864

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.11  E-value=0.013  Score=38.64  Aligned_cols=20  Identities=10%  Similarity=-0.134  Sum_probs=18.1

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++++|..+||||+|..++..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999999984

>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=94.09  E-value=0.018  Score=38.14  Aligned_cols=22  Identities=9%  Similarity=-0.044  Sum_probs=19.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~   44 (115)
                      +-++++|+.+||||+|..++..
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHc
Confidence            3478899999999999999874

>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=94.08  E-value=0.0093  Score=44.18  Aligned_cols=33  Identities=12%  Similarity=-0.114  Sum_probs=25.5

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+|+-   |+||.|+|||+|..-|+--+   .|.|
T Consensus        26 ~v~~Gei~~---liG~nGaGKSTLl~~i~Gl~~p~~G~I   61 (254)
T d1g6ha_          26 SVNKGDVTL---IIGPNGSGKSTLINVITGFLKADEGRV   61 (254)
T ss_dssp             EEETTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EECCCCEEE---EECCCCCcHHHHHHHHHCCCcCCCcEE
Confidence            335677777   89999999999999887544   3555

>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=94.07  E-value=0.017  Score=43.03  Aligned_cols=33  Identities=6%  Similarity=-0.148  Sum_probs=25.1

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      +=.+.+++-   |+||.|||||+|..-|+.-.   .|+|
T Consensus        28 ~v~~Ge~~~---liGpsGaGKSTLl~~i~Gl~~p~sG~I   63 (239)
T d1v43a3          28 TIKDGEFLV---LLGPSGCGKTTTLRMIAGLEEPTEGRI   63 (239)
T ss_dssp             EECTTCEEE---EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EECCCCEEE---EECCCCChHHHHHHHHHcCCCCCCCEE
Confidence            335667776   89999999999998887544   3555

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.05  E-value=0.013  Score=39.03  Aligned_cols=21  Identities=5%  Similarity=-0.012  Sum_probs=18.8

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -++++|..+||||+|..++..
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478899999999999999874

>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=93.98  E-value=0.014  Score=38.90  Aligned_cols=21  Identities=5%  Similarity=-0.153  Sum_probs=18.9

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|+.+||||+|..++..+
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998754

>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=93.96  E-value=0.015  Score=38.95  Aligned_cols=21  Identities=10%  Similarity=-0.008  Sum_probs=18.5

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -++++|..+||||+|..++..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            377899999999999999874

>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=93.95  E-value=0.015  Score=38.58  Aligned_cols=21  Identities=5%  Similarity=-0.164  Sum_probs=18.7

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -++++|..++|||+|..++..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999999984

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=93.94  E-value=0.01  Score=42.30  Aligned_cols=13  Identities=8%  Similarity=-0.107  Sum_probs=11.0

Q ss_pred             eeeeccCCCchhH
Q psy7554          25 YLSCLPDSVCPHA   37 (115)
Q Consensus        25 ~li~GpTasGKS~   37 (115)
                      .++.+|||||||.
T Consensus        12 ~lv~~~TGsGKT~   24 (305)
T d2bmfa2          12 TIMDLHPGAGKTK   24 (305)
T ss_dssp             EEECCCTTSSTTT
T ss_pred             EEEEECCCCCHHH
Confidence            4579999999993

>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=93.94  E-value=0.014  Score=38.59  Aligned_cols=21  Identities=10%  Similarity=-0.032  Sum_probs=18.4

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -++|+|+.+||||+|..++..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            467899999999999999874

>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=93.91  E-value=0.015  Score=38.92  Aligned_cols=22  Identities=9%  Similarity=-0.096  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+.+||||+|..++..+
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988653

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=93.89  E-value=0.017  Score=42.53  Aligned_cols=32  Identities=3%  Similarity=-0.223  Sum_probs=25.1

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++-   |+||.|+|||+|..-|+--+   .|+|
T Consensus        29 i~~Gei~~---liGpnGaGKSTl~~~i~Gl~~p~~G~I   63 (240)
T d1ji0a_          29 VPRGQIVT---LIGANGAGKTTTLSAIAGLVRAQKGKI   63 (240)
T ss_dssp             EETTCEEE---EECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             ECCCCEEE---EECCCCCcHHHHHHHHhCCCCCCccEE
Confidence            35677777   89999999999999887544   3555

>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=93.88  E-value=0.012  Score=39.52  Aligned_cols=28  Identities=21%  Similarity=0.133  Sum_probs=22.5

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      |.+++  +-++++|+.+||||+|..++...
T Consensus        13 ~~~k~--~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          13 GSNKE--LRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             TCSSC--EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CCCce--EEEEEECCCCCCHHHHHHHHhcC
Confidence            55554  36789999999999999998644

>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=93.84  E-value=0.019  Score=37.78  Aligned_cols=21  Identities=10%  Similarity=-0.171  Sum_probs=18.2

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      |.|+|.+++|||+|--+|..+
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999743

>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=93.84  E-value=0.016  Score=38.36  Aligned_cols=21  Identities=19%  Similarity=0.172  Sum_probs=18.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|..+||||+|..++..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999998855

>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=93.80  E-value=0.015  Score=38.99  Aligned_cols=23  Identities=4%  Similarity=-0.074  Sum_probs=18.4

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .-++++|+++||||+|..++..+
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35788999999999998888654

>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=93.78  E-value=0.025  Score=37.64  Aligned_cols=22  Identities=5%  Similarity=-0.192  Sum_probs=18.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~   46 (115)
                      +.|+|.+++|||+|.-+|..+-
T Consensus        11 V~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTST
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
Confidence            6789999999999998897543

>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=93.74  E-value=0.014  Score=42.48  Aligned_cols=25  Identities=4%  Similarity=0.062  Sum_probs=21.3

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhc
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~   44 (115)
                      .+.|++-   |+||.|+|||+|..-|+-
T Consensus        23 ~~Gei~~---iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          23 RAGEILH---LVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             ETTCEEE---CBCCTTSSHHHHHHHHHT
T ss_pred             cCCCEEE---EECCCCCcHHHHHHHHhC
Confidence            4677777   899999999999887774

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.73  E-value=0.017  Score=38.19  Aligned_cols=22  Identities=14%  Similarity=0.025  Sum_probs=19.3

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..++|||+|..++..+
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999998864

>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=93.72  E-value=0.016  Score=38.52  Aligned_cols=22  Identities=9%  Similarity=0.046  Sum_probs=19.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..+||||+|..++...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4788999999999999998753

>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=93.72  E-value=0.031  Score=41.80  Aligned_cols=35  Identities=9%  Similarity=0.041  Sum_probs=25.8

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhc---CCCceEeeccce
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTD---GPDLFCRTYQVY   56 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~---~~~~eI~IsaDS   56 (115)
                      ...|..   |.||.+||||.|++.++.   +.++.+ +..|+
T Consensus        56 ~g~ite---i~G~~~sGKT~l~l~~~~~aqk~g~~v-~yiDt   93 (268)
T d1xp8a1          56 RGRITE---IYGPESGGKTTLALAIVAQAQKAGGTC-AFIDA   93 (268)
T ss_dssp             TTSEEE---EEESTTSSHHHHHHHHHHHHHHTTCCE-EEEES
T ss_pred             CceEEE---EecCCccchHHHHHHHHHHHHhCCCEE-EEEEC
Confidence            445665   899999999999988874   446666 55554

>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=93.71  E-value=0.022  Score=38.28  Aligned_cols=23  Identities=9%  Similarity=-0.044  Sum_probs=19.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|..+||||+|...+..+
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999998853

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.68  E-value=0.016  Score=39.39  Aligned_cols=23  Identities=9%  Similarity=0.001  Sum_probs=19.5

Q ss_pred             eeeeeccCCCchhHHHHHHhcCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~   46 (115)
                      -++++|..+||||+|..++..+-
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999987543

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase 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: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=93.65  E-value=0.01  Score=40.89  Aligned_cols=19  Identities=11%  Similarity=-0.067  Sum_probs=14.7

Q ss_pred             eeeeccCCCchhHHHHHHh
Q psy7554          25 YLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA   43 (115)
                      ++++-|||||||..+.-..
T Consensus        43 vlv~apTGsGKT~~~~~~~   61 (206)
T d1oywa2          43 CLVVMPTGGGKSLCYQIPA   61 (206)
T ss_dssp             EEEECSCHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCCcchhhhhh
Confidence            5689999999997754443

>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=93.64  E-value=0.018  Score=38.52  Aligned_cols=21  Identities=10%  Similarity=0.017  Sum_probs=18.5

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      ++++|..+||||+|..++...
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998853

>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=93.59  E-value=0.018  Score=38.09  Aligned_cols=22  Identities=14%  Similarity=0.110  Sum_probs=19.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|+.+||||+|..++...
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3678999999999999999854

>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=93.42  E-value=0.021  Score=42.94  Aligned_cols=36  Identities=8%  Similarity=-0.040  Sum_probs=26.9

Q ss_pred             ceeEeeeeeeccCCCchhHHHHHHh---cCCCceEeeccceee
Q psy7554          19 DQVYLSYLSCLPDSVCPHAHQVDLT---DGPDLFCRTYQVYLM   58 (115)
Q Consensus        19 ~~~~~~~li~GpTasGKS~lai~LA---~~~~~eI~IsaDSmQ   58 (115)
                      ..|..   |.||.+||||.|++.+|   ++.++.+ +..|+=.
T Consensus        60 g~i~e---~~G~~~~GKT~l~l~~~~~~q~~g~~~-vyIDtE~   98 (269)
T d1mo6a1          60 GRVIE---IYGPESSGKTTVALHAVANAQAAGGVA-AFIDAEH   98 (269)
T ss_dssp             SSEEE---EECSSSSSHHHHHHHHHHHHHHTTCEE-EEEESSC
T ss_pred             ceeEE---EecCCCcHHHHHHHHHHHHHhcCCCEE-EEEECCc
Confidence            45555   89999999999998887   4456766 6666543

>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=93.41  E-value=0.0099  Score=38.69  Aligned_cols=22  Identities=14%  Similarity=-0.014  Sum_probs=18.9

Q ss_pred             eeeeeeccCCCchhHHHHHHhc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~   44 (115)
                      |-+.++|.+++|||+|..+|..
T Consensus         1 ikI~liG~~n~GKSSLin~l~g   22 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLN   22 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3577899999999999999864

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.40  E-value=0.025  Score=37.38  Aligned_cols=23  Identities=4%  Similarity=-0.006  Sum_probs=19.7

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|..++|||+|..++..+
T Consensus         4 iKi~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           4 IKLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            45788999999999999988754

>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=93.37  E-value=0.015  Score=43.45  Aligned_cols=32  Identities=3%  Similarity=-0.254  Sum_probs=24.4

Q ss_pred             CCCceeEeeeeeeccCCCchhHHHHHHhcCC---CceE
Q psy7554          16 GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        16 ~~~~~~~~~~li~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      =.+.+++-   |+||+|||||+|..-|+--.   .|+|
T Consensus        28 i~~Ge~~~---iiG~sGsGKSTll~~i~gl~~p~~G~I   62 (242)
T d1oxxk2          28 IENGERFG---ILGPSGAGKTTFMRIIAGLDVPSTGEL   62 (242)
T ss_dssp             ECTTCEEE---EECSCHHHHHHHHHHHHTSSCCSEEEE
T ss_pred             ECCCCEEE---EECCCCCcHHHHHHHHHcCcCCCCceE
Confidence            34567776   89999999999999888533   3555

>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=93.35  E-value=0.015  Score=38.02  Aligned_cols=29  Identities=10%  Similarity=-0.001  Sum_probs=22.0

Q ss_pred             CCceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          17 TPDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        17 ~~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      .|+.=-.-|.|+|.+.+|||+|...|..+
T Consensus        11 ~p~~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          11 LPSDTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34443445788999999999999888654

>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=93.30  E-value=0.029  Score=40.93  Aligned_cols=35  Identities=3%  Similarity=-0.260  Sum_probs=23.1

Q ss_pred             eeeeccCCCchhHHHHHHhc-----CCCceEeeccceeeecc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD-----GPDLFCRTYQVYLMVYK   61 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~-----~~~~eI~IsaDSmQVYk   61 (115)
                      .+|+||.++|||.+...+|.     +.++ . +-|+++.+.=
T Consensus        44 ~iiTGpN~~GKSt~lk~i~l~~~laq~G~-~-VpA~~a~~~~   83 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTALIALMAYIGS-Y-VPAQKVEIGP   83 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHHTTTC-C-BSSSEEEECC
T ss_pred             EEEeccCchhhHHHHHHHHHHHHHHHcCC-e-EecCceeccc
Confidence            57999999999977555442     2233 3 4577776643

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.14  E-value=0.023  Score=42.31  Aligned_cols=24  Identities=4%  Similarity=-0.296  Sum_probs=19.9

Q ss_pred             eeccCCCchhHHHHHHhcCC---CceE
Q psy7554          27 SCLPDSVCPHAHQVDLTDGP---DLFC   50 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~~---~~eI   50 (115)
                      |.||.|||||+|..-|+--.   .|.|
T Consensus        29 liGpnGaGKSTll~~i~Gl~~p~~G~I   55 (240)
T d2onka1          29 LLGPTGAGKSVFLELIAGIVKPDRGEV   55 (240)
T ss_dssp             EECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EECCCCChHHHHHHHHHcCCCCCceEE
Confidence            68999999999999998654   4666

>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=93.10  E-value=0.019  Score=38.35  Aligned_cols=21  Identities=5%  Similarity=-0.230  Sum_probs=18.0

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +-|+|.++||||+|...|...
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999743

>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=92.95  E-value=0.024  Score=40.45  Aligned_cols=18  Identities=6%  Similarity=-0.012  Sum_probs=15.0

Q ss_pred             eeeccCCCchhHH--HHHHh
Q psy7554          26 LSCLPDSVCPHAH--QVDLT   43 (115)
Q Consensus        26 li~GpTasGKS~l--ai~LA   43 (115)
                      +|+||.|||||.+  |+.++
T Consensus        28 vlvG~NgsGKS~iL~Ai~~~   47 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAIKWV   47 (308)
T ss_dssp             EEECCTTTCSTHHHHHHHHT
T ss_pred             EEECCCCCcHHHHHHHHHHH
Confidence            5899999999999  56554

>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=92.92  E-value=0.025  Score=37.44  Aligned_cols=22  Identities=5%  Similarity=-0.227  Sum_probs=19.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -+++.|..|||||.|-.++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3688999999999999998754

>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=92.91  E-value=0.027  Score=39.88  Aligned_cols=18  Identities=6%  Similarity=-0.182  Sum_probs=14.6

Q ss_pred             eeeeccCCCchhHHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDL   42 (115)
Q Consensus        25 ~li~GpTasGKS~lai~L   42 (115)
                      ++|.||-|||||..+++.
T Consensus        17 ~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             EEECCCTTSCHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHH
Confidence            458999999999876653

>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=92.84  E-value=0.027  Score=38.42  Aligned_cols=23  Identities=13%  Similarity=0.088  Sum_probs=19.8

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++|+|+.+||||+|...+...
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHhhC
Confidence            34789999999999999998854

>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=92.76  E-value=0.03  Score=37.35  Aligned_cols=19  Identities=5%  Similarity=-0.118  Sum_probs=17.3

Q ss_pred             eeeeeccCCCchhHHHHHH
Q psy7554          24 SYLSCLPDSVCPHAHQVDL   42 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~L   42 (115)
                      -++++|..+||||.|..++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4788999999999999888

>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=92.51  E-value=0.14  Score=39.02  Aligned_cols=81  Identities=2%  Similarity=-0.171  Sum_probs=38.0

Q ss_pred             eeeeccCCCchhHHHHHHhcC-----CCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeecccCCCCc-cCHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG-----PDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTR-FTVVDYR   98 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~-----~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid~ldp~e~-ySv~~F~   98 (115)
                      +=|+||+|+|||+|--+|++.     ...-+ +..|--.-+.+-.|.-.+....+...-++-++-...-... =-+....
T Consensus        57 IgitG~pGaGKSTLi~~l~~~~~~~g~~vav-lavDpss~~~ggailgdr~rm~~~~~~~~~~ir~~~~~g~lgg~~~~~  135 (327)
T d2p67a1          57 LGVTGTPGAGKSTFLEAFGMLLIREGLKVAV-IAVDPSSPVTGGSILGDKTRMNDLARAEAAFIRPVPSSGHLGGASQRA  135 (327)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEE-EEECCC---------------CTTTTCTTEEEEEECC-----CHHHHH
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHHhcCCceee-ecCCCceeeeccccccchhHHHHhcccccccccccccccccccchhhh
Confidence            347999999999999888854     34456 7788777777777776666555544444444433332211 1233444


Q ss_pred             HHHHHHHh
Q psy7554          99 NRALKHTG  106 (115)
Q Consensus        99 ~~A~~~I~  106 (115)
                      .++...++
T Consensus       136 ~~~~~~~~  143 (327)
T d2p67a1         136 RELMLLCE  143 (327)
T ss_dssp             HHHHHHHH
T ss_pred             hHHHHHHH
Confidence            44444444

>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=92.45  E-value=0.02  Score=38.23  Aligned_cols=22  Identities=9%  Similarity=0.006  Sum_probs=8.8

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      -++++|..+||||+|.-+|...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999888853

>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=92.37  E-value=0.03  Score=37.17  Aligned_cols=25  Identities=16%  Similarity=0.036  Sum_probs=21.0

Q ss_pred             eeeeeeccCCCchhHHHHHHhcCCC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      +-++++|+-+||||+|-.++.....
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~~~~   37 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKLGQS   37 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTCCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3478899999999999999986553

>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=92.21  E-value=0.049  Score=39.54  Aligned_cols=41  Identities=7%  Similarity=-0.229  Sum_probs=25.5

Q ss_pred             eeeeccCCCchhHHHHHHhc-----CCCceEeeccceeeeccCCceec
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD-----GPDLFCRTYQVYLMVYKGLDVIT   67 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~-----~~~~eI~IsaDSmQVYkgldIgT   67 (115)
                      .+|+||.++|||.+-..+|.     +.++ . +-|+++++.--=.|-|
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l~~ilAq~G~-~-vpA~~~~i~~~d~I~~   83 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTALIALLAQVGS-F-VPAEEAHLPLFDGIYT   83 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHHHHHHHTTTC-C-BSSSEEEECCCSEEEE
T ss_pred             EEEECCCccccchhhhhhHHHHHHHhccc-e-eecCceEEeecceEEE
Confidence            67999999999977444432     2233 3 5678877643323433

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.15  E-value=0.034  Score=41.71  Aligned_cols=20  Identities=5%  Similarity=-0.368  Sum_probs=16.8

Q ss_pred             eeeeeccCCCchhHHHHHHh
Q psy7554          24 SYLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA   43 (115)
                      ..|+.|-||||||.+++..+
T Consensus       106 ~rLL~GdvGSGKT~Va~~a~  125 (264)
T d1gm5a3         106 NRLLQGDVGSGKTVVAQLAI  125 (264)
T ss_dssp             CCEEECCSSSSHHHHHHHHH
T ss_pred             eeeeeccccccccHHHHHHH
Confidence            35689999999999887766

>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=92.13  E-value=0.024  Score=37.86  Aligned_cols=21  Identities=10%  Similarity=-0.254  Sum_probs=17.8

Q ss_pred             eeeeccCCCchhHHHHHHhcC
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~   45 (115)
                      +-|+|++++|||+|-..|...
T Consensus         4 VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEEE
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999643

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=92.08  E-value=0.046  Score=38.34  Aligned_cols=22  Identities=5%  Similarity=-0.209  Sum_probs=20.3

Q ss_pred             eeccCCCchhHHHHHHhcCCCc
Q psy7554          27 SCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~~~~   48 (115)
                      +.|+=|+|||.++..+++.++.
T Consensus        38 L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          38 LNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EECSTTSSHHHHHHHHHHHTTC
T ss_pred             EecCCCccHHHHHHHHHhhccc
Confidence            5999999999999999999865

>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=91.94  E-value=0.05  Score=40.40  Aligned_cols=36  Identities=6%  Similarity=-0.046  Sum_probs=28.5

Q ss_pred             ecc-CCCceeEeeeeeeccCCCchhHHHHHHhcCCCceE
Q psy7554          13 LLT-GTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFC   50 (115)
Q Consensus        13 ~~~-~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI   50 (115)
                      .|+ ++|+|..+  ++.||.++|||.++-.|++-++...
T Consensus        96 ~L~~~~~k~n~~--~l~G~~~tGKS~f~~~i~~~lg~~~  132 (267)
T d1u0ja_          96 WATKKFGKRNTI--WLFGPATTGKTNIAEAIAHTVPFYG  132 (267)
T ss_dssp             HHTTCSTTCCEE--EEECSTTSSHHHHHHHHHHHSSCEE
T ss_pred             HHcCCCCccEEE--EEEcCCCCCHHHHHHHHHHHhcchh
Confidence            355 44887655  6789999999999999999996554

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=91.89  E-value=0.052  Score=39.98  Aligned_cols=21  Identities=10%  Similarity=-0.083  Sum_probs=17.9

Q ss_pred             eeeccCCCchhHHHHHHhcCC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP   46 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~   46 (115)
                      +++|++|+|||+|--.|..+.
T Consensus        99 ~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          99 TMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             EEECSTTSSHHHHHHHHSTTC
T ss_pred             EEECCCCCCHHHHHHhhcchh
Confidence            469999999999999997543

>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=91.71  E-value=0.045  Score=38.42  Aligned_cols=19  Identities=5%  Similarity=-0.146  Sum_probs=17.3

Q ss_pred             eeeeccCCCchhHHHHHHh
Q psy7554          25 YLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA   43 (115)
                      +|++|+.|||||.|-.++.
T Consensus         9 illlG~~~vGKTsll~~~~   27 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMR   27 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6789999999999998885

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=91.69  E-value=0.021  Score=39.37  Aligned_cols=14  Identities=7%  Similarity=-0.088  Sum_probs=11.9

Q ss_pred             eeeeeccCCCchhH
Q psy7554          24 SYLSCLPDSVCPHA   37 (115)
Q Consensus        24 ~~li~GpTasGKS~   37 (115)
                      .+++..|||||||.
T Consensus        40 dvii~a~TGSGKTl   53 (209)
T d1q0ua_          40 SMVGQSQTGTGKTH   53 (209)
T ss_dssp             CEEEECCSSHHHHH
T ss_pred             CeEeecccccccce
Confidence            36679999999995

>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=91.67  E-value=0.048  Score=36.37  Aligned_cols=22  Identities=23%  Similarity=0.144  Sum_probs=19.2

Q ss_pred             eeeeeeccCCCchhHHHHHHhc
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~   44 (115)
                      +-++++|..++|||+|..++..
T Consensus         8 iKi~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           8 LKILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3488999999999999999874

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.55  E-value=0.046  Score=37.98  Aligned_cols=15  Identities=7%  Similarity=-0.015  Sum_probs=12.3

Q ss_pred             eeeeccCCCchhHHHH
Q psy7554          25 YLSCLPDSVCPHAHQV   40 (115)
Q Consensus        25 ~li~GpTasGKS~lai   40 (115)
                      +++.+||||||| +|.
T Consensus        41 vi~~a~tGsGKT-lay   55 (206)
T d1s2ma1          41 ILARAKNGTGKT-AAF   55 (206)
T ss_dssp             EEEECCTTSCHH-HHH
T ss_pred             EEEecCCcchhh-hhh
Confidence            677999999999 444

>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=91.53  E-value=0.05  Score=38.79  Aligned_cols=24  Identities=4%  Similarity=-0.287  Sum_probs=19.9

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      ++|+|.-|||||+|-.+|.+...+
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~~~   29 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQHG   29 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSCCC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcCCC
Confidence            349999999999999998876543

>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=91.45  E-value=0.05  Score=36.90  Aligned_cols=23  Identities=9%  Similarity=-0.145  Sum_probs=19.6

Q ss_pred             eeeeeeccCCCchhHHHHHHhcC
Q psy7554          23 LSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        23 ~~~li~GpTasGKS~lai~LA~~   45 (115)
                      +-++++|..+||||+|..++...
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999988754

>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=91.45  E-value=0.049  Score=39.07  Aligned_cols=17  Identities=6%  Similarity=-0.175  Sum_probs=14.4

Q ss_pred             eeeeccCCCchhHHHHH
Q psy7554          25 YLSCLPDSVCPHAHQVD   41 (115)
Q Consensus        25 ~li~GpTasGKS~lai~   41 (115)
                      ++|.||-|||||..+++
T Consensus        27 ~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             EEEEECTTSCHHHHHHH
T ss_pred             EEEEecCCccHHHHHHH
Confidence            56899999999988765

>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=91.38  E-value=0.09  Score=37.01  Aligned_cols=29  Identities=3%  Similarity=-0.193  Sum_probs=21.5

Q ss_pred             eeeccCCCchhHHHHHHhcCC-----CceEeeccc
Q psy7554          26 LSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQV   55 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~~-----~~eI~IsaD   55 (115)
                      +++|-=|+|||++|..||..+     ..-+ |.+|
T Consensus        12 ~~sGKGGVGKTTvaa~lA~~lA~~G~rVLl-vD~D   45 (296)
T d1ihua1          12 FFTGKGGVGKTSISCATAIRLAEQGKRVLL-VSTD   45 (296)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTTCCEEE-EECC
T ss_pred             EEECCCcChHHHHHHHHHHHHHHCCCCEEE-EeCC
Confidence            359999999999776666433     3446 8999

>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=91.26  E-value=0.057  Score=35.41  Aligned_cols=21  Identities=5%  Similarity=-0.186  Sum_probs=18.1

Q ss_pred             eeeeeccCCCchhHHHHHHhc
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~   44 (115)
                      -+++.|..|||||.|-.++-.
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            368899999999999988853

>d1kjwa2 c.37.1.1 (A:526-724) Guanylate kinase-like domain of Psd-95 {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Psd-95
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.91  E-value=0.085  Score=36.98  Aligned_cols=54  Identities=13%  Similarity=0.005  Sum_probs=39.3

Q ss_pred             cCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCceecCCCCHHHhcCCCeeeec
Q psy7554          15 TGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDVITNKVTPEEAEGIPHHLLD   84 (115)
Q Consensus        15 ~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~~IpHHLid   84 (115)
                      ++.+.-|++    +||   ||+.+.-+|.+.+....         .....-.|-+|-..|..++.||++.
T Consensus         6 ~~~~Rpivi----~Gp---~K~ti~~~L~~~~p~~f---------~~~is~TTR~~R~~E~dG~dY~Fv~   59 (199)
T d1kjwa2           6 VHYARPIII----LGP---TKDRANDDLLSEFPDKF---------GSCVPHTTRPKREYEIDGRDYHFVS   59 (199)
T ss_dssp             CCSCCCEEE----EST---THHHHHHHHHHHCTTTE---------ECCCCEECSCCCTTCCBTTTBEECS
T ss_pred             CCCCCCEEE----ECc---CHHHHHHHHHHhCccce---------eecccccccCCCCCCCCCcccchhh
Confidence            334444554    798   69999999998765422         2345667778888899999999985

>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=90.87  E-value=0.057  Score=39.39  Aligned_cols=20  Identities=0%  Similarity=-0.243  Sum_probs=17.6

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      +.|.|+-|+|||+||..+.+
T Consensus        47 v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          47 LFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56899999999999988864

>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=90.81  E-value=0.052  Score=41.88  Aligned_cols=24  Identities=8%  Similarity=-0.172  Sum_probs=18.7

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |.|-|+-|||||+++..|++.++.
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~~   30 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGSR   30 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC----
T ss_pred             EEEECCcCCCHHHHHHHHHHHhCC
Confidence            567999999999999999998754

>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=90.80  E-value=0.051  Score=41.84  Aligned_cols=24  Identities=0%  Similarity=-0.204  Sum_probs=21.1

Q ss_pred             eeeeeccCCCchhHHHHHHhcCCC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~~~   47 (115)
                      -|.|-|+-|||||+++-.|++.++
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             EEEEECCccCCHHHHHHHHHHHhc
Confidence            466799999999999999999864

>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=90.54  E-value=0.082  Score=39.35  Aligned_cols=51  Identities=10%  Similarity=-0.063  Sum_probs=32.8

Q ss_pred             eccCCCceeEeeeeeeccCCCchhHHHHHHhcCCCceEeeccceeeeccCCce
Q psy7554          13 LLTGTPDQVYLSYLSCLPDSVCPHAHQVDLTDGPDLFCRTYQVYLMVYKGLDV   65 (115)
Q Consensus        13 ~~~~~~~~~~~~~li~GpTasGKS~lai~LA~~~~~eI~IsaDSmQVYkgldI   65 (115)
                      .|...+.-|.. +-|+||+.||||.|.-.|+....+.= ++.-..+..+|+-+
T Consensus        24 ~l~~~~~~v~v-vsi~G~~~sGKS~llN~l~~~~~~f~-~~~~~~~~T~Giw~   74 (277)
T d1f5na2          24 ILSAITQPMVV-VAIVGLYRTGKSYLMNKLAGKKKGFS-LGSTVQSHTKGIWM   74 (277)
T ss_dssp             HHHTCCSBEEE-EEEEEBTTSSHHHHHHHHTTCSSCSC-CCCSSSCCCCSEEE
T ss_pred             HHHcCCCCEEE-EEEECCCCCCHHHHHHHHcCCCCCCc-cCCCCCCCCCceEE
Confidence            34444444543 55799999999999999997765543 34334444555433

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=90.28  E-value=0.071  Score=40.97  Aligned_cols=24  Identities=0%  Similarity=-0.184  Sum_probs=21.3

Q ss_pred             eeeeccCCCchhHHHHHHhcCCCc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGPDL   48 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~~~   48 (115)
                      |.|-|+-|||||+++..|++.++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            567999999999999999998753

>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=89.44  E-value=0.04  Score=40.82  Aligned_cols=21  Identities=5%  Similarity=-0.151  Sum_probs=16.6

Q ss_pred             eeccCCCchhHHHHHHhcCCC
Q psy7554          27 SCLPDSVCPHAHQVDLTDGPD   47 (115)
Q Consensus        27 i~GpTasGKS~lai~LA~~~~   47 (115)
                      ++|++|+|||+|--.|..+.+
T Consensus       102 l~G~SGVGKSSLiN~L~~~~~  122 (231)
T d1t9ha2         102 FAGQSGVGKSSLLNAISPELG  122 (231)
T ss_dssp             EEESHHHHHHHHHHHHCC---
T ss_pred             EECCCCccHHHHHHhhccHhH
Confidence            689999999999999986653

>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=88.67  E-value=0.15  Score=38.64  Aligned_cols=51  Identities=10%  Similarity=-0.104  Sum_probs=33.5

Q ss_pred             eeeeccCCCchhHHHHHHhc-----CCCceEeeccceeeeccCCceecCCCCHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD-----GPDLFCRTYQVYLMVYKGLDVITNKVTPEEAE   76 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~-----~~~~eI~IsaDSmQVYkgldIgTAKPs~eE~~   76 (115)
                      +=|+||.|+|||+|--+|++     +...-| |..|--.=+-+=.|.-.+.-..+..
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaV-iavDpss~~~gg~llgdr~rm~~~~  109 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAV-LAVDPSSTRTGGSILGDKTRMARLA  109 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEE-EEECGGGGSSCCCSSCCGGGSTTGG
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceee-eecccccHHHHhccccchhhHHHHh
Confidence            45799999999999888774     445566 7777655555555554444343433

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=87.90  E-value=0.1  Score=38.38  Aligned_cols=20  Identities=25%  Similarity=0.129  Sum_probs=15.7

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      -++.-|||+|||-.+..+++
T Consensus       131 ~il~~pTGsGKT~i~~~i~~  150 (282)
T d1rifa_         131 RILNLPTSAGRSLIQALLAR  150 (282)
T ss_dssp             EEECCCTTSCHHHHHHHHHH
T ss_pred             ceeEEEcccCccHHHHHHHH
Confidence            35678999999988777763

>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=87.81  E-value=0.25  Score=34.65  Aligned_cols=31  Identities=10%  Similarity=-0.095  Sum_probs=22.4

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccce
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQVY   56 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaDS   56 (115)
                      ++++|-=|+|||++|..||..+     ..-+ |-+|.
T Consensus        23 ii~sGKGGVGKTT~a~nLA~~lA~~G~rVll-vD~Dp   58 (279)
T d1ihua2          23 IMLMGKGGVGKTTMAAAIAVRLADMGFDVHL-TTSDP   58 (279)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEE-EESCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEE-EeCCC
Confidence            3568999999999877776433     4445 88884

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.35  E-value=0.1  Score=36.50  Aligned_cols=13  Identities=15%  Similarity=0.023  Sum_probs=11.2

Q ss_pred             eeeeccCCCchhH
Q psy7554          25 YLSCLPDSVCPHA   37 (115)
Q Consensus        25 ~li~GpTasGKS~   37 (115)
                      +++..|||||||.
T Consensus        41 vl~~A~TGsGKTl   53 (207)
T d1t6na_          41 VLCQAKSGMGKTA   53 (207)
T ss_dssp             EEEECCTTSCHHH
T ss_pred             eEEEecccccccc
Confidence            5679999999993

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.27  E-value=0.1  Score=36.92  Aligned_cols=13  Identities=8%  Similarity=-0.013  Sum_probs=11.5

Q ss_pred             eeeeccCCCchhH
Q psy7554          25 YLSCLPDSVCPHA   37 (115)
Q Consensus        25 ~li~GpTasGKS~   37 (115)
                      +++..|||||||.
T Consensus        52 vl~~a~TGsGKTl   64 (218)
T d2g9na1          52 VIAQAQSGTGKTA   64 (218)
T ss_dssp             EEEECCTTSSHHH
T ss_pred             EEEEcccchhhhh
Confidence            6689999999994

>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=87.06  E-value=0.15  Score=39.01  Aligned_cols=16  Identities=0%  Similarity=-0.199  Sum_probs=13.3

Q ss_pred             eeeccCCCchhHHHHH
Q psy7554          26 LSCLPDSVCPHAHQVD   41 (115)
Q Consensus        26 li~GpTasGKS~lai~   41 (115)
                      +|.||.|+|||.+...
T Consensus       167 vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         167 VISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEECCTTSTHHHHHHH
T ss_pred             EEEcCCCCCceehHHH
Confidence            4899999999987643

>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=87.04  E-value=0.17  Score=39.02  Aligned_cols=22  Identities=9%  Similarity=-0.112  Sum_probs=19.0

Q ss_pred             EeeeeeeccCCCchhHHHHHHh
Q psy7554          22 YLSYLSCLPDSVCPHAHQVDLT   43 (115)
Q Consensus        22 ~~~~li~GpTasGKS~lai~LA   43 (115)
                      -+-|.|+|.|++|||+|-..|-
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~   77 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLR   77 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHh
Confidence            3568899999999999988885

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.91  E-value=0.11  Score=36.18  Aligned_cols=12  Identities=8%  Similarity=0.008  Sum_probs=11.0

Q ss_pred             eeeeccCCCchh
Q psy7554          25 YLSCLPDSVCPH   36 (115)
Q Consensus        25 ~li~GpTasGKS   36 (115)
                      +++..|||||||
T Consensus        43 vl~~a~TGsGKT   54 (206)
T d1veca_          43 ILARAKNGTGKS   54 (206)
T ss_dssp             EEEECCSSSTTH
T ss_pred             EEeeccCccccc
Confidence            667999999999

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=85.98  E-value=0.2  Score=34.70  Aligned_cols=15  Identities=7%  Similarity=-0.135  Sum_probs=12.2

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      +++..|||||||...
T Consensus        45 ~iv~a~TGsGKT~~~   59 (208)
T d1hv8a1          45 IVAQARTGSGKTASF   59 (208)
T ss_dssp             EEEECCSSSSHHHHH
T ss_pred             eeeechhccccccee
Confidence            567899999999654

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.93  E-value=0.18  Score=35.44  Aligned_cols=14  Identities=7%  Similarity=-0.035  Sum_probs=11.7

Q ss_pred             eeeeccCCCchhHH
Q psy7554          25 YLSCLPDSVCPHAH   38 (115)
Q Consensus        25 ~li~GpTasGKS~l   38 (115)
                      +++..|||||||..
T Consensus        50 vl~~a~TGsGKT~a   63 (212)
T d1qdea_          50 VLAQAQSGTGKTGT   63 (212)
T ss_dssp             EEEECCTTSSHHHH
T ss_pred             EEeecccccchhhh
Confidence            56799999999953

>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=85.85  E-value=0.29  Score=32.70  Aligned_cols=22  Identities=9%  Similarity=-0.312  Sum_probs=19.0

Q ss_pred             eeeeeccCCCchhHHHHHHhcC
Q psy7554          24 SYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        24 ~~li~GpTasGKS~lai~LA~~   45 (115)
                      .+-|+|.+.+|||+|.-+|.+.
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            4668999999999999999853

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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 VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=84.47  E-value=0.17  Score=36.09  Aligned_cols=13  Identities=15%  Similarity=0.314  Sum_probs=11.4

Q ss_pred             eeeeccCCCchhH
Q psy7554          25 YLSCLPDSVCPHA   37 (115)
Q Consensus        25 ~li~GpTasGKS~   37 (115)
                      +++..|||||||.
T Consensus        61 vvi~a~TGsGKTl   73 (238)
T d1wrba1          61 IMACAQTGSGKTA   73 (238)
T ss_dssp             EEEECCTTSSHHH
T ss_pred             EEEECCCCCCcce
Confidence            5679999999994

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.45  E-value=0.17  Score=36.00  Aligned_cols=13  Identities=8%  Similarity=-0.036  Sum_probs=11.4

Q ss_pred             eeeeccCCCchhH
Q psy7554          25 YLSCLPDSVCPHA   37 (115)
Q Consensus        25 ~li~GpTasGKS~   37 (115)
                      +++..|||||||.
T Consensus        57 vi~~a~TGSGKTl   69 (222)
T d2j0sa1          57 VIAQSQSGTGKTA   69 (222)
T ss_dssp             EEEECCTTSSHHH
T ss_pred             eEEEcCcchhhhh
Confidence            6679999999994

>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=84.29  E-value=0.37  Score=32.44  Aligned_cols=29  Identities=3%  Similarity=-0.098  Sum_probs=20.2

Q ss_pred             eccCCCchhHHHHHHhcCC-----CceEeecccee
Q psy7554          28 CLPDSVCPHAHQVDLTDGP-----DLFCRTYQVYL   57 (115)
Q Consensus        28 ~GpTasGKS~lai~LA~~~-----~~eI~IsaDSm   57 (115)
                      .+--|+|||.+|..||..+     ..-+ |-+|..
T Consensus         9 ~~kGGvGKTtia~nLA~~la~~g~~Vll-iD~D~~   42 (237)
T d1g3qa_           9 SGKGGTGKTTVTANLSVALGDRGRKVLA-VDGDLT   42 (237)
T ss_dssp             CSSTTSSHHHHHHHHHHHHHHTTCCEEE-EECCTT
T ss_pred             CCCCCCcHHHHHHHHHHHHHhCCCCEEE-EeCCCC
Confidence            4668999999998888433     3345 666643

>d1bg2a_ c.37.1.9 (A:) Kinesin {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: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.63  E-value=0.18  Score=37.46  Aligned_cols=23  Identities=13%  Similarity=0.147  Sum_probs=16.3

Q ss_pred             eccCCCceeEeeeeeeccCCCchhHHH
Q psy7554          13 LLTGTPDQVYLSYLSCLPDSVCPHAHQ   39 (115)
Q Consensus        13 ~~~~~~~~~~~~~li~GpTasGKS~la   39 (115)
                      ++-|.+--|+    ..|+||||||..-
T Consensus        71 ~l~G~n~~i~----aYGqtgSGKTyT~   93 (323)
T d1bg2a_          71 VLEGYNGTIF----AYGQTSSGKTHTM   93 (323)
T ss_dssp             HHTTCCEEEE----EECSTTSSHHHHH
T ss_pred             HHcCCCccee----eecccCCCCceec
Confidence            4556655444    5999999999653

>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=83.14  E-value=0.47  Score=36.51  Aligned_cols=29  Identities=17%  Similarity=0.147  Sum_probs=22.9

Q ss_pred             ceeeeeccCCCceeEeeeeeeccCCCchhHHHHH
Q psy7554           8 HYQVNLLTGTPDQVYLSYLSCLPDSVCPHAHQVD   41 (115)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~li~GpTasGKS~lai~   41 (115)
                      |-..|.  |..+.|-+   +.|-.|+|||+|+.+
T Consensus         5 hcsan~--~~~~~~al---fFGLSGTGKTTLs~d   33 (313)
T d2olra1           5 HCSANV--GEKGDVAV---FFGLSGTGKTTLSTD   33 (313)
T ss_dssp             CEEEEE--CTTSCEEE---EECSTTSSHHHHHCC
T ss_pred             eccccc--CCCCCEEE---EEccCCCCcccceeC
Confidence            666675  66677765   899999999999854

>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=81.99  E-value=0.61  Score=32.59  Aligned_cols=30  Identities=10%  Similarity=-0.013  Sum_probs=21.5

Q ss_pred             eeeeccCCCchhHHHHHHhcCC-----CceEeeccc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTDGP-----DLFCRTYQV   55 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~~~-----~~eI~IsaD   55 (115)
                      |-|+|-=|+|||++|+.||..+     ..-+ |=+|
T Consensus         4 Iai~gKGGvGKTT~a~nLA~~LA~~G~rVll-ID~D   38 (269)
T d1cp2a_           4 VAIYGKGGIGKSTTTQNLTSGLHAMGKTIMV-VGCD   38 (269)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTTTCCEEE-EEEC
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHhCCCcEEE-EecC
Confidence            4468999999999988877432     3345 6666

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.95  E-value=0.4  Score=34.19  Aligned_cols=20  Identities=5%  Similarity=-0.140  Sum_probs=17.7

Q ss_pred             eeeeccCCCchhHHHHHHhc
Q psy7554          25 YLSCLPDSVCPHAHQVDLTD   44 (115)
Q Consensus        25 ~li~GpTasGKS~lai~LA~   44 (115)
                      ++++|...+|||+|.-.|..
T Consensus        29 ivvvG~~SsGKSsliNaLlg   48 (299)
T d2akab1          29 IAVVGGQSAGKSSVLENFVG   48 (299)
T ss_dssp             EEEEEBTTSCHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHhC
Confidence            56799999999999999974

>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=81.54  E-value=0.28  Score=36.59  Aligned_cols=15  Identities=0%  Similarity=-0.208  Sum_probs=11.8

Q ss_pred             eeeeccCCCchhHHH
Q psy7554          25 YLSCLPDSVCPHAHQ   39 (115)
Q Consensus        25 ~li~GpTasGKS~la   39 (115)
                      ++..|.||||||.--
T Consensus        88 i~aYGqTGSGKTyTm  102 (330)
T d1ry6a_          88 CFAYGQTGSGKTYTM  102 (330)
T ss_dssp             EEEECCTTSSHHHHH
T ss_pred             EEeeeccccccceee
Confidence            445899999999653

>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=81.49  E-value=0.24  Score=33.52  Aligned_cols=27  Identities=15%  Similarity=0.106  Sum_probs=20.5

Q ss_pred             CceeEeeeeeeccCCCchhHHHHHHhcC
Q psy7554          18 PDQVYLSYLSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        18 ~~~~~~~~li~GpTasGKS~lai~LA~~   45 (115)
                      ++|=|- +++.|-.+||||.+|..|-..
T Consensus         3 ~kqgf~-i~~tg~~~~gk~~ia~al~~~   29 (122)
T d1g8fa3           3 PKQGFS-IVLGNSLTVSREQLSIALLST   29 (122)
T ss_dssp             GGCCEE-EEECTTCCSCHHHHHHHHHHH
T ss_pred             CccceE-EEEeCCCCCCHHHHHHHHHHH
Confidence            344443 677999999999999888643

>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=81.38  E-value=0.36  Score=36.54  Aligned_cols=20  Identities=10%  Similarity=0.109  Sum_probs=17.9

Q ss_pred             eeeccCCCchhHHHHHHhcC
Q psy7554          26 LSCLPDSVCPHAHQVDLTDG   45 (115)
Q Consensus        26 li~GpTasGKS~lai~LA~~   45 (115)
                      +|.||.|+|||.|+.++++.
T Consensus        47 ~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          47 LIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEECSSSSHHHHHHHHHHH
T ss_pred             eEeCCCCCCHHHHHHHHHHH
Confidence            48999999999999999873

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=80.93  E-value=0.28  Score=36.93  Aligned_cols=22  Identities=9%  Similarity=0.052  Sum_probs=15.4

Q ss_pred             eccCCCceeEeeeeeeccCCCchhHH
Q psy7554          13 LLTGTPDQVYLSYLSCLPDSVCPHAH   38 (115)
Q Consensus        13 ~~~~~~~~~~~~~li~GpTasGKS~l   38 (115)
                      ++-|.+--    ++..|+||||||..
T Consensus        75 ~l~G~n~t----i~aYG~tgSGKT~T   96 (354)
T d1goja_          75 ILNGYNGT----VFAYGQTGAGKSYT   96 (354)
T ss_dssp             HTTTCCEE----EEEECSTTSSHHHH
T ss_pred             hhccCcee----EEecccCCCCccee
Confidence            45565543    44599999999954

>d1sdma_ c.37.1.9 (A:) Kinesin heavy chain-like protein {Potato (Solanum tuberosum) [TaxId: 4113]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin heavy chain-like protein
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=80.47  E-value=0.24  Score=37.66  Aligned_cols=53  Identities=8%  Similarity=0.075  Sum_probs=30.3

Q ss_pred             eccCCCceeEeeeeeeccCCCchhHHHH--------------H----HhcCC-CceEeeccceeeeccCC--ceecCC
Q psy7554          13 LLTGTPDQVYLSYLSCLPDSVCPHAHQV--------------D----LTDGP-DLFCRTYQVYLMVYKGL--DVITNK   69 (115)
Q Consensus        13 ~~~~~~~~~~~~~li~GpTasGKS~lai--------------~----LA~~~-~~eI~IsaDSmQVYkgl--dIgTAK   69 (115)
                      ++-|.+--|    +..|+||||||..-.              +    +.+.- +..+.+.+=-++||.+-  |.++..
T Consensus        70 ~l~G~n~~i----~aYGqTGSGKTyTm~G~~~~~Giipr~~~~lf~~i~~~~~~~~~~v~~S~~EIyne~i~DLL~~~  143 (364)
T d1sdma_          70 AVDGYNVCI----FAYGQTGSGKTFTIYGADSNPGLTPRAMSELFRIMKKDSNKFSFSLKAYMVELYQDTLVDLLLPK  143 (364)
T ss_dssp             HHTTCEEEE----EEECSTTSSHHHHHTBCSSSBCHHHHHHHHHHHHHHHGGGTEEEEEEEEEEEESSSCEEETTSCT
T ss_pred             HhcCCceee----eccccCCCCcccccccCccccchhHHHHHHHHhhhhhccccccceEEEEEEEEeccccccccCcc
Confidence            344544433    449999999996521              1    11111 22333666678899876  666543