Psyllid ID: psy4924

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-----
Protein Sequence
MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR
Secondary Structure (PSIPRED)
cccccccccccEEEcccEEEEEccccccccHHHHHHHHHHHHHHccccHHHHHccccEEEEEEcccccHHHHHHHcccccEEEcccccHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEccEEEEEcccccccHHHHHHHHHHHHHHHccccHHHHHHccccEEEEEccHHHHHHHHHHHcHHcHHHHcccccHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MKFSHSKVKSNIISWNRVvllhgppgtgktSLCKAVAQKLSIRlqtpqaiffkkypnvLIFTTsnltgaidlafldrADIKQYIGFPSAAAIFNIFSSCVEELKR
Flexible Loop (DISEMBL)
MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR
Low Complexity Region (SEG)
MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR
Disordered region (IsUnstruct)
**********NIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV*****
Disordered Region (DISOPRED)
*******VKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR
Disordered Region (DISEMBL)
********KSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR
Disordered Region (DISPRO)
MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooHHHHHHHHHHHHHHHHHiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR
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	105	2.2.26 [Sep-21-2011]
E1C6Q1	432	Pachytene checkpoint prot	yes	N/A	0.514	0.125	0.703	1e-16
Q6P4W8	432	Pachytene checkpoint prot	yes	N/A	0.552	0.134	0.655	1e-15
Q6PH52	424	Pachytene checkpoint prot	yes	N/A	0.514	0.127	0.685	3e-15
Q5XHZ9	432	Pachytene checkpoint prot	yes	N/A	0.514	0.125	0.666	8e-15
Q3UA06	432	Pachytene checkpoint prot	yes	N/A	0.514	0.125	0.666	8e-15
Q15645	432	Pachytene checkpoint prot	yes	N/A	0.514	0.125	0.666	8e-15
D3K5L7	431	Pachytene checkpoint prot	yes	N/A	0.419	0.102	0.772	1e-14
E2R222	432	Pachytene checkpoint prot	yes	N/A	0.419	0.101	0.772	2e-14
Q8H1F9	467	Pachytene checkpoint prot	yes	N/A	0.457	0.102	0.581	4e-13
Q7XK25	471	Pachytene checkpoint prot	no	N/A	0.419	0.093	0.681	1e-12

>sp|E1C6Q1|PCH2_CHICK Pachytene checkpoint protein 2 homolog OS=Gallus gallus GN=TRIP13 PE=3 SV=1

 Score = 85.1 bits (209), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/54 (70%), Positives = 46/54 (85%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
            K+YPNV+I TTSN+T  ID+AF+DRADIKQYIG PSAAAIF I+ SC+EEL +
Sbjct: 287 IKRYPNVVILTTSNITEKIDMAFVDRADIKQYIGPPSAAAIFRIYLSCLEELMK 340

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways.
Gallus gallus (taxid: 9031)

>sp|Q6P4W8|PCH2_XENTR Pachytene checkpoint protein 2 homolog OS=Xenopus tropicalis GN=trip13 PE=2 SV=1

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/58 (65%), Positives = 45/58 (77%)

Query: 48  QAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           Q    K+YPNV+I +TSNLT  ID+AF DRADIKQYIG PS AAIF I+ SC+EEL +
Sbjct: 283 QIDHIKRYPNVVILSTSNLTEKIDVAFTDRADIKQYIGPPSPAAIFKIYLSCIEELMK 340

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways.

Xenopus tropicalis (taxid: 8364)

>sp|Q6PH52|PCH2_DANRE Pachytene checkpoint protein 2 homolog OS=Danio rerio GN=trip13 PE=2 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 37/54 (68%), Positives = 45/54 (83%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
            K++PNV+I TTSN+T  IDLAF+DRADIKQYIG PSA AIFNI+ S +EEL +
Sbjct: 279 IKRHPNVVILTTSNVTEKIDLAFVDRADIKQYIGPPSAKAIFNIYLSSLEELMK 332

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways.

Danio rerio (taxid: 7955)

>sp|Q5XHZ9|PCH2_RAT Pachytene checkpoint protein 2 homolog OS=Rattus norvegicus GN=Trip13 PE=2 SV=1

 Score = 79.0 bits (193), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 36/54 (66%), Positives = 45/54 (83%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
            K++ NV+I TTSN+T  ID+AF+DRADIKQYIG PSAAAIF I+ SC+EEL +
Sbjct: 287 IKRHSNVVILTTSNITEKIDVAFVDRADIKQYIGPPSAAAIFKIYLSCLEELMK 340

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways. Also required for development of higher-order chromosome structures and is needed for synaptonemal-complex formation. In males, required for efficient synapsis of the sex chromosomes and for sex body formation. Promotes early steps of the DNA double-strand breaks (DSBs) repair process upstream of the assembly of RAD51 complexes. Required for depletion of HORMAD1 and HORMAD2 from synapsed chromosomes.

Rattus norvegicus (taxid: 10116)

>sp|Q3UA06|PCH2_MOUSE Pachytene checkpoint protein 2 homolog OS=Mus musculus GN=Trip13 PE=2 SV=1

 Score = 79.0 bits (193), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 36/54 (66%), Positives = 45/54 (83%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
            K++ NV+I TTSN+T  ID+AF+DRADIKQYIG PSAAAIF I+ SC+EEL +
Sbjct: 287 IKRHSNVVILTTSNITEKIDVAFVDRADIKQYIGPPSAAAIFKIYLSCLEELMK 340

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways. Also required for development of higher-order chromosome structures and is needed for synaptonemal-complex formation. In males, required for efficient synapsis of the sex chromosomes and for sex body formation. Promotes early steps of the DNA double-strand breaks (DSBs) repair process upstream of the assembly of RAD51 complexes. Required for depletion of HORMAD1 and HORMAD2 from synapsed chromosomes.

Mus musculus (taxid: 10090)

>sp|Q15645|PCH2_HUMAN Pachytene checkpoint protein 2 homolog OS=Homo sapiens GN=TRIP13 PE=1 SV=2

 Score = 79.0 bits (193), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 36/54 (66%), Positives = 45/54 (83%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
            K++ NV+I TTSN+T  ID+AF+DRADIKQYIG PSAAAIF I+ SC+EEL +
Sbjct: 287 IKRHSNVVILTTSNITEKIDVAFVDRADIKQYIGPPSAAAIFKIYLSCLEELMK 340

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways. Also required for development of higher-order chromosome structures and is needed for synaptonemal-complex formation. In males, required for efficient synapsis of the sex chromosomes and for sex body formation. Promotes early steps of the DNA double-strand breaks (DSBs) repair process upstream of the assembly of RAD51 complexes. Required for depletion of HORMAD1 and HORMAD2 from synapsed chromosomes.

Homo sapiens (taxid: 9606)

>sp|D3K5L7|PCH2_PIG Pachytene checkpoint protein 2 homolog OS=Sus scrofa GN=TRIP13 PE=2 SV=1

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 34/44 (77%), Positives = 39/44 (88%)

Query: 3   FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
           FS   V SN+I+WNRVVLLHGPPGTGKTSLCKA+AQKL+IRL +
Sbjct: 159 FSDKNVDSNLITWNRVVLLHGPPGTGKTSLCKALAQKLTIRLSS 202

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways. Also required for development of higher-order chromosome structures and is needed for synaptonemal-complex formation. In males, required for efficient synapsis of the sex chromosomes and for sex body formation. Promotes early steps of the DNA double-strand breaks (DSBs) repair process upstream of the assembly of RAD51 complexes. Required for depletion of HORMAD1 and HORMAD2 from synapsed chromosomes.

Sus scrofa (taxid: 9823)

>sp|E2R222|PCH2_CANFA Pachytene checkpoint protein 2 homolog OS=Canis familiaris GN=TRIP13 PE=3 SV=1

 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 34/44 (77%), Positives = 39/44 (88%)

Query: 3   FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
           FS   V SN+I+WNRVVLLHGPPGTGKTSLCKA+AQKL+IRL +
Sbjct: 159 FSDKNVDSNLIAWNRVVLLHGPPGTGKTSLCKALAQKLTIRLSS 202

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways. Also required for development of higher-order chromosome structures and is needed for synaptonemal-complex formation. In males, required for efficient synapsis of the sex chromosomes and for sex body formation. Promotes early steps of the DNA double-strand breaks (DSBs) repair process upstream of the assembly of RAD51 complexes. Required for depletion of HORMAD1 and HORMAD2 from synapsed chromosomes.

Canis familiaris (taxid: 9615)

>sp|Q8H1F9|PCH2_ARATH Pachytene checkpoint protein 2 homolog OS=Arabidopsis thaliana GN=At4g24710 PE=2 SV=1

 Score = 73.2 bits (178), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 32/55 (58%), Positives = 41/55 (74%), Gaps = 7/55 (12%)

Query: 3   FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPN 57
           F+   V  N++SWNR++LLHGPPGTGKTSLCKA+AQKLSIR  +       +YP+
Sbjct: 189 FTQKGVNPNLVSWNRIILLHGPPGTGKTSLCKALAQKLSIRCNS-------RYPH 236

Plays a key role in chromosome recombination during meiosis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XK25|PCH2_ORYSJ Pachytene checkpoint protein 2 homolog OS=Oryza sativa subsp. japonica GN=Os04g0479000 PE=3 SV=3

 Score = 71.6 bits (174), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 30/44 (68%), Positives = 37/44 (84%)

Query: 3   FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
           F+   V   ++SWNR+VLLHGPPGTGKTSLCKA+AQKLSIR ++
Sbjct: 193 FTEKGVDPCLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFKS 236

Plays a key role in chromosome recombination during meiosis.

Oryza sativa subsp. japonica (taxid: 39947)

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	105
442760803	396	Putative hpv16 e1 protein, partial [Ixod	0.504	0.133	0.698	2e-16
241670205	392	ATP binding protein, putative [Ixodes sc	0.504	0.135	0.698	3e-16
307191884	270	Thyroid receptor-interacting protein 13	0.504	0.196	0.716	4e-16
322792291	400	hypothetical protein SINV_02994 [Solenop	0.504	0.132	0.716	4e-16
340367762	427	PREDICTED: pachytene checkpoint protein	0.514	0.126	0.722	4e-16
332018199	415	Thyroid receptor-interacting protein 13	0.504	0.127	0.716	5e-16
307179595	415	Thyroid receptor-interacting protein 13	0.504	0.127	0.716	5e-16
291243499	373	PREDICTED: thyroid hormone receptor inte	0.504	0.142	0.735	1e-15
345483699	439	PREDICTED: pachytene checkpoint protein	0.504	0.120	0.716	4e-15
327275055	432	PREDICTED: thyroid receptor-interacting	0.514	0.125	0.703	5e-15

>gi|442760803|gb|JAA72560.1| Putative hpv16 e1 protein, partial [Ixodes ricinus]

 Score = 89.4 bits (220), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 37/53 (69%), Positives = 46/53 (86%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           KKYPNV + TTSN+TG IDLAF+DRADI++Y+G+PS AAI  IF SC+EEL+R
Sbjct: 262 KKYPNVFVLTTSNITGVIDLAFVDRADIRRYLGYPSQAAILKIFESCIEELQR 314

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|241670205|ref|XP_002399785.1| ATP binding protein, putative [Ixodes scapularis] gi|215506203|gb|EEC15697.1| ATP binding protein, putative [Ixodes scapularis]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 37/53 (69%), Positives = 46/53 (86%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           KKYPNV + TTSN+TG IDLAF+DRADI++Y+G+PS AAI  IF SC+EEL+R
Sbjct: 258 KKYPNVFVLTTSNITGVIDLAFVDRADIRRYLGYPSQAAILKIFESCIEELQR 310

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307191884|gb|EFN75303.1| Thyroid receptor-interacting protein 13 [Harpegnathos saltator]

 Score = 89.0 bits (219), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 38/53 (71%), Positives = 46/53 (86%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           K+YPNVLI TTSN+T AIDLAF+DRADIKQY+GFPS  AI++I+ SC+ EL R
Sbjct: 132 KRYPNVLILTTSNMTEAIDLAFIDRADIKQYLGFPSEVAIYHIYRSCLRELMR 184

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322792291|gb|EFZ16275.1| hypothetical protein SINV_02994 [Solenopsis invicta]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 38/53 (71%), Positives = 47/53 (88%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           K+YPNVLI TTSN+T AIDLAF+DRADIKQY+G+PS  AI+NI+ SC++EL R
Sbjct: 271 KRYPNVLILTTSNMTEAIDLAFVDRADIKQYLGYPSEVAIYNIYHSCLKELMR 323

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340367762|ref|XP_003382422.1| PREDICTED: pachytene checkpoint protein 2 homolog [Amphimedon queenslandica]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 39/54 (72%), Positives = 46/54 (85%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
            K+YPNVLI TTSN+T AIDLAF+DRADIKQYIG PS  A+F+IF SC++EL R
Sbjct: 286 IKRYPNVLILTTSNITEAIDLAFVDRADIKQYIGLPSLDAVFSIFMSCIKELMR 339

Source: Amphimedon queenslandica

Species: Amphimedon queenslandica

Genus: Amphimedon

Family: Niphatidae

Order: Haplosclerida

Class: Demospongiae

Phylum: Porifera

Superkingdom: Eukaryota

>gi|332018199|gb|EGI58804.1| Thyroid receptor-interacting protein 13 [Acromyrmex echinatior]

 Score = 88.6 bits (218), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 38/53 (71%), Positives = 47/53 (88%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           K+YPNVLI TTSN+T AIDLAF+DRADIKQY+G+PS  AI+NI+ SC++EL R
Sbjct: 273 KRYPNVLILTTSNMTEAIDLAFIDRADIKQYLGYPSEIAIYNIYHSCLKELMR 325

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307179595|gb|EFN67887.1| Thyroid receptor-interacting protein 13 [Camponotus floridanus]

 Score = 88.2 bits (217), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 38/53 (71%), Positives = 47/53 (88%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           K+YPNVLI TTSN+T AIDLAF+DRADIKQY+G+PS  AI+NI+ SC++EL R
Sbjct: 274 KRYPNVLILTTSNMTEAIDLAFIDRADIKQYLGYPSEVAIYNIYHSCLKELMR 326

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|291243499|ref|XP_002741639.1| PREDICTED: thyroid hormone receptor interactor 13-like [Saccoglossus kowalevskii]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 39/53 (73%), Positives = 46/53 (86%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           KK+PNV+I TTSN+TGAIDLAF+DRADIKQYIG PS AA+F I+ SC+ EL R
Sbjct: 230 KKHPNVIILTTSNVTGAIDLAFVDRADIKQYIGHPSPAAVFKIYHSCLCELMR 282

Source: Saccoglossus kowalevskii

Species: Saccoglossus kowalevskii

Genus: Saccoglossus

Family: Harrimaniidae

Class: Enteropneusta

Phylum: Hemichordata

Superkingdom: Eukaryota

>gi|345483699|ref|XP_001601643.2| PREDICTED: pachytene checkpoint protein 2 homolog [Nasonia vitripennis]

 Score = 85.5 bits (210), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 38/53 (71%), Positives = 45/53 (84%)

Query: 53  KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           K+YPNVLI TTSNLT AIDLAF+DRADIKQYIG P+  AI+ I+S C++EL R
Sbjct: 288 KRYPNVLILTTSNLTEAIDLAFVDRADIKQYIGPPNEQAIYKIYSDCIKELMR 340

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|327275055|ref|XP_003222289.1| PREDICTED: thyroid receptor-interacting protein 13-like [Anolis carolinensis]

 Score = 85.1 bits (209), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 38/54 (70%), Positives = 46/54 (85%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
            K+YPNV+I TTSN+T  ID+AF+DRADIKQYIG PSAAAIF I+ SC+EEL +
Sbjct: 287 IKRYPNVVILTTSNITEKIDMAFVDRADIKQYIGPPSAAAIFKIYLSCLEELMK 340

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Phylum: Chordata

Superkingdom: Eukaryota

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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	105
UNIPROTKB|E1C6Q1	432	TRIP13 "Pachytene checkpoint p	0.504	0.122	0.716	3.4e-32
UNIPROTKB|Q6P4W8	432	trip13 "Pachytene checkpoint p	0.504	0.122	0.698	1e-31
UNIPROTKB|Q15645	432	TRIP13 "Pachytene checkpoint p	0.504	0.122	0.679	1.2e-30
UNIPROTKB|F1N3B9	432	TRIP13 "Uncharacterized protei	0.504	0.122	0.679	1.6e-30
ZFIN|ZDB-GENE-040426-1488	424	trip13 "thyroid hormone recept	0.504	0.125	0.698	1.8e-30
UNIPROTKB|D3K5L7	431	TRIP13 "Pachytene checkpoint p	0.419	0.102	0.772	4.2e-30
UNIPROTKB|E2R222	432	TRIP13 "Pachytene checkpoint p	0.419	0.101	0.772	5.4e-30
FB|FBgn0051453	421	pch2 [Drosophila melanogaster	0.428	0.106	0.688	3.3e-24
DICTYBASE|DDB_G0279111	373	DDB_G0279111 "AAA ATPase domai	0.380	0.107	0.625	9.9e-20
SGD|S000000390	564	PCH2 "Nucleolar component of t	0.323	0.060	0.617	1.9e-17

UNIPROTKB|E1C6Q1 TRIP13 "Pachytene checkpoint protein 2 homolog" [Gallus gallus (taxid:9031)]

 Score = 198 (74.8 bits), Expect = 3.4e-32, Sum P(2) = 3.4e-32
 Identities = 38/53 (71%), Positives = 46/53 (86%)

Query:    53 KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
             K+YPNV+I TTSN+T  ID+AF+DRADIKQYIG PSAAAIF I+ SC+EEL +
Sbjct:   288 KRYPNVVILTTSNITEKIDMAFVDRADIKQYIGPPSAAAIFRIYLSCLEELMK 340

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

GO:0005524 "ATP binding" evidence=IEA

GO:0000239 "pachytene" evidence=IEA

GO:0001556 "oocyte maturation" evidence=IEA

GO:0001673 "male germ cell nucleus" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0048477 "oogenesis" evidence=ISS

GO:0007283 "spermatogenesis" evidence=ISS

GO:0007131 "reciprocal meiotic recombination" evidence=ISS

GO:0007130 "synaptonemal complex assembly" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

UNIPROTKB|Q6P4W8 trip13 "Pachytene checkpoint protein 2 homolog" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 190 (71.9 bits), Expect = 1.0e-31, Sum P(2) = 1.0e-31
 Identities = 37/53 (69%), Positives = 44/53 (83%)

Query:    53 KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
             K+YPNV+I +TSNLT  ID+AF DRADIKQYIG PS AAIF I+ SC+EEL +
Sbjct:   288 KRYPNVVILSTSNLTEKIDVAFTDRADIKQYIGPPSPAAIFKIYLSCIEELMK 340

GO:0006302 "double-strand break repair" evidence=ISS

GO:0007130 "synaptonemal complex assembly" evidence=ISS

GO:0007131 "reciprocal meiotic recombination" evidence=ISS

GO:0007283 "spermatogenesis" evidence=ISS

GO:0048477 "oogenesis" evidence=ISS

UNIPROTKB|Q15645 TRIP13 "Pachytene checkpoint protein 2 homolog" [Homo sapiens (taxid:9606)]

 Score = 184 (69.8 bits), Expect = 1.2e-30, Sum P(2) = 1.2e-30
 Identities = 36/53 (67%), Positives = 45/53 (84%)

Query:    53 KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
             K++ NV+I TTSN+T  ID+AF+DRADIKQYIG PSAAAIF I+ SC+EEL +
Sbjct:   288 KRHSNVVILTTSNITEKIDVAFVDRADIKQYIGPPSAAAIFKIYLSCLEELMK 340

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

GO:0000239 "pachytene" evidence=IEA

GO:0001556 "oocyte maturation" evidence=IEA

GO:0001673 "male germ cell nucleus" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0005524 "ATP binding" evidence=NAS

GO:0007283 "spermatogenesis" evidence=ISS

GO:0007131 "reciprocal meiotic recombination" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0048477 "oogenesis" evidence=ISS

GO:0007130 "synaptonemal complex assembly" evidence=ISS

GO:0003712 "transcription cofactor activity" evidence=TAS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0005634 "nucleus" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|F1N3B9 TRIP13 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 184 (69.8 bits), Expect = 1.6e-30, Sum P(2) = 1.6e-30
 Identities = 36/53 (67%), Positives = 45/53 (84%)

Query:    53 KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
             K++ NV+I TTSN+T  ID+AF+DRADI+QYIG PSAAAIF I+ SC+EEL R
Sbjct:   288 KRHSNVVILTTSNITERIDVAFVDRADIRQYIGPPSAAAIFKIYLSCLEELMR 340

GO:0042802 "identical protein binding" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0007130 "synaptonemal complex assembly" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

GO:0001673 "male germ cell nucleus" evidence=IEA

GO:0001556 "oocyte maturation" evidence=IEA

GO:0000239 "pachytene" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

ZFIN|ZDB-GENE-040426-1488 trip13 "thyroid hormone receptor interactor 13" [Danio rerio (taxid:7955)]

 Score = 185 (70.2 bits), Expect = 1.8e-30, Sum P(2) = 1.8e-30
 Identities = 37/53 (69%), Positives = 45/53 (84%)

Query:    53 KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
             K++PNV+I TTSN+T  IDLAF+DRADIKQYIG PSA AIFNI+ S +EEL +
Sbjct:   280 KRHPNVVILTTSNVTEKIDLAFVDRADIKQYIGPPSAKAIFNIYLSSLEELMK 332

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

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0007131 "reciprocal meiotic recombination" evidence=ISS

GO:0007283 "spermatogenesis" evidence=IEA;ISS

GO:0048477 "oogenesis" evidence=IEA;ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0007130 "synaptonemal complex assembly" evidence=ISS

GO:0030154 "cell differentiation" evidence=IEA

GO:0007126 "meiosis" evidence=IEA

UNIPROTKB|D3K5L7 TRIP13 "Pachytene checkpoint protein 2 homolog" [Sus scrofa (taxid:9823)]

 Score = 182 (69.1 bits), Expect = 4.2e-30, Sum P(2) = 4.2e-30
 Identities = 34/44 (77%), Positives = 39/44 (88%)

Query:     3 FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
             FS   V SN+I+WNRVVLLHGPPGTGKTSLCKA+AQKL+IRL +
Sbjct:   159 FSDKNVDSNLITWNRVVLLHGPPGTGKTSLCKALAQKLTIRLSS 202

GO:0006302 "double-strand break repair" evidence=ISS

GO:0007130 "synaptonemal complex assembly" evidence=ISS

GO:0007131 "reciprocal meiotic recombination" evidence=ISS

GO:0007283 "spermatogenesis" evidence=ISS

GO:0048477 "oogenesis" evidence=ISS

GO:0030154 "cell differentiation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|E2R222 TRIP13 "Pachytene checkpoint protein 2 homolog" [Canis lupus familiaris (taxid:9615)]

 Score = 182 (69.1 bits), Expect = 5.4e-30, Sum P(2) = 5.4e-30
 Identities = 34/44 (77%), Positives = 39/44 (88%)

Query:     3 FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
             FS   V SN+I+WNRVVLLHGPPGTGKTSLCKA+AQKL+IRL +
Sbjct:   159 FSDKNVDSNLIAWNRVVLLHGPPGTGKTSLCKALAQKLTIRLSS 202

GO:0007283 "spermatogenesis" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0007130 "synaptonemal complex assembly" evidence=ISS

GO:0007131 "reciprocal meiotic recombination" evidence=ISS

GO:0048477 "oogenesis" evidence=ISS

GO:0042802 "identical protein binding" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0001673 "male germ cell nucleus" evidence=IEA

GO:0001556 "oocyte maturation" evidence=IEA

GO:0000239 "pachytene" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

FB|FBgn0051453 pch2 [Drosophila melanogaster (taxid:7227)]

 Score = 168 (64.2 bits), Expect = 3.3e-24, Sum P(2) = 3.3e-24
 Identities = 31/45 (68%), Positives = 39/45 (86%)

Query:     1 MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ 45
             + FS  +V +N+I+ NR++LLHGPPGTGKTSLCKA+AQKLSIR Q
Sbjct:   151 LMFSEHRVDTNVIACNRLILLHGPPGTGKTSLCKALAQKLSIRTQ 195

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

GO:0005524 "ATP binding" evidence=IEA

DICTYBASE|DDB_G0279111 DDB_G0279111 "AAA ATPase domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 135 (52.6 bits), Expect = 9.9e-20, Sum P(2) = 9.9e-20
 Identities = 25/40 (62%), Positives = 34/40 (85%)

Query:     3 FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSI 42
             FS  ++ SNI+S N+V+ L+GPPGTGKTSL KA+AQ++SI
Sbjct:   195 FSKFRIDSNIVSNNKVIFLYGPPGTGKTSLAKALAQRISI 234

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

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

SGD|S000000390 PCH2 "Nucleolar component of the pachytene checkpoint, which prevents chrom" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 124 (48.7 bits), Expect = 1.9e-17, Sum P(2) = 1.9e-17
 Identities = 21/34 (61%), Positives = 31/34 (91%)

Query:    10 SNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR 43
             + +I+ N+++L+HGPPGTGKT+LCKA+ QKLS+R
Sbjct:   301 TTLITNNKLLLVHGPPGTGKTTLCKALCQKLSVR 334

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA;IDA

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

GO:0005694 "chromosome" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IMP

GO:0016887 "ATPase activity" evidence=ISA

GO:0051598 "meiotic recombination checkpoint" evidence=IMP

GO:0042138 "meiotic DNA double-strand break formation" evidence=IGI;IMP

GO:0005634 "nucleus" evidence=IEA

GO:0007126 "meiosis" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
E1C6Q1	PCH2_CHICK	No assigned EC number	0.7037	0.5142	0.125	yes	N/A
Q09535	PCH2_CAEEL	No assigned EC number	0.6046	0.4095	0.1014	yes	N/A
Q6PH52	PCH2_DANRE	No assigned EC number	0.6851	0.5142	0.1273	yes	N/A
Q8H1F9	PCH2_ARATH	No assigned EC number	0.5818	0.4571	0.1027	yes	N/A
Q3UA06	PCH2_MOUSE	No assigned EC number	0.6666	0.5142	0.125	yes	N/A
Q5XHZ9	PCH2_RAT	No assigned EC number	0.6666	0.5142	0.125	yes	N/A
Q15645	PCH2_HUMAN	No assigned EC number	0.6666	0.5142	0.125	yes	N/A
Q6P4W8	PCH2_XENTR	No assigned EC number	0.6551	0.5523	0.1342	yes	N/A
E2R222	PCH2_CANFA	No assigned EC number	0.7727	0.4190	0.1018	yes	N/A
D3K5L7	PCH2_PIG	No assigned EC number	0.7727	0.4190	0.1020	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	105
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	3e-09
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	4e-09
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	7e-08
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	3e-07
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	3e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-06
pfam13207	114	pfam13207, AAA_17, AAA domain	8e-06
smart00382	148	smart00382, AAA, ATPases associated with a variety	1e-05
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	1e-05
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	1e-05
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	2e-05
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	2e-05
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	3e-05
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	3e-05
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	4e-05
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	5e-05
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	6e-05
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	6e-05
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	8e-05
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	8e-05
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	1e-04
pfam13238	128	pfam13238, AAA_18, AAA domain	1e-04
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-04
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	1e-04
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	1e-04
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	2e-04
COG0802	149	COG0802, COG0802, Predicted ATPase or kinase [Gene	2e-04
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	3e-04
pfam13521	162	pfam13521, AAA_28, AAA domain	5e-04
PRK06851	367	PRK06851, PRK06851, hypothetical protein; Provisio	5e-04
cd02021	150	cd02021, GntK, Gluconate kinase (GntK) catalyzes t	5e-04
pfam00910	105	pfam00910, RNA_helicase, RNA helicase	6e-04
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	7e-04
pfam13401	124	pfam13401, AAA_22, AAA domain	7e-04
TIGR02173	171	TIGR02173, cyt_kin_arch, cytidylate kinase, putati	8e-04
pfam02367	123	pfam02367, UPF0079, Uncharacterized P-loop hydrola	9e-04
cd02020	147	cd02020, CMPK, Cytidine monophosphate kinase (CMPK	9e-04
PLN03140	1470	PLN03140, PLN03140, ABC transporter G family membe	0.001
pfam13604	195	pfam13604, AAA_30, AAA domain	0.001
COG0466	782	COG0466, Lon, ATP-dependent Lon protease, bacteria	0.001
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	0.001
COG0563	178	COG0563, Adk, Adenylate kinase and related kinases	0.001
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	0.001
TIGR00763	775	TIGR00763, lon, ATP-dependent protease La	0.001
PRK04182	180	PRK04182, PRK04182, cytidylate kinase; Provisional	0.002
pfam07726	131	pfam07726, AAA_3, ATPase family associated with va	0.002
pfam13479	201	pfam13479, AAA_24, AAA domain	0.003
cd01428	194	cd01428, ADK, Adenylate kinase (ADK) catalyzes the	0.003
pfam13671	143	pfam13671, AAA_33, AAA domain	0.004
PRK05707	328	PRK05707, PRK05707, DNA polymerase III subunit del	0.004

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 50.3 bits (121), Expect = 3e-09
 Identities = 16/26 (61%), Positives = 21/26 (80%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRL 44
          +LL+GPPGTGKT+L KAVA++L    
Sbjct: 1  LLLYGPPGTGKTTLAKAVAKELGAPF 26

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score = 52.1 bits (125), Expect = 4e-09
 Identities = 34/151 (22%), Positives = 44/151 (29%), Gaps = 63/151 (41%)

Query: 17  RVVLLHGPPGTGKTSLCKAVAQKLSIRL-----------------------------QTP 47
           + VLL+GPPGTGKT L KAVA +   R                                P
Sbjct: 277 KGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAP 336

Query: 48  QAIFF--------------------------------KKYPNVLIFTTSNLTGAIDLAFL 75
             IF                                 +K   VL+   +N    +D A L
Sbjct: 337 SIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALL 396

Query: 76  --DRADIKQYIGFPSAAAIFNIFSSCVEELK 104
              R D   Y+  P       IF   + + K
Sbjct: 397 RPGRFDRLIYVPLPDLEERLEIFKIHLRDKK 427

Length = 494

>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score = 48.3 bits (116), Expect = 7e-08
 Identities = 16/19 (84%), Positives = 17/19 (89%)

Query: 19  VLLHGPPGTGKTSLCKAVA 37
           VLL+GPPGTGKT L KAVA
Sbjct: 168 VLLYGPPGTGKTLLAKAVA 186

Length = 389

>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 46.5 bits (111), Expect = 3e-07
 Identities = 20/40 (50%), Positives = 25/40 (62%), Gaps = 5/40 (12%)

Query: 19  VLLHGPPGTGKTSLCKAVAQKLS---IRLQTPQAIFFKKY 55
           VLL+GPPGTGKT L KAVA +     IR+   +    +KY
Sbjct: 188 VLLYGPPGTGKTLLAKAVANQTDATFIRVVGSE--LVQKY 225

Length = 406

>gnl|CDD|99707 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

 Score = 45.2 bits (107), Expect = 3e-07
 Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 11/64 (17%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRA 78
          +LL+GPPGTGKT+L +A+A +L           F+     L    S+L   + +A L   
Sbjct: 22 LLLYGPPGTGKTTLARAIANEL-----------FRPGAPFLYLNASDLLEGLVVAELFGH 70

Query: 79 DIKQ 82
           + +
Sbjct: 71 FLVR 74

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. Length = 151

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 44.9 bits (107), Expect = 1e-06
 Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 9/42 (21%)

Query: 5  HSKVKSNIISW---------NRVVLLHGPPGTGKTSLCKAVA 37
          + K K  +  W          + +LL+GPPG GKTSL  A+A
Sbjct: 19 NEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALA 60

Length = 482

>gnl|CDD|221983 pfam13207, AAA_17, AAA domain

 Score = 41.1 bits (96), Expect = 8e-06
 Identities = 13/27 (48%), Positives = 22/27 (81%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRL 44
          ++L+ GPPG+GK++L K +A+KL I +
Sbjct: 1  IILITGPPGSGKSTLAKKLAEKLGIPV 27

Length = 114

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

 Score = 41.2 bits (96), Expect = 1e-05
 Identities = 15/82 (18%), Positives = 30/82 (36%), Gaps = 11/82 (13%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFL 75
            V+L+ GPPG+GKT+L +A+A++L                 V+     ++   +    L
Sbjct: 2  GEVILIVGPPGSGKTTLARALAREL-----------GPPGGGVIYIDGEDILEEVLDQLL 50

Query: 76 DRADIKQYIGFPSAAAIFNIFS 97
                +         +    +
Sbjct: 51 LIIVGGKKASGSGELRLRLALA 72

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score = 42.1 bits (99), Expect = 1e-05
 Identities = 17/21 (80%), Positives = 18/21 (85%)

Query: 17  RVVLLHGPPGTGKTSLCKAVA 37
           R VLL+GPPGTGKT L KAVA
Sbjct: 180 RGVLLYGPPGTGKTMLAKAVA 200

Length = 398

>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction only]

 Score = 41.7 bits (98), Expect = 1e-05
 Identities = 25/82 (30%), Positives = 34/82 (41%), Gaps = 19/82 (23%)

Query: 19  VLLHGPPGTGKTSLCKAVAQKLS---IRLQ-----TPQAIFF-------KKYPNVLIFTT 63
           VLL GPPG GKT L +A+A+ L    +R+Q      P  +            P    F  
Sbjct: 46  VLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVP 105

Query: 64  SNLTGAID-LAFLD---RADIK 81
             L  A+  +  LD   RA  +
Sbjct: 106 GPLFAAVRVILLLDEINRAPPE 127

Length = 329

>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score = 41.7 bits (98), Expect = 2e-05
 Identities = 16/19 (84%), Positives = 17/19 (89%)

Query: 19  VLLHGPPGTGKTSLCKAVA 37
           VLL+GPPGTGKT L KAVA
Sbjct: 159 VLLYGPPGTGKTLLAKAVA 177

Many proteins may score above the trusted cutoff because an internal. Length = 364

>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

 Score = 41.0 bits (97), Expect = 2e-05
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA 49
          VLL GPPG GKT+L   +A +L + L+    
Sbjct: 55 VLLFGPPGLGKTTLAHIIANELGVNLKITSG 85

Length = 332

>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 16/19 (84%), Positives = 16/19 (84%)

Query: 19  VLLHGPPGTGKTSLCKAVA 37
           VLL GPPGTGKT L KAVA
Sbjct: 91  VLLVGPPGTGKTLLAKAVA 109

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 [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 39.9 bits (93), Expect = 3e-05
 Identities = 15/63 (23%), Positives = 20/63 (31%), Gaps = 1/63 (1%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLD 76
            VLL GP GTGKTSL + + + L            +  P         L   +      
Sbjct: 25 PSVLLTGPSGTGKTSLLRELLEGLL-VAAGKCDQAERNPPYAFSQALRELLRQLLRELAA 83

Query: 77 RAD 79
             
Sbjct: 84 ELL 86

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like protein; Provisional

 Score = 40.1 bits (94), Expect = 4e-05
 Identities = 16/23 (69%), Positives = 19/23 (82%)

Query: 19  VLLHGPPGTGKTSLCKAVAQKLS 41
           V+L+GPPGTGKT L KAVA + S
Sbjct: 220 VILYGPPGTGKTLLAKAVANETS 242

Length = 438

>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]

 Score = 40.0 bits (94), Expect = 5e-05
 Identities = 14/33 (42%), Positives = 23/33 (69%), Gaps = 1/33 (3%)

Query: 8  VKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKL 40
          +K   ++  R +L+ GPPGTGKT+L   +A++L
Sbjct: 58 IKQGKMA-GRGILIVGPPGTGKTALAMGIAREL 89

Length = 450

>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

 Score = 39.9 bits (94), Expect = 6e-05
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 21 LHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKK 54
          L GPPGTGKT+L + +A   +   +   A+    
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGV 86

Length = 436

>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 39.7 bits (94), Expect = 6e-05
 Identities = 12/36 (33%), Positives = 19/36 (52%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKK 54
          ++L GPPGTGKT+L + +A       +   A+    
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGV 74

Length = 413

>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score = 39.7 bits (93), Expect = 8e-05
 Identities = 15/22 (68%), Positives = 17/22 (77%)

Query: 19  VLLHGPPGTGKTSLCKAVAQKL 40
           VLL+GPPG GKT + KAVA  L
Sbjct: 219 VLLYGPPGCGKTLIAKAVANSL 240

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 512

>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus

 Score = 39.6 bits (93), Expect = 8e-05
 Identities = 16/34 (47%), Positives = 24/34 (70%), Gaps = 1/34 (2%)

Query: 8  VKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLS 41
          +K   I+  R VL+ GPPGTGKT+L  A++++L 
Sbjct: 43 IKEGKIA-GRAVLIAGPPGTGKTALAIAISKELG 75

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. The N-terminal domain contains the pfam00004 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. Length = 395

>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 14/28 (50%), Positives = 20/28 (71%)

Query: 17  RVVLLHGPPGTGKTSLCKAVAQKLSIRL 44
           + VL +GPPGTGKT + KA+A +  + L
Sbjct: 152 KNVLFYGPPGTGKTMMAKALANEAKVPL 179

Length = 368

>gnl|CDD|222000 pfam13238, AAA_18, AAA domain

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 12/26 (46%), Positives = 19/26 (73%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRL 44
          +L+ G PG+GKT+L K +A++L   L
Sbjct: 1  ILITGTPGSGKTTLAKELAERLGDVL 26

Length = 128

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 39.1 bits (91), Expect = 1e-04
 Identities = 16/21 (76%), Positives = 17/21 (80%)

Query: 17  RVVLLHGPPGTGKTSLCKAVA 37
           + VLL GPPGTGKT L KAVA
Sbjct: 488 KGVLLFGPPGTGKTLLAKAVA 508

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. Length = 733

>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 2/58 (3%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLD 76
          +LL+GPPG GKT+L   +A ++ + L+       +K P  L    +NL    D+ F+D
Sbjct: 33 LLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK-PGDLAAILTNLE-EGDVLFID 88

All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. 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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 305

>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 38.6 bits (91), Expect = 1e-04
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA 49
          VLL+GPPG GKT+L   +A ++ + ++    
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVNIRITSG 84

Length = 328

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 38.3 bits (89), Expect = 2e-04
 Identities = 16/21 (76%), Positives = 18/21 (85%)

Query: 19  VLLHGPPGTGKTSLCKAVAQK 39
           VLL+GPPGTGKT L KAVA +
Sbjct: 215 VLLYGPPGTGKTLLAKAVANE 235

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. Length = 733

>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]

 Score = 37.6 bits (88), Expect = 2e-04
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQ 45
          VVLL G  G GKT+L + +A+ L +   
Sbjct: 27 VVLLSGDLGAGKTTLVRGIAKGLGVDGN 54

Length = 149

>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus

 Score = 37.8 bits (89), Expect = 3e-04
 Identities = 12/28 (42%), Positives = 20/28 (71%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
          VLL+GPPG GKT+L   +A ++ + ++ 
Sbjct: 53 VLLYGPPGLGKTTLANIIANEMGVNIRI 80

The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein. Length = 231

>gnl|CDD|222194 pfam13521, AAA_28, AAA domain

 Score = 36.8 bits (86), Expect = 5e-04
 Identities = 11/22 (50%), Positives = 16/22 (72%), Gaps = 1/22 (4%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQ 38
          R+V+  G P TGKT+L +A+A 
Sbjct: 1  RIVIT-GGPSTGKTTLLEALAA 21

Length = 162

>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 14/37 (37%), Positives = 22/37 (59%)

Query: 5  HSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLS 41
          +S   S I   NR+ +L G PGTGK++L K + ++  
Sbjct: 19 YSLYDSIIDGANRIFILKGGPGTGKSTLMKKIGEEFL 55

Length = 367

>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

 Score = 36.5 bits (85), Expect = 5e-04
 Identities = 8/26 (30%), Positives = 19/26 (73%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIR 43
          ++++ G  G+GK+++ KA+A++L   
Sbjct: 1  IIVVMGVSGSGKSTVGKALAERLGAP 26

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits. Length = 150

>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase

 Score = 36.1 bits (84), Expect = 6e-04
 Identities = 13/30 (43%), Positives = 20/30 (66%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ 48
          + L+GPPG GK++L K +A+ L   L  P+
Sbjct: 1  IWLYGPPGCGKSTLAKYLARALLKHLGLPK 30

This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses. Length = 105

>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated

 Score = 37.0 bits (86), Expect = 7e-04
 Identities = 15/19 (78%), Positives = 16/19 (84%)

Query: 19  VLLHGPPGTGKTSLCKAVA 37
           VLL GPPGTGKT L KA+A
Sbjct: 219 VLLVGPPGTGKTLLAKAIA 237

Length = 638

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 35.7 bits (83), Expect = 7e-04
 Identities = 9/24 (37%), Positives = 17/24 (70%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKL 40
           + +L G  G+GKT+L + +A++L
Sbjct: 5  GIGVLTGESGSGKTTLLRRLARQL 28

Length = 124

>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative

 Score = 36.2 bits (84), Expect = 8e-04
 Identities = 15/34 (44%), Positives = 26/34 (76%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIF 51
          ++ + GPPG+GKT++ K +A+KLS++L +   IF
Sbjct: 2  IITISGPPGSGKTTVAKILAEKLSLKLISAGDIF 35

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. Length = 171

>gnl|CDD|216999 pfam02367, UPF0079, Uncharacterized P-loop hydrolase UPF0079

 Score = 35.7 bits (83), Expect = 9e-04
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIR 43
          VVLL G  G GKT+  + +AQ L I 
Sbjct: 17 VVLLSGDLGAGKTTFVRGLAQGLGIT 42

This uncharacterized family contains a P-loop. Length = 123

>gnl|CDD|238978 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

 Score = 35.9 bits (84), Expect = 9e-04
 Identities = 9/22 (40%), Positives = 16/22 (72%)

Query: 23 GPPGTGKTSLCKAVAQKLSIRL 44
          GP G+GK+++ K +A+KL +  
Sbjct: 6  GPAGSGKSTVAKLLAKKLGLPY 27

Length = 147

>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional

 Score = 36.7 bits (85), Expect = 0.001
 Identities = 20/46 (43%), Positives = 27/46 (58%)

Query: 10  SNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKY 55
           S II  +R+ LL GPP +GKT+L  A+A KL   L+    I +  Y
Sbjct: 185 SGIIKPSRMTLLLGPPSSGKTTLLLALAGKLDPSLKVSGEITYNGY 230

Length = 1470

>gnl|CDD|222258 pfam13604, AAA_30, AAA domain

 Score = 36.0 bits (84), Expect = 0.001
 Identities = 11/23 (47%), Positives = 16/23 (69%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQ 38
          +RV ++ GP GTGKT+  KA  +
Sbjct: 18 DRVAVVQGPAGTGKTTSLKAARE 40

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B. Length = 195

>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 6/35 (17%)

Query: 6   SKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKL 40
            K+K  I+       L GPPG GKTSL K++A+ L
Sbjct: 346 KKLKGPIL------CLVGPPGVGKTSLGKSIAKAL 374

Length = 782

>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

 Score = 36.1 bits (84), Expect = 0.001
 Identities = 16/19 (84%), Positives = 16/19 (84%)

Query: 19  VLLHGPPGTGKTSLCKAVA 37
           VLL GPPGTGKT L KAVA
Sbjct: 186 VLLVGPPGTGKTLLAKAVA 204

Length = 596

>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide transport and metabolism]

 Score = 35.7 bits (83), Expect = 0.001
 Identities = 13/27 (48%), Positives = 21/27 (77%), Gaps = 1/27 (3%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSI 42
           R+++L GPPG GK++L K +A+KL +
Sbjct: 1  MRILIL-GPPGAGKSTLAKKLAKKLGL 26

Length = 178

>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 10/18 (55%), Positives = 15/18 (83%)

Query: 20 LLHGPPGTGKTSLCKAVA 37
          +L+GPPG GKT+L + +A
Sbjct: 56 ILYGPPGVGKTTLARIIA 73

Length = 725

>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La

 Score = 36.1 bits (84), Expect = 0.001
 Identities = 13/23 (56%), Positives = 18/23 (78%)

Query: 18  VVLLHGPPGTGKTSLCKAVAQKL 40
           ++ L GPPG GKTSL K++A+ L
Sbjct: 349 ILCLVGPPGVGKTSLGKSIAKAL 371

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 775

>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 10/22 (45%), Positives = 18/22 (81%)

Query: 23 GPPGTGKTSLCKAVAQKLSIRL 44
          GPPG+GKT++ + +A+KL ++ 
Sbjct: 7  GPPGSGKTTVARLLAEKLGLKH 28

Length = 180

>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular activities (AAA)

 Score = 35.2 bits (82), Expect = 0.002
 Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 4/33 (12%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSI---RLQ-TP 47
          VLL G PG  KT L + +A+ L +   R+Q TP
Sbjct: 2  VLLEGVPGLAKTLLARTLARSLGLDFRRIQFTP 34

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 131

>gnl|CDD|222163 pfam13479, AAA_24, AAA domain

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 4/66 (6%)

Query: 19 VLLHGPPGTGKTSLCK-AVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDR 77
          VL++GPPG GKTSL K    + L + L         +  NV I +  +L   +D      
Sbjct: 6  VLIYGPPGIGKTSLAKTLPPKTLFLDLDAGTTKVLSRGDNVDIRSWQDLRDFLDEL---A 62

Query: 78 ADIKQY 83
           D+ +Y
Sbjct: 63 EDLAEY 68

This AAA domain is found in a wide variety of presumed phage proteins. Length = 201

>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

 Score = 34.5 bits (80), Expect = 0.003
 Identities = 11/26 (42%), Positives = 19/26 (73%), Gaps = 1/26 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSI 42
          R++LL GPPG+GK +  + +A+K  +
Sbjct: 1  RILLL-GPPGSGKGTQAERLAKKYGL 25

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates. Length = 194

>gnl|CDD|222307 pfam13671, AAA_33, AAA domain

 Score = 34.2 bits (79), Expect = 0.004
 Identities = 7/23 (30%), Positives = 17/23 (73%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKL 40
          ++L+ G PG+GK++  + + ++L
Sbjct: 1  LILMVGLPGSGKSTFARRLLREL 23

This family of domains contain only a P-loop motif, that is characteristic of the AAA superfamily. Many of the proteins in this family are just short fragments so there is no Walker B motif. Length = 143

>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated

 Score = 34.7 bits (80), Expect = 0.004
 Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 2/30 (6%)

Query: 20 LLHGPPGTGKTSLCKAVAQKLSIRLQTPQA 49
          LLHGP G GK +L + +A  L    + PQ 
Sbjct: 26 LLHGPAGIGKRALAERLAAALLC--EAPQG 53

Length = 328

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	105
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.86
KOG0744|consensus	423		99.84
KOG0733|consensus	802		99.84
KOG0730|consensus	693		99.82
KOG0738|consensus	491		99.81
KOG0733|consensus	802		99.79
KOG0734|consensus	752		99.78
KOG0737|consensus	386		99.78
CHL00195	489	ycf46 Ycf46; Provisional	99.78
KOG0731|consensus	774		99.77
KOG0743|consensus	457		99.77
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.77
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.73
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.72
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.72
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.72
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.71
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.71
KOG0740|consensus	428		99.7
KOG0727|consensus	408		99.69
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.68
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.68
KOG0739|consensus	439		99.67
KOG0652|consensus	424		99.66
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.66
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.66
KOG0736|consensus	953		99.65
KOG0728|consensus	404		99.65
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.64
CHL00176	638	ftsH cell division protein; Validated	99.64
KOG0735|consensus	952		99.62
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.61
KOG0742|consensus	630		99.6
KOG0729|consensus	435		99.6
KOG0651|consensus	388		99.56
CHL00206	2281	ycf2 Ycf2; Provisional	99.56
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.55
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.53
KOG0726|consensus	440		99.52
PF00004	132	AAA: ATPase family associated with various cellula	99.52
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.52
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.5
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.48
KOG0741|consensus	744		99.48
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.43
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.43
KOG0732|consensus	1080		99.42
KOG0730|consensus	693		99.41
KOG2004|consensus	906		99.4
PRK08118	167	topology modulation protein; Reviewed	99.4
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.37
PRK07261	171	topology modulation protein; Provisional	99.36
COG0714	329	MoxR-like ATPases [General function prediction onl	99.33
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.33
KOG2028|consensus	554		99.29
PF07726	131	AAA_3: ATPase family associated with various cellu	99.29
PHA02244	383	ATPase-like protein	99.28
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.27
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.26
PRK06893	229	DNA replication initiation factor; Validated	99.25
CHL00181	287	cbbX CbbX; Provisional	99.21
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.21
PRK08084	235	DNA replication initiation factor; Provisional	99.2
PRK06620	214	hypothetical protein; Validated	99.19
PRK13342	413	recombination factor protein RarA; Reviewed	99.16
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.16
PRK09087	226	hypothetical protein; Validated	99.14
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.1
KOG0736|consensus	953		99.1
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	99.09
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.09
PRK06217	183	hypothetical protein; Validated	99.09
PRK13949	169	shikimate kinase; Provisional	99.08
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.07
PHA02544	316	44 clamp loader, small subunit; Provisional	99.06
PRK04195	482	replication factor C large subunit; Provisional	99.06
PRK08727	233	hypothetical protein; Validated	99.06
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.03
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	99.03
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.02
PRK10865	857	protein disaggregation chaperone; Provisional	99.02
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.02
PRK05642	234	DNA replication initiation factor; Validated	99.02
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.02
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	99.01
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	99.01
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	99.0
PRK13341	725	recombination factor protein RarA/unknown domain f	99.0
PLN03025	319	replication factor C subunit; Provisional	98.99
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.98
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.98
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.98
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.97
PRK12422	445	chromosomal replication initiation protein; Provis	98.97
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.96
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.95
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	98.94
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.93
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.92
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.9
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.9
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.9
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.9
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.9
PRK00131	175	aroK shikimate kinase; Reviewed	98.9
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.89
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.89
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.89
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.88
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.88
smart00350	509	MCM minichromosome maintenance proteins.	98.88
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	98.86
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.86
PRK09862	506	putative ATP-dependent protease; Provisional	98.86
PRK13531	498	regulatory ATPase RavA; Provisional	98.86
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.85
KOG0989|consensus	346		98.85
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.84
PRK00625	173	shikimate kinase; Provisional	98.84
PRK05057	172	aroK shikimate kinase I; Reviewed	98.84
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	98.82
PRK06547	172	hypothetical protein; Provisional	98.82
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.82
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.81
COG3638	258	ABC-type phosphate/phosphonate transport system, A	98.81
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.81
PRK03839	180	putative kinase; Provisional	98.81
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.81
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.8
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.8
smart00382	148	AAA ATPases associated with a variety of cellular	98.8
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	98.8
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.8
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	98.79
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.79
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	98.79
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	98.79
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.79
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	98.79
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.79
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.79
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	98.79
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.79
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.79
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.79
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	98.78
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	98.78
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	98.78
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	98.78
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	98.78
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.78
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.78
COG4604	252	CeuD ABC-type enterochelin transport system, ATPas	98.78
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	98.78
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.77
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	98.77
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	98.77
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	98.77
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	98.77
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	98.77
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	98.77
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	98.77
PRK13947	171	shikimate kinase; Provisional	98.77
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	98.76
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.76
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	98.76
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	98.76
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.76
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	98.75
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	98.75
PRK14530	215	adenylate kinase; Provisional	98.75
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.75
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	98.75
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	98.75
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	98.74
TIGR00235	207	udk uridine kinase. Model contains a number of lon	98.74
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.74
KOG0735|consensus	952		98.74
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	98.74
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	98.74
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	98.74
PRK08233	182	hypothetical protein; Provisional	98.74
CHL00095	821	clpC Clp protease ATP binding subunit	98.74
PRK13948	182	shikimate kinase; Provisional	98.73
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	98.73
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	98.73
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	98.73
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.73
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	98.73
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	98.73
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.72
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	98.72
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	98.72
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	98.72
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	98.72
COG1127	263	Ttg2A ABC-type transport system involved in resist	98.72
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.72
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	98.71
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	98.71
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	98.71
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.71
COG4619	223	ABC-type uncharacterized transport system, ATPase	98.71
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	98.71
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.71
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.71
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	98.71
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	98.71
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.7
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	98.7
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	98.7
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.7
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	98.7
PRK14532	188	adenylate kinase; Provisional	98.7
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.7
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	98.7
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.7
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	98.7
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	98.69
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	98.69
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	98.69
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	98.69
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.69
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	98.69
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.69
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.69
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	98.69
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	98.69
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	98.69
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.69
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	98.69
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	98.69
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	98.69
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	98.69
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	98.69
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	98.68
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.68
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.68
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	98.68
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	98.68
PRK10908	222	cell division protein FtsE; Provisional	98.68
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	98.68
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.68
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	98.68
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.68
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	98.68
PRK14527	191	adenylate kinase; Provisional	98.67
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	98.67
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	98.67
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	98.67
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	98.67
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.67
PRK14531	183	adenylate kinase; Provisional	98.67
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	98.67
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	98.67
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	98.67
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	98.67
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.67
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.67
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	98.67
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	98.66
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	98.66
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	98.66
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.66
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	98.66
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.66
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	98.66
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	98.66
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	98.66
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	98.66
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	98.66
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	98.66
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	98.65
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.65
cd03246	173	ABCC_Protease_Secretion This family represents the	98.65
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	98.65
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	98.65
PRK13536	340	nodulation factor exporter subunit NodI; Provision	98.65
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	98.65
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	98.65
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.65
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	98.65
PRK13946	184	shikimate kinase; Provisional	98.65
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	98.65
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	98.65
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	98.64
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.64
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	98.64
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.64
PRK13537	306	nodulation ABC transporter NodI; Provisional	98.64
PRK09984	262	phosphonate/organophosphate ester transporter subu	98.64
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	98.64
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	98.64
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	98.64
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.64
PTZ00301	210	uridine kinase; Provisional	98.64
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	98.64
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	98.64
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	98.64
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.63
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	98.63
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	98.63
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	98.63
PRK10938	490	putative molybdenum transport ATP-binding protein	98.63
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	98.63
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	98.63
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	98.63
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	98.63
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	98.63
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	98.63
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	98.63
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	98.62
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	98.62
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	98.62
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	98.62
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	98.62
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.62
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	98.62
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.61
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	98.61
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	98.61
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.61
PRK06526	254	transposase; Provisional	98.61
PTZ00088	229	adenylate kinase 1; Provisional	98.61
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	98.61
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	98.61
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	98.61
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	98.61
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.61
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.61
PRK14266	250	phosphate ABC transporter ATP-binding protein; Pro	98.61
PRK03731	171	aroL shikimate kinase II; Reviewed	98.61
PRK11147	635	ABC transporter ATPase component; Reviewed	98.61
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	98.61
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	98.6
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	98.6
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	98.6
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.6
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	98.6
PRK08181	269	transposase; Validated	98.6
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.6
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.6
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	98.6
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.6
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	98.6
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	98.6
PRK14275	286	phosphate ABC transporter ATP-binding protein; Pro	98.6
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	98.59
PRK12377	248	putative replication protein; Provisional	98.59
PRK10865	857	protein disaggregation chaperone; Provisional	98.59
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.59
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	98.59
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.59
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	98.59
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	98.59
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.59
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.59
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	98.58
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	98.58
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	98.58
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	98.58
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	98.58
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.58
PRK14528	186	adenylate kinase; Provisional	98.58
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.58
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	98.58
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	98.58
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	98.57
PRK09183	259	transposase/IS protein; Provisional	98.57
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	98.57
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	98.57
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.57
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.57
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.57
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.57
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.57
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	98.57
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.57
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.57
CHL00095	821	clpC Clp protease ATP binding subunit	98.57
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	98.57
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.56
PRK02496	184	adk adenylate kinase; Provisional	98.56
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	98.56
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	98.56
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	98.56
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	98.56
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	98.56
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.56
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	98.56
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.55
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	98.55
COG0410	237	LivF ABC-type branched-chain amino acid transport	98.55
COG4133	209	CcmA ABC-type transport system involved in cytochr	98.55
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.55
PRK00279	215	adk adenylate kinase; Reviewed	98.55
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	98.55
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	98.55
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.55
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	98.55
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	98.55
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	98.55
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	98.54
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	98.54
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	98.54
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.54
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.54
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.54
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.54
PRK09825	176	idnK D-gluconate kinase; Provisional	98.54
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	98.53
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	98.53
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	98.53
PRK06835	329	DNA replication protein DnaC; Validated	98.53
PRK08116	268	hypothetical protein; Validated	98.53
PLN02200	234	adenylate kinase family protein	98.53
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.53
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	98.53
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.53
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.53
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	98.52
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	98.52
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.52
PRK06762	166	hypothetical protein; Provisional	98.52
PRK14264	305	phosphate ABC transporter ATP-binding protein; Pro	98.52
cd03215	182	ABC_Carb_Monos_II This family represents domain II	98.52
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	98.51
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.51
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.51
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.51
PRK11147	635	ABC transporter ATPase component; Reviewed	98.51
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	98.51
PRK06921	266	hypothetical protein; Provisional	98.51
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	98.5
PRK08939	306	primosomal protein DnaI; Reviewed	98.5
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.5
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.5
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	98.5
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.5
PF00005	137	ABC_tran: ABC transporter This structure is on hol	98.5
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.49
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	98.49
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	98.49
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	98.49
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.49
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.49
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	98.49
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	98.49
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.49
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	98.49
PRK00300	205	gmk guanylate kinase; Provisional	98.49
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.48
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	98.48
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	98.48
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.48
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.48
PF13555	62	AAA_29: P-loop containing region of AAA domain	98.48
PRK10938	490	putative molybdenum transport ATP-binding protein	98.48
cd03299	235	ABC_ModC_like Archeal protein closely related to M	98.48
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.47
PHA00729	226	NTP-binding motif containing protein	98.47
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.47
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.47
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.47
COG4525	259	TauB ABC-type taurine transport system, ATPase com	98.47
cd03272	243	ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC protein	98.47
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	98.47
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	98.47
cd03234	226	ABCG_White The White subfamily represents ABC tran	98.47
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	98.47
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	98.47
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	98.47
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	98.47
PHA02530	300	pseT polynucleotide kinase; Provisional	98.47
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	98.47
KOG3347|consensus	176		98.46
PRK12402	337	replication factor C small subunit 2; Reviewed	98.46
PRK13409	590	putative ATPase RIL; Provisional	98.46
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	98.46
PRK04182	180	cytidylate kinase; Provisional	98.46
PRK05541	176	adenylylsulfate kinase; Provisional	98.46
COG4559	259	ABC-type hemin transport system, ATPase component	98.46
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.46
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.46
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	98.46
PLN03073	718	ABC transporter F family; Provisional	98.46
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	98.45
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	98.45
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	98.45
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.45
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	98.45
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	98.45
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	98.45
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	98.44
PLN03211	659	ABC transporter G-25; Provisional	98.44
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	98.44
PLN02165	334	adenylate isopentenyltransferase	98.44
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	98.43
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	98.43
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	98.43
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.43

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

Probab=99.86  E-value=9.9e-22  Score=135.03  Aligned_cols=91  Identities=32%  Similarity=0.361  Sum_probs=82.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||+|||.||+++|++.++.|+.+..                                           
T Consensus       182 I~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~  261 (406)
T COG1222         182 IDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRF  261 (406)
T ss_pred             CCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccc
Confidence            7889999999999999999999999999999998776                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                           -.++...++-++++||+++.+|+|++|  |||..+.++.|+.+.+.+||+-+.++.
T Consensus       262 d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM  338 (406)
T COG1222         262 DSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM  338 (406)
T ss_pred             cCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhc
Confidence                                 035666789999999999999999998  999999999999999999998876543

>KOG0744|consensus

Probab=99.84  E-value=3.8e-21  Score=131.02  Aligned_cols=103  Identities=63%  Similarity=1.022  Sum_probs=91.7

Q ss_pred             CcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------
Q psy4924           3 FSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------   49 (105)
Q Consensus         3 ~~~~~~~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------   49 (105)
                      |....+..+++.+.+.++++||||+|||+|++++|..+..+..+.+.                                 
T Consensus       164 fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  164 FSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQE  243 (423)
T ss_pred             HHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHhhhhhHHHHHHHHHHH
Confidence            34566778889999999999999999999999999999887655444                                 


Q ss_pred             ----------------------------------------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEE
Q psy4924          50 ----------------------------------------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQY   83 (105)
Q Consensus        50 ----------------------------------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~   83 (105)
                                                                    -.+...+++.+++|+|..+.+|.|+.||.|+..+
T Consensus       244 Lv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~TSNl~~siD~AfVDRADi~~y  323 (423)
T KOG0744|consen  244 LVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILATSNLTDSIDVAFVDRADIVFY  323 (423)
T ss_pred             HHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEEEEeccchHHHHHHHhhhHhhheee
Confidence                                                          1567789999999999999999999999999999


Q ss_pred             eCCCCHHHHHHHHHHHHHHhhC
Q psy4924          84 IGFPSAAAIFNIFSSCVEELKR  105 (105)
Q Consensus        84 ~~~~~~~~~~~i~~~~~~~l~~  105 (105)
                      +++|+..++++|++.++++|.+
T Consensus       324 VG~Pt~~ai~~IlkscieEL~~  345 (423)
T KOG0744|consen  324 VGPPTAEAIYEILKSCIEELIS  345 (423)
T ss_pred             cCCccHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999863

>KOG0733|consensus

Probab=99.84  E-value=1.4e-20  Score=136.37  Aligned_cols=91  Identities=35%  Similarity=0.460  Sum_probs=81.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++|+||||||||.||+++|++++.|++.+..                                           
T Consensus       220 v~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe  299 (802)
T KOG0733|consen  220 VRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKRE  299 (802)
T ss_pred             CCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcccHHHHHHHHHHHhccCCeEEEeecccccccchh
Confidence            7789999999999999999999999999999998886                                           


Q ss_pred             --------------------eeec--ccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 --------------------IFFK--KYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 --------------------~~~~--~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                          +...  .+.+|+||++||+|+.+|+++.|  |||..|.++.|++.++.+|+....+.|
T Consensus       300 ~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~l  377 (802)
T KOG0733|consen  300 EAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGL  377 (802)
T ss_pred             hHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhC
Confidence                                0111  24779999999999999999988  999999999999999999999887754

>KOG0730|consensus

Probab=99.82  E-value=4.6e-20  Score=134.17  Aligned_cols=91  Identities=34%  Similarity=0.514  Sum_probs=82.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++|++|||||||||++|+++|++.+++|+.+..                                           
T Consensus       465 i~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~  544 (693)
T KOG0730|consen  465 ISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRG  544 (693)
T ss_pred             CCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccC
Confidence            6789999999999999999999999999999998765                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                        --++...+++++++||+++.+|+|++|  |+|..++++.|+.+.+.+|++...+++
T Consensus       545 g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkm  618 (693)
T KOG0730|consen  545 GSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKM  618 (693)
T ss_pred             CCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcC
Confidence                              024455689999999999999999999  999999999999999999999987653

>KOG0738|consensus

Probab=99.81  E-value=7.1e-20  Score=127.17  Aligned_cols=93  Identities=29%  Similarity=0.360  Sum_probs=80.2

Q ss_pred             cccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------
Q psy4924          10 SNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------   49 (105)
Q Consensus        10 ~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------   49 (105)
                      +.+..+=++++++||||+|||.||+++|.+.+..|++++.                                        
T Consensus       239 ~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs  318 (491)
T KOG0738|consen  239 KGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCS  318 (491)
T ss_pred             hhcccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhhccchHHHHHHHHHHHHHhCCceeehhhHHHHHh
Confidence            3344455789999999999999999999999999998886                                        


Q ss_pred             --------------------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 --------------------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 --------------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                                -.++....|+|+++||.|+++|.|++|||+..++++.|+.+++..+++..+..
T Consensus       319 ~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~~  397 (491)
T KOG0738|consen  319 QRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILLRS  397 (491)
T ss_pred             cCCCccchhHHHHHHHHHHHHhhccccccccceeEEEEeccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhhcc
Confidence                                      02333345899999999999999999999999999999999999999988754

>KOG0733|consensus

Probab=99.79  E-value=6.5e-19  Score=127.82  Aligned_cols=89  Identities=33%  Similarity=0.446  Sum_probs=80.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +..+.+++||||||||||.||+++|++.+.+|+.+..                                           
T Consensus       542 i~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~  621 (802)
T KOG0733|consen  542 IDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRS  621 (802)
T ss_pred             CCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccC
Confidence            5668899999999999999999999999999988775                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                        -.++...+|.++++||+|+.+|+|++|  |+|...+++.|+.+++..|++...+
T Consensus       622 ~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  622 DEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITK  693 (802)
T ss_pred             CCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhc
Confidence                              034555789999999999999999998  9999999999999999999998776

>KOG0734|consensus

Probab=99.78  E-value=2.5e-19  Score=128.56  Aligned_cols=89  Identities=28%  Similarity=0.417  Sum_probs=81.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------------------   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------------------   49 (105)
                      -+++|+|+||||+|||.|||++|.+.+.||+..+.                                             
T Consensus       336 LPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VGvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~  415 (752)
T KOG0734|consen  336 LPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPS  415 (752)
T ss_pred             CCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhcccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCcc
Confidence            37899999999999999999999999999988765                                             


Q ss_pred             ----------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ----------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ----------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                      -.+..+++++++++||+++.+|.|+.|  |||.++.++.|+...+.+|++.+++++
T Consensus       416 ~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki  487 (752)
T KOG0734|consen  416 DQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKI  487 (752)
T ss_pred             HHHHHHHHHHHHHHHhcCcCcCCceEEEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcC
Confidence                            145777899999999999999999998  999999999999999999999998765

>KOG0737|consensus

Probab=99.78  E-value=6.5e-19  Score=121.42  Aligned_cols=91  Identities=27%  Similarity=0.397  Sum_probs=80.6

Q ss_pred             ccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------------------
Q psy4924          11 NIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------------------   49 (105)
Q Consensus        11 ~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------------------   49 (105)
                      .++.++++++|+||||+|||.+|+++|++.+++++.+..                                         
T Consensus       122 ~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWfgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~  201 (386)
T KOG0737|consen  122 KLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWFGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQ  201 (386)
T ss_pred             ccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhHHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhh
Confidence            346688999999999999999999999999999998876                                         


Q ss_pred             ----------------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ----------------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ----------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                            +.-+....++|+++||+|.++|.|++||+...++++.|+.+++..|++-.++
T Consensus       202 R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk  275 (386)
T KOG0737|consen  202 RRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRPFDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILK  275 (386)
T ss_pred             cccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCCccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhc
Confidence                                  1234445699999999999999999999999999999999999999988764

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.78  E-value=1.7e-18  Score=124.82  Aligned_cols=91  Identities=26%  Similarity=0.383  Sum_probs=78.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +..+++++|+||||||||++|+++|++.+.+++.++.                             +             
T Consensus       256 l~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~  335 (489)
T CHL00195        256 LPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSE  335 (489)
T ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccChHHHHHHHHHHHHHhcCCcEEEehhhhhhhcccc
Confidence            4568899999999999999999999999999877653                             0             


Q ss_pred             -----------------ee-cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          51 -----------------FF-KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        51 -----------------~~-~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                       .+ ....++++++|||+++.+|+++++  |||..++++.|+.+++..||+.++.+.
T Consensus       336 ~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~  408 (489)
T CHL00195        336 SKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKF  408 (489)
T ss_pred             CCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhc
Confidence                             01 123568899999999999999988  999999999999999999999988753

>KOG0731|consensus

Probab=99.77  E-value=6.1e-19  Score=130.82  Aligned_cols=90  Identities=29%  Similarity=0.401  Sum_probs=80.3

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce--------------------------------------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA--------------------------------------------   49 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~--------------------------------------------   49 (105)
                      ..+++++|+||||||||.||+++|.+.+.||+.++.                                            
T Consensus       342 KiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G  421 (774)
T KOG0731|consen  342 KIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGG  421 (774)
T ss_pred             cCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhcccchHHHHHHHHHhhccCCeEEEecccccccccccc
Confidence            348999999999999999999999999999998886                                            


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                           --+.....|+++++||+++.+|+|++|  |||.++.++.|+...+.+|++.+++++
T Consensus       422 ~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~  498 (774)
T KOG0731|consen  422 KGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKK  498 (774)
T ss_pred             cccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhcc
Confidence                                 023344679999999999999999998  999999999999999999999988654

>KOG0743|consensus

Probab=99.77  E-value=1.2e-18  Score=122.73  Aligned_cols=93  Identities=30%  Similarity=0.431  Sum_probs=79.7

Q ss_pred             ccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------------
Q psy4924           9 KSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------------   49 (105)
Q Consensus         9 ~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------------   49 (105)
                      .+.-.+|.|+++||||||||||+++.|+|+.++-.++++..                                       
T Consensus       228 krvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr~LL~~t~~kSIivIEDIDcs~~l~~~~~~  307 (457)
T KOG0743|consen  228 KRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDIDCSFDLRERRKK  307 (457)
T ss_pred             HhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHHHHHHHhCCCCcEEEEeeccccccccccccc
Confidence            33337889999999999999999999999999998887765                                       


Q ss_pred             -----------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 -----------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 -----------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                             +..+.+..-+++.|||+.+.+|+|++|  |.|+++++++.+.++...++++++.
T Consensus       308 ~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~  384 (457)
T KOG0743|consen  308 KKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLG  384 (457)
T ss_pred             ccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcC
Confidence                                   122333456789999999999999999  9999999999999999999988864

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

Probab=99.77  E-value=1.3e-18  Score=116.12  Aligned_cols=88  Identities=26%  Similarity=0.363  Sum_probs=80.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      ++.+++|||||+|||++|+++|++.+.|++.+..                                              
T Consensus       151 PknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQe  230 (368)
T COG1223         151 PKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQE  230 (368)
T ss_pred             cceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHH
Confidence            6789999999999999999999999999987765                                              


Q ss_pred             ----------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ----------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ----------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                      -.+.++.++..|++||+++.+|+++.+||+-.+.+..|+.+++.+|+..+.+.+
T Consensus       231 lRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~  300 (368)
T COG1223         231 LRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKF  300 (368)
T ss_pred             hcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhC
Confidence                            146788899999999999999999999999999999999999999999887653

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

Probab=99.73  E-value=3e-17  Score=116.02  Aligned_cols=90  Identities=36%  Similarity=0.427  Sum_probs=75.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +.++++++|+||||||||++++++|++++.+++.+..                             +             
T Consensus       176 l~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~  255 (398)
T PTZ00454        176 IDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRF  255 (398)
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccc
Confidence            5678999999999999999999999999988765432                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....++.++++||+++.+|+++++  ||+..+.++.|+.+++..||+.+..+
T Consensus       256 ~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~  331 (398)
T PTZ00454        256 DAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSK  331 (398)
T ss_pred             cccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhc
Confidence                                  01123467899999999999999998  99999999999999999999887654

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.72  E-value=2.8e-17  Score=118.78  Aligned_cols=90  Identities=38%  Similarity=0.508  Sum_probs=73.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc----------cccce---------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL----------QTPQA---------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~----------~~~~~---------------------------------   49 (105)
                      +.++++++||||||||||++++++|++++.+.          ..+..                                 
T Consensus       213 l~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~I  292 (512)
T TIGR03689       213 LKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVI  292 (512)
T ss_pred             CCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCce
Confidence            56688999999999999999999999986541          11110                                 


Q ss_pred             e---------------------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHH
Q psy4924          50 I---------------------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFN   94 (105)
Q Consensus        50 ~---------------------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~   94 (105)
                      +                                 .+...++++++++||+++.+|++++|  |||..++++.|+.+++..
T Consensus       293 IfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~  372 (512)
T TIGR03689       293 VFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAAD  372 (512)
T ss_pred             EEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHH
Confidence            0                                 11222568899999999999999998  999999999999999999


Q ss_pred             HHHHHHHH
Q psy4924          95 IFSSCVEE  102 (105)
Q Consensus        95 i~~~~~~~  102 (105)
                      |++.++.+
T Consensus       373 Il~~~l~~  380 (512)
T TIGR03689       373 IFSKYLTD  380 (512)
T ss_pred             HHHHHhhc
Confidence            99988753

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

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.72  E-value=3.1e-17  Score=118.61  Aligned_cols=89  Identities=34%  Similarity=0.439  Sum_probs=80.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++|+||||||||.+|+++|.+.+.+++.+..                                           
T Consensus       273 ~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~  352 (494)
T COG0464         273 LRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRG  352 (494)
T ss_pred             CCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCC
Confidence            5667899999999999999999999999999987765                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                        ..++...+++++++||+++.+|+++++  ||+..++++.|+.+++..+++.++.
T Consensus       353 ~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~  424 (494)
T COG0464         353 PSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLR  424 (494)
T ss_pred             CCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhc
Confidence                              025666789999999999999999999  9999999999999999999998876

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.72  E-value=3.7e-17  Score=122.85  Aligned_cols=90  Identities=33%  Similarity=0.413  Sum_probs=76.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +.++++++|+||||||||++|+++|.+.+.+++.+..                             +             
T Consensus       484 ~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~  563 (733)
T TIGR01243       484 IRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARG  563 (733)
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCC
Confidence            4567889999999999999999999999998876543                             0             


Q ss_pred             --------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 --------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 --------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                          .+....+++++++||+++.+|+++++  ||+..++++.|+.+++..||+.+..+
T Consensus       564 ~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~  637 (733)
T TIGR01243       564 ARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRS  637 (733)
T ss_pred             CCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcC
Confidence                                11234578999999999999999998  99999999999999999999876543

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.71  E-value=7e-17  Score=116.89  Aligned_cols=90  Identities=30%  Similarity=0.416  Sum_probs=75.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      ...+++++|+||||||||++++++|++.+.+++.++.                             +             
T Consensus        85 ~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~  164 (495)
T TIGR01241        85 AKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRG  164 (495)
T ss_pred             CCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccc
Confidence            3457789999999999999999999999999876542                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....+++++++||+++.+|+++++  ||+..+.++.|+.+++.+|++.++.+
T Consensus       165 ~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~  240 (495)
T TIGR01241       165 AGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKN  240 (495)
T ss_pred             cCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhc
Confidence                                  01123457899999999999999997  89999999999999999999988754

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.71  E-value=7.9e-17  Score=113.71  Aligned_cols=90  Identities=33%  Similarity=0.390  Sum_probs=75.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +.++++++|+||||||||++|+++|++++.+++.+..                             +             
T Consensus       162 ~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~  241 (389)
T PRK03992        162 IEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRT  241 (389)
T ss_pred             CCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccc
Confidence            4668899999999999999999999999988765432                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....++.++++||+++.+|+++++  ||+..+.++.|+.+++..|+..+..+
T Consensus       242 ~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~  317 (389)
T PRK03992        242 DSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRK  317 (389)
T ss_pred             cCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhcc
Confidence                                  01122468899999999999999997  99999999999999999999987654

>KOG0740|consensus

Probab=99.70  E-value=3.3e-17  Score=115.57  Aligned_cols=95  Identities=27%  Similarity=0.276  Sum_probs=84.2

Q ss_pred             cccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce--------------------------------------
Q psy4924           8 VKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA--------------------------------------   49 (105)
Q Consensus         8 ~~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~--------------------------------------   49 (105)
                      ++..+-++.++++|+||||+|||.|++++|.+.+..+.+++.                                      
T Consensus       178 ~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~~Ge~eK~vralf~vAr~~qPsvifidEidsl  257 (428)
T KOG0740|consen  178 LFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKYVGESEKLVRALFKVARSLQPSVIFIDEIDSL  257 (428)
T ss_pred             hhhccccccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhccChHHHHHHHHHHHHHhcCCeEEEechhHHH
Confidence            444456678899999999999999999999999999998876                                      


Q ss_pred             -------------------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 -------------------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 -------------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                               ......++++++++||+|+.+|.++.+||...++++.|+.+.+..+|+..+.+
T Consensus       258 ls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~  335 (428)
T KOG0740|consen  258 LSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKE  335 (428)
T ss_pred             HhhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEecCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHh
Confidence                                     14455578999999999999999999999999999999999999999998865

>KOG0727|consensus

Probab=99.69  E-value=7.2e-17  Score=107.81  Aligned_cols=90  Identities=34%  Similarity=0.399  Sum_probs=78.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.+++++++|||||||||.|++++|++....|+.+..                                           
T Consensus       186 idpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylgegprmvrdvfrlakenapsiifideidaiatkrf  265 (408)
T KOG0727|consen  186 IDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRF  265 (408)
T ss_pred             CCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhhc
Confidence            7789999999999999999999999999999887665                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           -.+....++-++++||+.+.+|+++++  |.|..+.+++|+..+.+-+|+-..++
T Consensus       266 daqtgadrevqril~ellnqmdgfdq~~nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titsk  341 (408)
T KOG0727|consen  266 DAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSK  341 (408)
T ss_pred             cccccccHHHHHHHHHHHHhccCcCcccceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhc
Confidence                                 034556788999999999999999998  89999999999988888777765543

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.68  E-value=2.1e-16  Score=110.11  Aligned_cols=88  Identities=19%  Similarity=0.261  Sum_probs=74.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +..+++++||||||||||.+++++|++++.+++.++.                                           
T Consensus       145 ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~  224 (413)
T PLN00020        145 IKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAG  224 (413)
T ss_pred             CCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhc
Confidence            5678999999999999999999999999999987775                                           


Q ss_pred             ---------------e-----e---------e-------cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHH
Q psy4924          50 ---------------I-----F---------F-------KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAA   91 (105)
Q Consensus        50 ---------------~-----~---------~-------~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~   91 (105)
                                     +     .         +       +....+.+++|||+++.+|++++|  |||..+  ..|+.++
T Consensus       225 ~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~i--~lPd~e~  302 (413)
T PLN00020        225 AGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFY--WAPTRED  302 (413)
T ss_pred             CCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCcee--CCCCHHH
Confidence                           0     0         0       234668999999999999999999  999865  5899999


Q ss_pred             HHHHHHHHHHH
Q psy4924          92 IFNIFSSCVEE  102 (105)
Q Consensus        92 ~~~i~~~~~~~  102 (105)
                      +.+|+..+++.
T Consensus       303 R~eIL~~~~r~  313 (413)
T PLN00020        303 RIGVVHGIFRD  313 (413)
T ss_pred             HHHHHHHHhcc
Confidence            99999877643

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

Probab=99.68  E-value=2.2e-16  Score=112.65  Aligned_cols=90  Identities=31%  Similarity=0.373  Sum_probs=75.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +.++++++|+||||||||++|+++|++++.+++.+..                             +             
T Consensus       214 i~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~  293 (438)
T PTZ00361        214 IKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRY  293 (438)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCC
Confidence            5578899999999999999999999999988765432                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....++.++++||+++.+|+++++  ||+..+.++.|+.+++..|++.+..+
T Consensus       294 ~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k  369 (438)
T PTZ00361        294 DATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSK  369 (438)
T ss_pred             CCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhc
Confidence                                  00123467899999999999999987  99999999999999999999987654

>KOG0739|consensus

Probab=99.67  E-value=7.5e-17  Score=109.54  Aligned_cols=85  Identities=32%  Similarity=0.447  Sum_probs=73.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      =++++||||||+|||.||+++|.+.+..|+.++.                                              
T Consensus       166 wrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enE  245 (439)
T KOG0739|consen  166 WRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENE  245 (439)
T ss_pred             ceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCc
Confidence            3579999999999999999999999999988775                                              


Q ss_pred             ------------e----eecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 ------------I----FFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ------------~----~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                  +    .-.....+.++++||.|+.+|.|+.|||+..|+++.|...++.++|+-++
T Consensus       246 seasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhl  312 (439)
T KOG0739|consen  246 SEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHL  312 (439)
T ss_pred             hHHHHHHHHHHHHhhhccccCCCceEEEecCCCchhHHHHHHHHhhcceeccCCcHHHhhhhheecc
Confidence                        0    11334678999999999999999999999999999999999988887654

>KOG0652|consensus

Probab=99.66  E-value=3.2e-16  Score=105.15  Aligned_cols=90  Identities=28%  Similarity=0.323  Sum_probs=78.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.+++++++|||||+|||.+|++.|.+.+..|..+..                                           
T Consensus       202 i~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMfIGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRf  281 (424)
T KOG0652|consen  202 IRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRF  281 (424)
T ss_pred             CCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhhhcchHHHHHHHHHHhhccCCeEEEEechhhhccccc
Confidence            7789999999999999999999999999988866554                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           -.++....+-++++||+.+.+|+++++  |.|..+.++.|..+++.+|+.-+-.+
T Consensus       282 DSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRK  357 (424)
T KOG0652|consen  282 DSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRK  357 (424)
T ss_pred             cccccccHHHHHHHHHHHHhhcCCCCccceEEEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhh
Confidence                                 145667889999999999999999998  89999999999999998888765443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.66  E-value=9.1e-16  Score=107.43  Aligned_cols=90  Identities=32%  Similarity=0.384  Sum_probs=74.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +.++++++|+||||||||++++++|++++.+++.+..                             +             
T Consensus       153 ~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~  232 (364)
T TIGR01242       153 IEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRT  232 (364)
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccc
Confidence            4557889999999999999999999999988765442                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....++.++++||+++.+|+++++  ||+..+.++.|+.+++..|+..+..+
T Consensus       233 ~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~  308 (364)
T TIGR01242       233 DSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRK  308 (364)
T ss_pred             cCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhc
Confidence                                  01123478899999999999999987  89999999999999999999877643

Many proteins may score above the trusted cutoff because an internal

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=2.9e-16  Score=114.61  Aligned_cols=86  Identities=30%  Similarity=0.429  Sum_probs=76.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      +++++|+||||+|||.||+++|.+.+.|++.++.                                              
T Consensus       183 PkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemfVGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~  262 (596)
T COG0465         183 PKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGL  262 (596)
T ss_pred             ccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhhcCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCC
Confidence            7899999999999999999999999999988876                                              


Q ss_pred             ---------------e---eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ---------------I---FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ---------------~---~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                     +   .+..+..++++++||+++.+|+|++|  |||.++.++.|+...+.+|++-+.+
T Consensus       263 GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~  334 (596)
T COG0465         263 GGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAK  334 (596)
T ss_pred             CCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhh
Confidence                           0   23444689999999999999999998  9999999999999999999986654

>KOG0736|consensus

Probab=99.65  E-value=7.9e-16  Score=114.12  Aligned_cols=90  Identities=29%  Similarity=0.414  Sum_probs=73.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.+..+++||||||+|||.+|+++|.+....|..+..                                           
T Consensus       702 lrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG  781 (953)
T KOG0736|consen  702 LRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENVREVFERARSAAPCVIFFDELDSLAPNRG  781 (953)
T ss_pred             ccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchHHHHHHHHHHhhccCCeEEEeccccccCccCC
Confidence            3345689999999999999999999999999987765                                           


Q ss_pred             --------------------eeec--ccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCC-CHHHHHHHHHHHHHH
Q psy4924          50 --------------------IFFK--KYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFP-SAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 --------------------~~~~--~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~-~~~~~~~i~~~~~~~  102 (105)
                                          -.++  ....++++++||+|+.+|++++|  |||.-++++.+ +.+....++....++
T Consensus       782 ~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrk  859 (953)
T KOG0736|consen  782 RSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRK  859 (953)
T ss_pred             CCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHH
Confidence                                0222  55789999999999999999998  99999999999 555666666655443

>KOG0728|consensus

Probab=99.65  E-value=5.1e-16  Score=103.67  Aligned_cols=89  Identities=31%  Similarity=0.379  Sum_probs=79.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +..+++++||||||+|||.||+++|.+..|.|+.++.                                           
T Consensus       178 IaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~igegsrmvrelfvmarehapsiifmdeidsigs~r~  257 (404)
T KOG0728|consen  178 IAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRV  257 (404)
T ss_pred             CCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhhHHHHHHHHHHHHhcCCceEeeecccccccccc
Confidence            7789999999999999999999999999999998876                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                           -.++...++-++++||+.+.+|+|+++  |.|..+.++.|+.+++..|++-+-.
T Consensus       258 e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsr  332 (404)
T KOG0728|consen  258 ESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSR  332 (404)
T ss_pred             cCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhh
Confidence                                 135666788899999999999999998  8999999999999999999876644

>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=99.64  E-value=1e-15  Score=100.49  Aligned_cols=85  Identities=24%  Similarity=0.423  Sum_probs=63.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      -..++||||||+||||||+.+|++++.++...+.                                              
T Consensus        50 l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~~dl~~il~~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~  129 (233)
T PF05496_consen   50 LDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKAGDLAAILTNLKEGDILFIDEIHRLNKAQQEILLPAMEDGK  129 (233)
T ss_dssp             --EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SCHHHHHHHHT--TT-EEEECTCCC--HHHHHHHHHHHHCSE
T ss_pred             cceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhHHHHHHHHHhcCCCcEEEEechhhccHHHHHHHHHHhccCe
Confidence            3479999999999999999999999998865554                                              


Q ss_pred             e--eec----------ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 I--FFK----------KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ~--~~~----------~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      +  .+.          .-+++.++++|.+...+..++.+||.+...+++-+.+++..|+++..
T Consensus       130 idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a  192 (233)
T PF05496_consen  130 IDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSA  192 (233)
T ss_dssp             EEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCC
T ss_pred             EEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHH
Confidence            0  111          11567899999999999999999999999999999999999998754

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.

>CHL00176 ftsH cell division protein; Validated

Probab=99.64  E-value=1.4e-15  Score=112.63  Aligned_cols=89  Identities=29%  Similarity=0.450  Sum_probs=75.4

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e--------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I--------------   50 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~--------------   50 (105)
                      ..+++++|+||||||||++|+++|.+.+.+++.++.                             +              
T Consensus       214 ~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~  293 (638)
T CHL00176        214 KIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGA  293 (638)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhhhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccC
Confidence            346789999999999999999999999998876542                             0              


Q ss_pred             ---------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ---------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ---------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           .+....+++++++||+++.+|+++++  ||+..+.++.|+.+++..|++.++++
T Consensus       294 ~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~  368 (638)
T CHL00176        294 GIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN  368 (638)
T ss_pred             CCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhh
Confidence                                 01133568899999999999999987  89999999999999999999988764

>KOG0735|consensus

Probab=99.62  E-value=2.2e-15  Score=111.22  Aligned_cols=91  Identities=27%  Similarity=0.391  Sum_probs=78.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      ++...+++||||||||||.||.++|...+..++.+..                                           
T Consensus       698 lr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRG  777 (952)
T KOG0735|consen  698 LRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRG  777 (952)
T ss_pred             cccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcccHHHHHHHHHHhhccCCeEEEeccccccCcccC
Confidence            4556789999999999999999999999999988765                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                        -..+.-.+|.++++|.+|+.+|+|++|  |+|..++++.|++.++.+|++..-..+
T Consensus       778 hDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~  851 (952)
T KOG0735|consen  778 HDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSL  851 (952)
T ss_pred             CCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhcc
Confidence                              022334678999999999999999998  999999999999999999998776543

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.61  E-value=3.7e-15  Score=110.79  Aligned_cols=88  Identities=30%  Similarity=0.452  Sum_probs=75.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e---------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I---------------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~---------------   50 (105)
                      .+++++|+||||+|||+++++++++++.+++..+.                             +               
T Consensus       184 ~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~  263 (644)
T PRK10733        184 IPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAG  263 (644)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCC
Confidence            35679999999999999999999999998876543                             0               


Q ss_pred             --------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 --------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 --------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                          .+.....++++++||+++.+|+++++  |||..+.++.|+.+++.+|++.++.+
T Consensus       264 ~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~  337 (644)
T PRK10733        264 LGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR  337 (644)
T ss_pred             CCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhc
Confidence                                11223568999999999999999997  99999999999999999999998765

>KOG0742|consensus

Probab=99.60  E-value=3e-15  Score=105.33  Aligned_cols=89  Identities=22%  Similarity=0.377  Sum_probs=76.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      -+.+++|||||+|||.+|+.||.+.|..+-.+..                                              
T Consensus       384 fRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaVTkiH~lFDWakkS~rGLllFIDEADAFLceRnkty  463 (630)
T KOG0742|consen  384 FRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTY  463 (630)
T ss_pred             hhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccccchHHHHHHHHHHHHHhhcccceEEEehhhHHHHHHhchhh
Confidence            4679999999999999999999999988765443                                              


Q ss_pred             -----------e---eecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHhh
Q psy4924          50 -----------I---FFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELK  104 (105)
Q Consensus        50 -----------~---~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l~  104 (105)
                                 .   +=+....++++.+||+|.++|.++-||+|-.+.++.|.+++++.+++.++.+.+
T Consensus       464 mSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgdlDsAV~DRide~veFpLPGeEERfkll~lYlnkyi  532 (630)
T KOG0742|consen  464 MSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNKYI  532 (630)
T ss_pred             hcHHHHHHHHHHHHHhcccccceEEEeccCCccchhHHHHhhhhheeecCCCChHHHHHHHHHHHHHHh
Confidence                       0   123345678899999999999999999999999999999999999999998754

>KOG0729|consensus

Probab=99.60  E-value=4.7e-16  Score=104.62  Aligned_cols=86  Identities=33%  Similarity=0.403  Sum_probs=73.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.+++++++|||||+|||.+|+++|+..+..|+.+-.                                           
T Consensus       208 idppkgvllygppgtgktl~aravanrtdacfirvigselvqkyvgegarmvrelf~martkkaciiffdeidaiggarf  287 (435)
T KOG0729|consen  208 IDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAIGGARF  287 (435)
T ss_pred             CCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhhhHHHHHHHHHHhcccceEEEEeeccccccCccc
Confidence            7789999999999999999999999999998876543                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                                           -.+....++-++++||+|+.+|+++++  |.|..+.++.|+.+.+.+|++-
T Consensus       288 ddg~ggdnevqrtmleli~qldgfdprgnikvlmatnrpdtldpallrpgrldrkvef~lpdlegrt~i~ki  359 (435)
T KOG0729|consen  288 DDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKI  359 (435)
T ss_pred             cCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEeecCCCCCcCHhhcCCcccccceeccCCcccccceeEEE
Confidence                                 034555678899999999999999998  8999999999998877666543

>KOG0651|consensus

Probab=99.56  E-value=3.1e-15  Score=101.87  Aligned_cols=85  Identities=33%  Similarity=0.429  Sum_probs=73.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||+|||.++++++...++.++.+..                                           
T Consensus       163 Ik~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiGEsaRlIRemf~yA~~~~pciifmdeiDAigGRr~  242 (388)
T KOG0651|consen  163 IKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIGESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRF  242 (388)
T ss_pred             CCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhcccHHHHHHHHHHHHhhhCceEEeehhhhhhccEEe
Confidence            6678999999999999999999999999999887665                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFS   97 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~   97 (105)
                                           -.++...+|-+|+|+|+++.+|+++++  |.|..++++.|....+..|++
T Consensus       243 se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~K  313 (388)
T KOG0651|consen  243 SEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILK  313 (388)
T ss_pred             ccccchhHHHHHHHHHHHHhhccchhcccccEEEecCCccccchhhcCCccccceeccCCcchhhceeeEe
Confidence                                 034555778899999999999999998  999999999998887665544

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.56  E-value=2.2e-14  Score=114.18  Aligned_cols=43  Identities=14%  Similarity=0.154  Sum_probs=37.0

Q ss_pred             cCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHH
Q psy4924          55 YPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFS   97 (105)
Q Consensus        55 ~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~   97 (105)
                      ..+++|++|||+|+.+|+|+++  |||..+.++.|+..++..++.
T Consensus      1770 ~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ 1814 (2281)
T CHL00206       1770 TRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFF 1814 (2281)
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHH
Confidence            3578999999999999999998  999999999998766665554

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.55  E-value=2.7e-14  Score=107.58  Aligned_cols=89  Identities=34%  Similarity=0.375  Sum_probs=73.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +.++++++|+||||||||++++++|++++.+++.++.                             +             
T Consensus       209 i~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~  288 (733)
T TIGR01243       209 IEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKRE  288 (733)
T ss_pred             CCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcccccHHHHHHHHHHHHHHhcCCcEEEeehhhhhccccc
Confidence            4668899999999999999999999999988765442                             0             


Q ss_pred             -------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 -------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 -------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                         .+.....++++++||.++.+|+++.+  ||+..+.++.|+.+++..|++....
T Consensus       289 ~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~  360 (733)
T TIGR01243       289 EVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR  360 (733)
T ss_pred             CCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhc
Confidence                               11223467889999999999999887  8999999999999999999986554

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.

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

Probab=99.53  E-value=8.2e-14  Score=93.97  Aligned_cols=86  Identities=27%  Similarity=0.417  Sum_probs=73.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------------------   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------------------   49 (105)
                      .-.+++|+||||.||||||+.+|++++..+...+.                                             
T Consensus        51 ~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK~gDlaaiLt~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf  130 (332)
T COG2255          51 ALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLSPAVEEVLYPAMEDF  130 (332)
T ss_pred             CcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccChhhHHHHHhcCCcCCeEEEehhhhcChhHHHHhhhhhhhe
Confidence            34579999999999999999999999988766554                                             


Q ss_pred             --------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 --------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 --------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                    +.+.. +++.++++|.+...+...+.+||.+...+++-+.+++.+|+.+.-.
T Consensus       131 ~lDI~IG~gp~Arsv~ldL-ppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~  195 (332)
T COG2255         131 RLDIIIGKGPAARSIRLDL-PPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAK  195 (332)
T ss_pred             eEEEEEccCCccceEeccC-CCeeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHH
Confidence                          01111 6788999999999999999999999999999999999999988764

>KOG0726|consensus

Probab=99.52  E-value=1.4e-14  Score=98.47  Aligned_cols=86  Identities=31%  Similarity=0.352  Sum_probs=73.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++|||+||+|||.||+++|++....|..+..                                           
T Consensus       216 ikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRy  295 (440)
T KOG0726|consen  216 IKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRY  295 (440)
T ss_pred             CCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhccchHHHHHHHHHHHhcCCceEEeehhhhhccccc
Confidence            6679999999999999999999999999988876554                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                                           -.++....+-++++||+.+.+|++++|  |.|..+.++.|+......||.-
T Consensus       296 ds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~I  367 (440)
T KOG0726|consen  296 DSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQI  367 (440)
T ss_pred             cCCCccHHHHHHHHHHHHHhccCccccCCeEEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEE
Confidence                                 024445678899999999999999998  8999999999998887776643

>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=99.52  E-value=4e-14  Score=85.42  Aligned_cols=67  Identities=39%  Similarity=0.531  Sum_probs=55.7

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------------
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------------   49 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------------   49 (105)
                      ++|+||||+|||++++.+|+.++.+++.++.                                                 
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~~~~~~~   80 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKSQPSSSS   80 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHCSTSSSH
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccccccccc
Confidence            6899999999999999999999988876654                                                 


Q ss_pred             --------------eeecccCCEEEEEeeCCCCCCCHHhh-cccceEEEeC
Q psy4924          50 --------------IFFKKYPNVLIFTTSNLTGAIDLAFL-DRADIKQYIG   85 (105)
Q Consensus        50 --------------~~~~~~~~~~~~~~~n~~~~~d~~~~-~r~~~~~~~~   85 (105)
                                    -......++.+++++|.++.+++++. +||+..++++
T Consensus        81 ~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~~rf~~~i~~~  131 (132)
T PF00004_consen   81 FEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLRSRFDRRIEFP  131 (132)
T ss_dssp             HHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHSTTSEEEEEE-
T ss_pred             ccccccceeeecccccccccccceeEEeeCChhhCCHhHHhCCCcEEEEcC
Confidence                          01122245899999999999999999 9999999876

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 ....

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

Probab=99.52  E-value=6.2e-14  Score=98.08  Aligned_cols=96  Identities=21%  Similarity=0.326  Sum_probs=72.9

Q ss_pred             ccccccccccCCc--eEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------
Q psy4924           5 HSKVKSNIISWNR--VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------   49 (105)
Q Consensus         5 ~~~~~~~~~~~~~--~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------   49 (105)
                      ..+++..++..+.  ..+||||||+||||+|+.||...+..|..++.                                 
T Consensus        35 ~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~gvkdlr~i~e~a~~~~~~gr~tiLflDEIH  114 (436)
T COG2256          35 EGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLREIIEEARKNRLLGRRTILFLDEIH  114 (436)
T ss_pred             CCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccccHHHHHHHHHHHHHHHhcCCceEEEEehhh
Confidence            3445555555443  69999999999999999999999999988776                                 


Q ss_pred             ----------eeecccCCEEEEEee--CCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ----------IFFKKYPNVLIFTTS--NLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ----------~~~~~~~~~~~~~~~--n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                +..-+...+++|++|  |+...+.+++++|+.+.. +...+.+++..++++.+.
T Consensus       115 RfnK~QQD~lLp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~-lk~L~~~di~~~l~ra~~  177 (436)
T COG2256         115 RFNKAQQDALLPHVENGTIILIGATTENPSFELNPALLSRARVFE-LKPLSSEDIKKLLKRALL  177 (436)
T ss_pred             hcChhhhhhhhhhhcCCeEEEEeccCCCCCeeecHHHhhhhheee-eecCCHHHHHHHHHHHHh
Confidence                      134455667777765  677899999999987654 455578888888888543

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

Probab=99.50  E-value=1.1e-13  Score=102.26  Aligned_cols=84  Identities=26%  Similarity=0.442  Sum_probs=69.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------------------   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------------------   49 (105)
                      .|..++|+||||+|||+|++.||+.++..|+.++.                                             
T Consensus       349 kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIGamPGrIiQ~mkka~~~NPv~LLDEIDK  428 (782)
T COG0466         349 KGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKNPVFLLDEIDK  428 (782)
T ss_pred             CCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccccCChHHHHHHHHhCCcCCeEEeechhh
Confidence            36789999999999999999999999999998776                                             


Q ss_pred             -------------------------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHH
Q psy4924          50 -------------------------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        50 -------------------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                                                     +.++. ..|++++|.|..+.++.+++||+++....+|. .++..+|-++
T Consensus       429 m~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDL-S~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt-~~EKl~IAk~  506 (782)
T COG0466         429 MGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDL-SKVMFIATANSLDTIPAPLLDRMEVIRLSGYT-EDEKLEIAKR  506 (782)
T ss_pred             ccCCCCCChHHHHHhhcCHhhcCchhhccccCccch-hheEEEeecCccccCChHHhcceeeeeecCCC-hHHHHHHHHH
Confidence                                           01111 56899999999999999999999988877777 5555666655


Q ss_pred             HH
Q psy4924          99 CV  100 (105)
Q Consensus        99 ~~  100 (105)
                      ++
T Consensus       507 ~L  508 (782)
T COG0466         507 HL  508 (782)
T ss_pred             hc
Confidence            54

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.48  E-value=3.7e-13  Score=92.81  Aligned_cols=87  Identities=23%  Similarity=0.336  Sum_probs=71.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +..++.++|.||||||||++++.+|+.++.+++.+..                                           
T Consensus        61 l~~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~g~illl  140 (327)
T TIGR01650        61 FAYDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQHNVALCF  140 (327)
T ss_pred             HhcCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhCCeEEEe
Confidence            3457889999999999999999999999988865443                                           


Q ss_pred             ------------------------------eeecccCCEEEEEeeCCCC------------CCCHHhhcccceEEEeCCC
Q psy4924          50 ------------------------------IFFKKYPNVLIFTTSNLTG------------AIDLAFLDRADIKQYIGFP   87 (105)
Q Consensus        50 ------------------------------~~~~~~~~~~~~~~~n~~~------------~~d~~~~~r~~~~~~~~~~   87 (105)
                                                    ..+..++.+.+++|.|...            .++.++++||.+.+.++||
T Consensus       141 DEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp  220 (327)
T TIGR01650       141 DEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMDRWSIVTTLNYL  220 (327)
T ss_pred             chhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHhheeeEeeCCCC
Confidence                                          0234556788999999743            4589999999999999999


Q ss_pred             CHHHHHHHHHHH
Q psy4924          88 SAAAIFNIFSSC   99 (105)
Q Consensus        88 ~~~~~~~i~~~~   99 (105)
                      +.++...|+.+.
T Consensus       221 ~~e~E~~Il~~~  232 (327)
T TIGR01650       221 EHDNEAAIVLAK  232 (327)
T ss_pred             CHHHHHHHHHhh
Confidence            999888887654

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.

>KOG0741|consensus

Probab=99.48  E-value=1.7e-14  Score=103.96  Aligned_cols=90  Identities=27%  Similarity=0.410  Sum_probs=73.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +..-++++||||||+|||.+||.|...++..--.+-.                                           
T Consensus       253 i~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDE  332 (744)
T KOG0741|consen  253 IKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDE  332 (744)
T ss_pred             ccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehh
Confidence            5567899999999999999999999999975432221                                           


Q ss_pred             -----------------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHH
Q psy4924          50 -----------------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        50 -----------------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                                                   -..+.-.++.+|+.||+.+.+|+|++|  |++++..+..|++..+.+|++-
T Consensus       333 iDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~I  412 (744)
T KOG0741|consen  333 IDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKI  412 (744)
T ss_pred             hHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEh
Confidence                                         023444778999999999999999998  9999999999999988877765


Q ss_pred             HHHH
Q psy4924          99 CVEE  102 (105)
Q Consensus        99 ~~~~  102 (105)
                      +.+.
T Consensus       413 HT~r  416 (744)
T KOG0741|consen  413 HTKR  416 (744)
T ss_pred             hhhh
Confidence            5443

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.43  E-value=1.6e-12  Score=90.04  Aligned_cols=87  Identities=23%  Similarity=0.413  Sum_probs=68.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------e------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------I------------------------   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------~------------------------   50 (105)
                      ...++|+||||+||||+|+++|++++..+.....                     +                        
T Consensus        51 ~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~  130 (328)
T PRK00080         51 LDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFR  130 (328)
T ss_pred             CCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHHHHHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcc
Confidence            4579999999999999999999999876543221                     0                        


Q ss_pred             ---eec----------ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ---FFK----------KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ---~~~----------~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                         .+.          ..+++.++++|++...++.++.+||...+.++.++.+++.+++.+....
T Consensus       131 ~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~  195 (328)
T PRK00080        131 LDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARI  195 (328)
T ss_pred             eeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHH
Confidence               000          1134677889999899999999999999999999999999999877653

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.43  E-value=2.3e-12  Score=88.12  Aligned_cols=86  Identities=23%  Similarity=0.400  Sum_probs=67.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------e------------------ee----
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------I------------------FF----   52 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------~------------------~~----   52 (105)
                      ...++|+||||+||||+++++|++++.++.....                     +                  .+    
T Consensus        30 ~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~  109 (305)
T TIGR00635        30 LDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFR  109 (305)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhHHHHHHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhh
Confidence            4569999999999999999999999876533221                     0                  00    


Q ss_pred             ---------------cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          53 ---------------KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        53 ---------------~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                     ...++..++++|+++..++.++.+||...+.++.++.+++..++++...
T Consensus       110 ~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~  173 (305)
T TIGR00635       110 LDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAG  173 (305)
T ss_pred             eeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHH
Confidence                           0113467888889988999999999998889999999999999887654

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.

>KOG0732|consensus

Probab=99.42  E-value=6.4e-13  Score=101.69  Aligned_cols=87  Identities=32%  Similarity=0.372  Sum_probs=72.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++++||||+|||..|+++|.....-.-.++.                                           
T Consensus       296 itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGl  375 (1080)
T KOG0732|consen  296 ITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADCLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGL  375 (1080)
T ss_pred             cCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchhhccccCcHHHHHHHHHHHHhccCceEEeccccccc
Confidence            7789999999999999999999999877643322221                                           


Q ss_pred             -----------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHH
Q psy4924          50 -----------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        50 -----------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                                             ..+...++++++++||+++.+|+++.+  ||+..+++++|+.+++.+|+...
T Consensus       376 apvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ih  450 (1080)
T KOG0732|consen  376 APVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIH  450 (1080)
T ss_pred             cccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHh
Confidence                                   145666889999999999999999987  89999999999999998887654

>KOG0730|consensus

Probab=99.41  E-value=1e-12  Score=96.33  Aligned_cols=91  Identities=31%  Similarity=0.405  Sum_probs=77.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.+++++++|||||+|||.+++++|++.++.++.+..                                           
T Consensus       215 ~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte~~LR~~f~~a~k~~~psii~IdEld~l~p~r  294 (693)
T KOG0730|consen  215 IKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETESNLRKAFAEALKFQVPSIIFIDELDALCPKR  294 (693)
T ss_pred             CCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchHHHHHHHHHHHhccCCCeeEeHHhHhhhCCcc
Confidence            6779999999999999999999999999977655443                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCCCCCCHHhhc-ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD-RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~-r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                        -.+.....+++++++|+++.+|+++.| |||..+.++.|+...+..|+..+.+.+
T Consensus       295 ~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~sld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~  367 (693)
T KOG0730|consen  295 EGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRPDSLDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKM  367 (693)
T ss_pred             cccchHHHHHHHHHHHHHhhCcCcCcEEEEEecCCccccChhhhcCCCcceeeecCCCchhHHHHHHHHHHhc
Confidence                              023344678999999999999999887 999999999999999999998877643

>KOG2004|consensus

Probab=99.40  E-value=1.1e-12  Score=97.28  Aligned_cols=83  Identities=25%  Similarity=0.441  Sum_probs=67.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------------------   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------------------   49 (105)
                      .|+.++++||||+|||++++.||+.++..|+..+.                                             
T Consensus       437 qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVGAMPGkiIq~LK~v~t~NPliLiDEvDK  516 (906)
T KOG2004|consen  437 QGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVGAMPGKIIQCLKKVKTENPLILIDEVDK  516 (906)
T ss_pred             CCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeeccCChHHHHHHHhhCCCCceEEeehhhh
Confidence            48899999999999999999999999999987765                                             


Q ss_pred             -------------------------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHH
Q psy4924          50 -------------------------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        50 -------------------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                                                     +.++. ..|++++|.|..+.++++++||++++...+|.. ++..+|-.+
T Consensus       517 lG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DL-SkVLFicTAN~idtIP~pLlDRMEvIelsGYv~-eEKv~IA~~  594 (906)
T KOG2004|consen  517 LGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDL-SKVLFICTANVIDTIPPPLLDRMEVIELSGYVA-EEKVKIAER  594 (906)
T ss_pred             hCCCCCCChHHHHHHhcChhhccchhhhccccccch-hheEEEEeccccccCChhhhhhhheeeccCccH-HHHHHHHHH
Confidence                                           01111 568899999999999999999999998888874 444444444


Q ss_pred             H
Q psy4924          99 C   99 (105)
Q Consensus        99 ~   99 (105)
                      +
T Consensus       595 y  595 (906)
T KOG2004|consen  595 Y  595 (906)
T ss_pred             h
Confidence            3

>PRK08118 topology modulation protein; Reviewed

Probab=99.40  E-value=1.5e-12  Score=82.58  Aligned_cols=82  Identities=26%  Similarity=0.523  Sum_probs=63.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccceee-------------------ecccCCEEEEEeeCCCCCCCHHhhcc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIF-------------------FKKYPNVLIFTTSNLTGAIDLAFLDR   77 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~n~~~~~d~~~~~r   77 (105)
                      ..|+++|||||||||+|+.|++.++.++++.+.+.                   +...+.|  +..+++...++. .+.+
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~w~~~~~~~~~~~~~~~~~~~~w--VidG~~~~~~~~-~l~~   78 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKEEQITVQNELVKEDEW--IIDGNYGGTMDI-RLNA   78 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcCCCHHHHHHHHHHHhcCCCE--EEeCCcchHHHH-HHHh
Confidence            46899999999999999999999999988777521                   1122333  444566555554 4567


Q ss_pred             cceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          78 ADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        78 ~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      +|..++++.|...+..++++|.++
T Consensus        79 ~d~vi~Ld~p~~~~~~R~~~R~~~  102 (167)
T PRK08118         79 ADTIIFLDIPRTICLYRAFKRRVQ  102 (167)
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHH
Confidence            999999999999999999999775

>TIGR00763 lon ATP-dependent protease La

Probab=99.37  E-value=5.1e-12  Score=95.85  Aligned_cols=85  Identities=25%  Similarity=0.355  Sum_probs=67.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------e-------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------I-------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------~-------   50 (105)
                      .+..++|+||||+|||++|+++|+.++.+++.+..                                     +       
T Consensus       346 ~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~~~g~~~g~i~~~l~~~~~~~~villDEidk  425 (775)
T TIGR00763       346 KGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVGAMPGRIIQGLKKAKTKNPLFLLDEIDK  425 (775)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCceeCCCCchHHHHHHHhCcCCCEEEEechhh
Confidence            35579999999999999999999999877764321                                     0       


Q ss_pred             ---------------eec----------------ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          51 ---------------FFK----------------KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        51 ---------------~~~----------------~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                                     .++                ...++++++|+|..+.+++++++|++ .+.++.++.+++.+|++++
T Consensus       426 ~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~~~i~~~L~~R~~-vi~~~~~~~~e~~~I~~~~  504 (775)
T TIGR00763       426 IGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSIDTIPRPLLDRME-VIELSGYTEEEKLEIAKKY  504 (775)
T ss_pred             cCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCchhCCHHHhCCee-EEecCCCCHHHHHHHHHHH
Confidence                           000                01357889999999999999999997 4677888888999888876


Q ss_pred             H
Q psy4924         100 V  100 (105)
Q Consensus       100 ~  100 (105)
                      +
T Consensus       505 l  505 (775)
T TIGR00763       505 L  505 (775)
T ss_pred             H
Confidence            5

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

>PRK07261 topology modulation protein; Provisional

Probab=99.36  E-value=3.9e-12  Score=80.90  Aligned_cols=82  Identities=15%  Similarity=0.292  Sum_probs=62.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccceeee-------------------cccCCEEEEEeeCCCCCCCHHhhccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFF-------------------KKYPNVLIFTTSNLTGAIDLAFLDRA   78 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~n~~~~~d~~~~~r~   78 (105)
                      .++|+|+||||||||++.++..++.+.++.+.+..                   -..+.  ++...++....-...++++
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~--wIidg~~~~~~~~~~l~~a   79 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFLLKHD--WIIDGNYSWCLYEERMQEA   79 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHHhCCC--EEEcCcchhhhHHHHHHHC
Confidence            58999999999999999999999999888775321                   11133  3334444443323456789


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          79 DIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        79 ~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      |..++++.|...++.++++|.+.
T Consensus        80 d~vI~Ld~p~~~~~~R~lkR~~~  102 (171)
T PRK07261         80 DQIIFLNFSRFNCLYRAFKRYLK  102 (171)
T ss_pred             CEEEEEcCCHHHHHHHHHHHHHH
Confidence            99999999999999999999764

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.33  E-value=8.7e-12  Score=86.41  Aligned_cols=86  Identities=31%  Similarity=0.465  Sum_probs=68.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +-.+++++|.||||+|||++++.+|..++.++..+..                                           
T Consensus        40 ~~~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~D  119 (329)
T COG0714          40 LLAGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLD  119 (329)
T ss_pred             HHcCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEecCCcccccceEEEEe
Confidence            3458899999999999999999999999998876665                                           


Q ss_pred             --------------------------ee-ecccCCEEEEEeeC-----CCCCCCHHhhcccceEEEeCCC-CHHHHHHHH
Q psy4924          50 --------------------------IF-FKKYPNVLIFTTSN-----LTGAIDLAFLDRADIKQYIGFP-SAAAIFNIF   96 (105)
Q Consensus        50 --------------------------~~-~~~~~~~~~~~~~n-----~~~~~d~~~~~r~~~~~~~~~~-~~~~~~~i~   96 (105)
                                                .. +.....+++++|+|     ....++.++++||.+.+++++| ..++...+.
T Consensus       120 EInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~eA~ldRf~~~~~v~yp~~~~e~~~i~  199 (329)
T COG0714         120 EINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALLDRFLLRIYVDYPDSEEEERIIL  199 (329)
T ss_pred             ccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCCHHHHhhEEEEEecCCCCchHHHHHHH
Confidence                                      13 44557788899989     5567899999999999999999 444444444


Q ss_pred             HH
Q psy4924          97 SS   98 (105)
Q Consensus        97 ~~   98 (105)
                      .+
T Consensus       200 ~~  201 (329)
T COG0714         200 AR  201 (329)
T ss_pred             Hh
Confidence            33

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.33  E-value=1.4e-11  Score=83.11  Aligned_cols=43  Identities=26%  Similarity=0.369  Sum_probs=34.9

Q ss_pred             CCEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        56 ~~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                      +++.+++|+|..     ...+.++.+|| ..+++++|+.++..+|+.+.
T Consensus       150 ~~frvIaTsN~~~~~g~~~l~~aL~~R~-~~i~i~~P~~~~e~~Il~~~  197 (262)
T TIGR02640       150 PEFRVIFTSNPVEYAGVHETQDALLDRL-ITIFMDYPDIDTETAILRAK  197 (262)
T ss_pred             CCCEEEEeeCCccccceecccHHHHhhc-EEEECCCCCHHHHHHHHHHh
Confidence            467789999975     25588899998 57899999999888888764

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).

>KOG2028|consensus

Probab=99.29  E-value=1.9e-11  Score=85.47  Aligned_cols=97  Identities=23%  Similarity=0.364  Sum_probs=71.4

Q ss_pred             cccccccccCCc--eEEEEcCCCCCHHHHHHHHHHHhCCC---ccccce-------------------------------
Q psy4924           6 SKVKSNIISWNR--VVLLHGPPGTGKTSLCKAVAQKLSIR---LQTPQA-------------------------------   49 (105)
Q Consensus         6 ~~~~~~~~~~~~--~ill~Gp~GsGKT~l~~~la~~~~~~---~~~~~~-------------------------------   49 (105)
                      .+++.++++.++  .++||||||+||||||+.|+.....+   |+.++.                               
T Consensus       150 ~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiD  229 (554)
T KOG2028|consen  150 DGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFID  229 (554)
T ss_pred             chHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeH
Confidence            445555555555  59999999999999999999988877   444443                               


Q ss_pred             -------------eeecccCCEEEEEee--CCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 -------------IFFKKYPNVLIFTTS--NLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 -------------~~~~~~~~~~~~~~~--n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                   +...+...+.+|++|  |....+..+++.|+-+.. +...+.++...|+++.+.-|
T Consensus       230 EiHRFNksQQD~fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~Vfv-LekL~~n~v~~iL~raia~l  297 (554)
T KOG2028|consen  230 EIHRFNKSQQDTFLPHVENGDITLIGATTENPSFQLNAALLSRCRVFV-LEKLPVNAVVTILMRAIASL  297 (554)
T ss_pred             HhhhhhhhhhhcccceeccCceEEEecccCCCccchhHHHHhccceeE-eccCCHHHHHHHHHHHHHhh
Confidence                         134455667777765  677899999999997654 45556888888888876543

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=99.29  E-value=5.6e-12  Score=76.43  Aligned_cols=62  Identities=34%  Similarity=0.420  Sum_probs=40.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------------------   49 (105)
                      +++|+|+||+|||++++++|+.++..+.++..                                                
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrappktQs   80 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAPPKTQS   80 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-HHHHH
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCCHHHHH
Confidence            48999999999999999999999999876654                                                


Q ss_pred             ---------------eeecccCCEEEEEeeCCCC-----CCCHHhhcccc
Q psy4924          50 ---------------IFFKKYPNVLIFTTSNLTG-----AIDLAFLDRAD   79 (105)
Q Consensus        50 ---------------~~~~~~~~~~~~~~~n~~~-----~~d~~~~~r~~   79 (105)
                                     .......++++++|.|+.+     .++.+.++||-
T Consensus        81 AlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~DRF~  130 (131)
T PF07726_consen   81 ALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLDRFM  130 (131)
T ss_dssp             HHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHTTSS
T ss_pred             HHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhcccc
Confidence                           1456667789999999864     77888899884

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>PHA02244 ATPase-like protein

Probab=99.28  E-value=3.2e-11  Score=84.52  Aligned_cols=76  Identities=22%  Similarity=0.286  Sum_probs=60.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +..+.+++|+||+|||||++|+++|..++.+++.+..                                           
T Consensus       116 l~~~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~~~GgvLiLDEId~a~p~  195 (383)
T PHA02244        116 VNANIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAFKKGGLFFIDEIDASIPE  195 (383)
T ss_pred             HhcCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHhhcCCEEEEeCcCcCCHH
Confidence            5567889999999999999999999999988763321                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCC-----------CCCCHHhhcccceEEEeCCCCH
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLT-----------GAIDLAFLDRADIKQYIGFPSA   89 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~-----------~~~d~~~~~r~~~~~~~~~~~~   89 (105)
                                        .....++++.+++|+|..           ..++.++++||- .+.+++|..
T Consensus       196 vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllDRFv-~I~~dyp~~  263 (383)
T PHA02244        196 ALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLDRFA-PIEFDYDEK  263 (383)
T ss_pred             HHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHhhcE-EeeCCCCcH
Confidence                              022345778899999973           567999999995 678999973

>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=99.27  E-value=2.1e-11  Score=74.65  Aligned_cols=32  Identities=44%  Similarity=0.634  Sum_probs=27.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +++|+||||+|||++++.+|+.++.++..+..
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~   32 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINC   32 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEe
Confidence            48999999999999999999999888765543

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.26  E-value=5.9e-11  Score=79.89  Aligned_cols=33  Identities=15%  Similarity=0.126  Sum_probs=28.5

Q ss_pred             CCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          70 IDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        70 ~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      +++++.+||+..+.++.++.+++..++.+++.+
T Consensus       161 ~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~  193 (261)
T TIGR02881       161 LNPGLRSRFPISIDFPDYTVEELMEIAERMVKE  193 (261)
T ss_pred             cChHHHhccceEEEECCCCHHHHHHHHHHHHHH
Confidence            567888999988999988999999999988764

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=99.25  E-value=2.8e-11  Score=80.19  Aligned_cols=86  Identities=13%  Similarity=0.121  Sum_probs=55.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh-----CCCccccce-----------------e-----------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL-----SIRLQTPQA-----------------I-----------------------   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~-----~~~~~~~~~-----------------~-----------------------   50 (105)
                      .+.++||||||+|||||++++|+++     ...+.....                 +                       
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~dlLilDDi~~~~~~~~~~~~l~~l~n  118 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYFSPAVLENLEQQDLVCLDDLQAVIGNEEWELAIFDLFN  118 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhhhHHHHhhcccCCEEEEeChhhhcCChHHHHHHHHHHH
Confidence            3458999999999999999999886     222222210                 0                       


Q ss_pred             eecccC-CEEEEEeeCCCCCCC---HHhhccc--ceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 FFKKYP-NVLIFTTSNLTGAID---LAFLDRA--DIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ~~~~~~-~~~~~~~~n~~~~~d---~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ...... .++++.++..+..++   +.+.+|+  +....++.|+.+.+..++++...
T Consensus       119 ~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~  175 (229)
T PRK06893        119 RIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAY  175 (229)
T ss_pred             HHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHH
Confidence            011112 233444444454433   5566664  57788999999999999987764

>CHL00181 cbbX CbbX; Provisional

Probab=99.21  E-value=1e-10  Score=79.89  Aligned_cols=89  Identities=18%  Similarity=0.189  Sum_probs=62.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC-------Cccccce--------------------------ee----------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI-------RLQTPQA--------------------------IF----------   51 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~-------~~~~~~~--------------------------~~----------   51 (105)
                      .+.+++|+||||||||++|+++|..+..       +++.++.                          +.          
T Consensus        58 ~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~l~~~  137 (287)
T CHL00181         58 PGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLVGQYIGHTAPKTKEVLKKAMGGVLFIDEAYYLYKP  137 (287)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHHHHHhccchHHHHHHHHHccCCEEEEEccchhccC
Confidence            3556999999999999999999887531       1221111                          00          


Q ss_pred             -----------------ec-ccCCEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          52 -----------------FK-KYPNVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        52 -----------------~~-~~~~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                       ++ ....+.++.+++..     ...++++.+||+..+.++.++.+++.+|+++++++.
T Consensus       138 ~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~  212 (287)
T CHL00181        138 DNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQ  212 (287)
T ss_pred             CCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHh
Confidence                             11 11345666666532     133578899999999999999999999999998753

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

Probab=99.21  E-value=1.1e-10  Score=88.59  Aligned_cols=85  Identities=25%  Similarity=0.358  Sum_probs=65.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------e-------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------I-------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------~-------   50 (105)
                      .+..++|+||||+||||+++.+|+.++.+++.++.                                     +       
T Consensus       348 ~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~~~~~g~~~G~~~~~l~~~~~~~~villDEidk  427 (784)
T PRK10787        348 KGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIGSMPGKLIQKMAKVGVKNPLFLLDEIDK  427 (784)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccchhccCCCCCcHHHHHHHhcCCCCCEEEEEChhh
Confidence            46789999999999999999999999988754432                                     0       


Q ss_pred             ---------------eec----------------ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          51 ---------------FFK----------------KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        51 ---------------~~~----------------~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                                     .++                ...++++++|+|.. .+++++++|+++.. +..++.++..+|.+++
T Consensus       428 ~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~-~i~~aLl~R~~ii~-~~~~t~eek~~Ia~~~  505 (784)
T PRK10787        428 MSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM-NIPAPLLDRMEVIR-LSGYTEDEKLNIAKRH  505 (784)
T ss_pred             cccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC-CCCHHHhcceeeee-cCCCCHHHHHHHHHHh
Confidence                           011                11568889999886 69999999998655 4555588888888887


Q ss_pred             HH
Q psy4924         100 VE  101 (105)
Q Consensus       100 ~~  101 (105)
                      +.
T Consensus       506 L~  507 (784)
T PRK10787        506 LL  507 (784)
T ss_pred             hh
Confidence            74

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.20  E-value=1.1e-10  Score=77.68  Aligned_cols=85  Identities=16%  Similarity=0.093  Sum_probs=56.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC-----ccccc----------------------ee------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR-----LQTPQ----------------------AI------------------   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~-----~~~~~----------------------~~------------------   50 (105)
                      +..++|+||+|||||||+++++++....     +...+                      .+                  
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~lf~l~n  124 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFDLYN  124 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhhhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHHHHHHH
Confidence            4689999999999999999999876532     11110                      00                  


Q ss_pred             eecccCC-EEEEEeeCCCCC---CCHHhhcccc--eEEEeCCCCHHHHHHHHHHHH
Q psy4924          51 FFKKYPN-VLIFTTSNLTGA---IDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        51 ~~~~~~~-~~~~~~~n~~~~---~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      ...+... .+++.+++.+..   +.+.+.+|+.  ....+..|+.+++.+++.+..
T Consensus       125 ~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a  180 (235)
T PRK08084        125 RILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRA  180 (235)
T ss_pred             HHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHH
Confidence            1111223 344444455444   5677888875  788889999999988887744

>PRK06620 hypothetical protein; Validated

Probab=99.19  E-value=1.3e-10  Score=76.45  Aligned_cols=84  Identities=17%  Similarity=0.222  Sum_probs=57.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------e------------------eecccCCEEEEEeeCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------I------------------FFKKYPNVLIFTTSNLT   67 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------~------------------~~~~~~~~~~~~~~n~~   67 (105)
                      +.++||||+|||||||++++++..+..+.....           +                  .+.+....++++++..+
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~~~~~~~~~~~~~d~lliDdi~~~~~~~lf~l~N~~~e~g~~ilits~~~p  124 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAYIIKDIFFNEEILEKYNAFIIEDIENWQEPALLHIFNIINEKQKYLLLTSSDKS  124 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCEEcchhhhchhHHhcCCEEEEeccccchHHHHHHHHHHHHhcCCEEEEEcCCCc
Confidence            569999999999999999999987754421110           0                  11133445566665554


Q ss_pred             CC--CCHHhhcccc--eEEEeCCCCHHHHHHHHHHHHH
Q psy4924          68 GA--IDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        68 ~~--~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ..  + +.+..|+.  ....+..|+.+.+..++.+...
T Consensus       125 ~~l~l-~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~  161 (214)
T PRK06620        125 RNFTL-PDLSSRIKSVLSILLNSPDDELIKILIFKHFS  161 (214)
T ss_pred             cccch-HHHHHHHhCCceEeeCCCCHHHHHHHHHHHHH
Confidence            43  4 55666764  5678899999998888887765

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.16  E-value=2.5e-10  Score=81.37  Aligned_cols=85  Identities=24%  Similarity=0.333  Sum_probs=61.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcccccee-------------------------------------------eec
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI-------------------------------------------FFK   53 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~-------------------------------------------~~~   53 (105)
                      ..++|+||||+||||+|+++++..+.++..+...                                           ..-
T Consensus        37 ~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~l  116 (413)
T PRK13342         37 SSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKDLREVIEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHV  116 (413)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHh
Confidence            4799999999999999999999998877654430                                           111


Q ss_pred             ccCCEEEEEee--CCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          54 KYPNVLIFTTS--NLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        54 ~~~~~~~~~~~--n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      +...+.+++++  |....+++++.+|+ ..+.+..++.++...++.+.+.+
T Consensus       117 e~~~iilI~att~n~~~~l~~aL~SR~-~~~~~~~ls~e~i~~lL~~~l~~  166 (413)
T PRK13342        117 EDGTITLIGATTENPSFEVNPALLSRA-QVFELKPLSEEDIEQLLKRALED  166 (413)
T ss_pred             hcCcEEEEEeCCCChhhhccHHHhccc-eeeEeCCCCHHHHHHHHHHHHHH
Confidence            12345555554  33457888899999 45667777888888888887643

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.16  E-value=1.9e-10  Score=78.47  Aligned_cols=89  Identities=20%  Similarity=0.225  Sum_probs=62.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC-------Cccccce--------------------------ee----------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI-------RLQTPQA--------------------------IF----------   51 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~-------~~~~~~~--------------------------~~----------   51 (105)
                      ++.+++|+||||||||++|++++..+..       ++..++.                          +.          
T Consensus        57 ~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~~~~~g~~~~~~~~~~~~a~~gvL~iDEi~~L~~~  136 (284)
T TIGR02880        57 PTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEILKRAMGGVLFIDEAYYLYRP  136 (284)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHhHhhcccchHHHHHHHHHccCcEEEEechhhhccC
Confidence            3558999999999999999988877642       1221110                          00          


Q ss_pred             -----------------e-cccCCEEEEEeeCCC--C---CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          52 -----------------F-KKYPNVLIFTTSNLT--G---AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        52 -----------------~-~~~~~~~~~~~~n~~--~---~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                       + .....+.++++++..  +   .+++++.+||...+.++.++.+++..|+++++++.
T Consensus       137 ~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~  211 (284)
T TIGR02880       137 DNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQ  211 (284)
T ss_pred             CCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHh
Confidence                             0 111356667766542  1   24788899999999999999999999999988763

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.

>PRK09087 hypothetical protein; Validated

Probab=99.14  E-value=2.3e-10  Score=75.80  Aligned_cols=87  Identities=23%  Similarity=0.277  Sum_probs=58.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------e--------------------eecccCCEEEEE
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------I--------------------FFKKYPNVLIFT   62 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------~--------------------~~~~~~~~~~~~   62 (105)
                      .+.++|+||+|||||||++++|...+..+++...             +                    .+......+++.
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilit  123 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSDALLIHPNEIGSDAANAAAEGPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMT  123 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcCCEEecHHHcchHHHHhhhcCeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEE
Confidence            3459999999999999999999887766554410             0                    111112344444


Q ss_pred             eeCCCC--C-CCHHhhccc--ceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          63 TSNLTG--A-IDLAFLDRA--DIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        63 ~~n~~~--~-~d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      ++..+.  . ..+.+..|+  ...+.+..|+.+.+..++.+..+.
T Consensus       124 s~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~  168 (226)
T PRK09087        124 SRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFAD  168 (226)
T ss_pred             CCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHH
Confidence            443332  2 244466676  478888999999999999988754

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

Probab=99.10  E-value=3.1e-10  Score=85.86  Aligned_cols=86  Identities=22%  Similarity=0.293  Sum_probs=63.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh----------CCCccccce------------------------------e-----
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL----------SIRLQTPQA------------------------------I-----   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~----------~~~~~~~~~------------------------------~-----   50 (105)
                      ...++|+||||+|||++++.+|..+          +..++.++.                              +     
T Consensus       203 ~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDE  282 (731)
T TIGR02639       203 KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDE  282 (731)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEec
Confidence            4579999999999999999999987          433433331                              0     


Q ss_pred             --ee--------------------cccCCEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 --FF--------------------KKYPNVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 --~~--------------------~~~~~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                        .+                    -....+.+|++|+..     ...|.++.+||. .+.++.|+.++...|+......
T Consensus       283 ih~l~~~g~~~~~~~~~~~~L~~~l~~g~i~~IgaTt~~e~~~~~~~d~al~rRf~-~i~v~~p~~~~~~~il~~~~~~  360 (731)
T TIGR02639       283 IHTIVGAGATSGGSMDASNLLKPALSSGKLRCIGSTTYEEYKNHFEKDRALSRRFQ-KIDVGEPSIEETVKILKGLKEK  360 (731)
T ss_pred             HHHHhccCCCCCccHHHHHHHHHHHhCCCeEEEEecCHHHHHHHhhhhHHHHHhCc-eEEeCCCCHHHHHHHHHHHHHH
Confidence              00                    012357788888863     357999999998 5799999999999999876543

>KOG0736|consensus

Probab=99.10  E-value=4.5e-10  Score=84.18  Aligned_cols=87  Identities=25%  Similarity=0.323  Sum_probs=75.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      ...++|+|+||||||++++++|.+++.+++.++.                                              
T Consensus       431 ~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~id~dgge  510 (953)
T KOG0736|consen  431 NPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLGIDQDGGE  510 (953)
T ss_pred             ceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceeeecCCCch
Confidence            3469999999999999999999999999998886                                              


Q ss_pred             ---------e--e----ecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------I--F----FKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------~--~----~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                               +  .    -...++++++++++..+.+++.+...|-..+.++.|++++++++++-+..+
T Consensus       511 d~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~  578 (953)
T KOG0736|consen  511 DARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNH  578 (953)
T ss_pred             hHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHHHHhhhhhccCCCCCHHHHHHHHHHHHhc
Confidence                     0  1    124467899999999999999999988889999999999999999877654

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=99.09  E-value=8.5e-11  Score=76.89  Aligned_cols=44  Identities=25%  Similarity=0.421  Sum_probs=38.6

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |+||+..+++++   +..|..+.++||||||||||+|++...-....
T Consensus        10 K~fg~~~VLkgi~l~v~~Gevv~iiGpSGSGKSTlLRclN~LE~~~~   56 (240)
T COG1126          10 KSFGDKEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLEEPDS   56 (240)
T ss_pred             EEeCCeEEecCcceeEcCCCEEEEECCCCCCHHHHHHHHHCCcCCCC
Confidence            579999999998   88999999999999999999999987655443

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.09  E-value=7.8e-10  Score=80.07  Aligned_cols=84  Identities=18%  Similarity=0.264  Sum_probs=58.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC------------------------ccccce-----------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR------------------------LQTPQA-----------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~------------------------~~~~~~-----------------------   49 (105)
                      ..++|+||||+||||+|+++|+.+++.                        ++..+.                       
T Consensus        37 ~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~~  116 (472)
T PRK14962         37 HAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEG  116 (472)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEeCcccCCHHHHHHHHHHHhhChhcC
Confidence            348999999999999999999998863                        111111                       


Q ss_pred             ----e------------------eecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ----I------------------FFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ----~------------------~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                          +                  .++. .+.+.++.+++.+..+..++.+|+. .+.+..++.+++..++.+...
T Consensus       117 ~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~-vv~f~~l~~~el~~~L~~i~~  190 (472)
T PRK14962        117 KYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQ-VIEFRNISDELIIKRLQEVAE  190 (472)
T ss_pred             CeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcE-EEEECCccHHHHHHHHHHHHH
Confidence                0                  1222 2456666666666788888899996 556777777877777766553

>PRK06217 hypothetical protein; Validated

Probab=99.09  E-value=1.7e-10  Score=73.93  Aligned_cols=79  Identities=16%  Similarity=0.264  Sum_probs=56.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccceee------------------------ecccCCEEEEEeeCCCCCCCHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIF------------------------FKKYPNVLIFTTSNLTGAIDLA   73 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~------------------------~~~~~~~~~~~~~n~~~~~d~~   73 (105)
                      .|+|.|+|||||||+++.|++.++.++++.+.+.                        +...+.++ +. .+... ....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v-i~-G~~~~-~~~~   79 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTDDYFWLPTDPPFTTKRPPEERLRLLLEDLRPREGWV-LS-GSALG-WGDP   79 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcCceeeccCCCCccccCCHHHHHHHHHHHHhcCCCEE-EE-ccHHH-HHHH
Confidence            5899999999999999999999999998877531                        11222332 22 23322 1223


Q ss_pred             hhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          74 FLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        74 ~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                      +..+++..++++.|....+.++.+|.
T Consensus        80 ~~~~~d~~i~Ld~~~~~~~~Rl~~R~  105 (183)
T PRK06217         80 LEPLFDLVVFLTIPPELRLERLRLRE  105 (183)
T ss_pred             HHhhCCEEEEEECCHHHHHHHHHcCc
Confidence            45678999999999888888888764

>PRK13949 shikimate kinase; Provisional

Probab=99.08  E-value=2.4e-10  Score=72.61  Aligned_cols=33  Identities=33%  Similarity=0.450  Sum_probs=30.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.++|+|||||||||+++.+|+.++.++++.+.
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D~   34 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLDF   34 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeecccH
Confidence            469999999999999999999999999988775

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

Probab=99.07  E-value=2e-09  Score=71.69  Aligned_cols=87  Identities=29%  Similarity=0.300  Sum_probs=65.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccc---cce--------------------------e---------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT---PQA--------------------------I---------------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~---~~~--------------------------~---------------   50 (105)
                      +...++|||+.|||||++++++..+.......   +..                          +               
T Consensus        51 pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~  130 (249)
T PF05673_consen   51 PANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDLLRDRPYKFILFCDDLSFEEGDTEYKALKSV  130 (249)
T ss_pred             CCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHHHhcCCCCEEEEecCCCCCCCcHHHHHHHHH
Confidence            46689999999999999999999987765433   222                          0               


Q ss_pred             ----eecccCCEEEEEeeCCCCCCC-----------------------HHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ----FFKKYPNVLIFTTSNLTGAID-----------------------LAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ----~~~~~~~~~~~~~~n~~~~~d-----------------------~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                          ......++++.+|+|+-..+.                       .++.+||.+.+.+..|++++-.+|+..+.+
T Consensus       131 LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~  208 (249)
T PF05673_consen  131 LEGGLEARPDNVLIYATSNRRHLVPESFSDREDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAE  208 (249)
T ss_pred             hcCccccCCCcEEEEEecchhhccchhhhhccCCCccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHH
Confidence                124457789999999742111                       134579999999999999999999988875

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.06  E-value=1.3e-09  Score=74.95  Aligned_cols=83  Identities=20%  Similarity=0.338  Sum_probs=58.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------------e-----------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------------I-----------   50 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------------~-----------   50 (105)
                      ..++++||+|+||||++++++++++.++..+..                                   .           
T Consensus        44 ~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~~~~~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~  123 (316)
T PHA02544         44 NMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDCRIDFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGLADAQRHLRS  123 (316)
T ss_pred             eEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCcccHHHHHHHHHHHHHhhcccCCCeEEEEECcccccCHHHHHHHHH
Confidence            456669999999999999999988765432211                                   0           


Q ss_pred             eecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          51 FFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        51 ~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      .++. .....++.++|....+.+++.+|+. .+.++.|+.+++..++....
T Consensus       124 ~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~-~i~~~~p~~~~~~~il~~~~  173 (316)
T PHA02544        124 FMEAYSKNCSFIITANNKNGIIEPLRSRCR-VIDFGVPTKEEQIEMMKQMI  173 (316)
T ss_pred             HHHhcCCCceEEEEcCChhhchHHHHhhce-EEEeCCCCHHHHHHHHHHHH
Confidence            1111 2345677888888888999999996 45678888777766655443

>PRK04195 replication factor C large subunit; Provisional

Probab=99.06  E-value=1e-09  Score=79.66  Aligned_cols=85  Identities=26%  Similarity=0.292  Sum_probs=58.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e------eec-------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I------FFK-------   53 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~------~~~-------   53 (105)
                      .+.++|+||||+||||+|+++|++++.+++.+..                             +      .+.       
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~  118 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNEDRGG  118 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccHHHHHHHHHHhhccCcccCCCCeEEEEecCcccccccchhH
Confidence            5789999999999999999999999876654432                             0      000       


Q ss_pred             --------ccCCEEEEEeeCCCCCCCH-HhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          54 --------KYPNVLIFTTSNLTGAIDL-AFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        54 --------~~~~~~~~~~~n~~~~~d~-~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                              ......++.++|.+..... .+.+|+ ..+.++.|+..++..++.+.+.
T Consensus       119 ~~aL~~~l~~~~~~iIli~n~~~~~~~k~Lrsr~-~~I~f~~~~~~~i~~~L~~i~~  174 (482)
T PRK04195        119 ARAILELIKKAKQPIILTANDPYDPSLRELRNAC-LMIEFKRLSTRSIVPVLKRICR  174 (482)
T ss_pred             HHHHHHHHHcCCCCEEEeccCccccchhhHhccc-eEEEecCCCHHHHHHHHHHHHH
Confidence                    0122335566677776666 344444 5667788888888777776553

>PRK08727 hypothetical protein; Validated

Probab=99.06  E-value=1.1e-09  Score=72.67  Aligned_cols=85  Identities=18%  Similarity=0.238  Sum_probs=55.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------e--------------------eec
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------I--------------------FFK   53 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------~--------------------~~~   53 (105)
                      ...++|+||+|||||||+++++.++.........                      +                    .++
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n  120 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAGRLRDALEALEGRSLVALDGLESIAGQREDEVALFDFHN  120 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhhhHHHHHHHHhcCCEEEEeCcccccCChHHHHHHHHHHH
Confidence            3469999999999999999998775543221111                      0                    000


Q ss_pred             --ccCCEEEEEeeC-CCCCC---CHHhhccc--ceEEEeCCCCHHHHHHHHHHHH
Q psy4924          54 --KYPNVLIFTTSN-LTGAI---DLAFLDRA--DIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        54 --~~~~~~~~~~~n-~~~~~---d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                        ...+..++.+++ .+...   ++.+.+|+  ...+.++.|+.+++..++.+..
T Consensus       121 ~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a  175 (233)
T PRK08727        121 RARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERA  175 (233)
T ss_pred             HHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHH
Confidence              011222444444 44433   56677785  6778889999999999999754

>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=99.03  E-value=1.5e-09  Score=71.55  Aligned_cols=86  Identities=22%  Similarity=0.233  Sum_probs=53.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC-----Cccccce------------------------------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI-----RLQTPQA------------------------------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~-----~~~~~~~------------------------------------------   49 (105)
                      .+++||||+|+|||||+++++++...     .+..+..                                          
T Consensus        35 ~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~~~  114 (219)
T PF00308_consen   35 NPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRDGEIEEFKDRLRSADLLIIDDIQFLAGKQR  114 (219)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGTTHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHcccchhhhhhhhcCCEEEEecchhhcCchH
Confidence            46999999999999999999987642     1211111                                          


Q ss_pred             ---------eeecccCCEEEEEeeCCCCC---CCHHhhccc--ceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------IFFKKYPNVLIFTTSNLTGA---IDLAFLDRA--DIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------~~~~~~~~~~~~~~~n~~~~---~d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                               -.+......+++.+...|..   +++.+.+|+  .+...+..|+.+.+..++.+...+
T Consensus       115 ~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~  181 (219)
T PF00308_consen  115 TQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKE  181 (219)
T ss_dssp             HHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHH
Confidence                     01222344555555555543   455566665  678889999999999999887654

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.

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

Probab=99.03  E-value=2.3e-10  Score=73.27  Aligned_cols=81  Identities=28%  Similarity=0.450  Sum_probs=52.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcccccee-----------------eecccCCEEEEEeeCCCCCCCHHhhcccc-
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI-----------------FFKKYPNVLIFTTSNLTGAIDLAFLDRAD-   79 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~n~~~~~d~~~~~r~~-   79 (105)
                      .++|.|||||||||+|+.|++.++.+.++....                 .+..+.   ++-..+....+... +++.+ 
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hlstgd~~r~~~~~~t~lg~~~k~~i~~g~---lv~d~i~~~~v~~r-l~~~d~   77 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAIAERTELGEEIKKYIDKGE---LVPDEIVNGLVKER-LDEADC   77 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEcHhHHhHhhhccCChHHHHHHHHHHcCC---ccchHHHHHHHHHH-HHhhcc
Confidence            589999999999999999999988888775542                 111111   11110110111111 12223 


Q ss_pred             --eEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          80 --IKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        80 --~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                        ..++.++|...+..+.+++.+.+
T Consensus        78 ~~~~I~dg~PR~~~qa~~l~r~l~~  102 (178)
T COG0563          78 KAGFILDGFPRTLCQARALKRLLKE  102 (178)
T ss_pred             cCeEEEeCCCCcHHHHHHHHHHHHH
Confidence              68899999988888999888765

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

Probab=99.02  E-value=9.6e-10  Score=83.32  Aligned_cols=46  Identities=17%  Similarity=0.168  Sum_probs=37.4

Q ss_pred             CCEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        56 ~~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      ..+.+|++|+.++     ..|+++.+||+ .+.++.|+.++...|+......
T Consensus       314 g~i~vIgATt~~E~~~~~~~D~AL~rRFq-~I~v~ePs~~~~~~IL~~~~~~  364 (758)
T PRK11034        314 GKIRVIGSTTYQEFSNIFEKDRALARRFQ-KIDITEPSIEETVQIINGLKPK  364 (758)
T ss_pred             CCeEEEecCChHHHHHHhhccHHHHhhCc-EEEeCCCCHHHHHHHHHHHHHH
Confidence            4577888888753     57999999997 6899999999999988866543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.02  E-value=1.4e-09  Score=83.43  Aligned_cols=85  Identities=21%  Similarity=0.282  Sum_probs=61.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh----------CCCccccce--------------------------------e---
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL----------SIRLQTPQA--------------------------------I---   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~----------~~~~~~~~~--------------------------------~---   50 (105)
                      ...++|+||||+|||++++.+|..+          +.+++.++.                                +   
T Consensus       199 ~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfID  278 (857)
T PRK10865        199 KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFID  278 (857)
T ss_pred             cCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhhhHHHHHHHHHHHHHcCCCeEEEEe
Confidence            4479999999999999999999988          334333221                                0   


Q ss_pred             ----------------------eecccCCEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                            ..-..+.+.+|++|+...     ..|.++.+||+. +.++.|+.++...++.....
T Consensus       279 Eih~l~~~~~~~~~~d~~~~lkp~l~~g~l~~IgaTt~~e~r~~~~~d~al~rRf~~-i~v~eP~~~~~~~iL~~l~~  355 (857)
T PRK10865        279 ELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQYIEKDAALERRFQK-VFVAEPSVEDTIAILRGLKE  355 (857)
T ss_pred             cHHHhccCCCCccchhHHHHhcchhhcCCCeEEEcCCCHHHHHHhhhcHHHHhhCCE-EEeCCCCHHHHHHHHHHHhh
Confidence                                  011123466788888764     589999999984 67899999988888865543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.02  E-value=1e-09  Score=79.01  Aligned_cols=86  Identities=17%  Similarity=0.242  Sum_probs=58.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC-----ccccce---------------------------------e--------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR-----LQTPQA---------------------------------I--------   50 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~-----~~~~~~---------------------------------~--------   50 (105)
                      +.++|+||+|+|||||++++++++...     +..+..                                 +        
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~  228 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKER  228 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCHH
Confidence            579999999999999999999987432     211111                                 0        


Q ss_pred             ----------eecccCCEEEEEeeCCCCC---CCHHhhcccc--eEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------FFKKYPNVLIFTTSNLTGA---IDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------~~~~~~~~~~~~~~n~~~~---~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                .+......+++.+...+..   +++.+.+|+.  ..+.+..|+.+.+..++.+..+.
T Consensus       229 ~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~  295 (450)
T PRK00149        229 TQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEE  295 (450)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHH
Confidence                      0111122344444444433   5677778884  67889999999999999987653

>PRK05642 DNA replication initiation factor; Validated

Probab=99.02  E-value=2.1e-09  Score=71.49  Aligned_cols=84  Identities=13%  Similarity=0.124  Sum_probs=53.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC---cccc------------------------cee------------------e
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR---LQTP------------------------QAI------------------F   51 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~---~~~~------------------------~~~------------------~   51 (105)
                      +.++|+||+|+|||||++++++++...   ...+                        +.+                  .
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~  125 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRGPELLDNLEQYELVCLDDLDVIAGKADWEEALFHLFNR  125 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhhHHHHHhhhhCCEEEEechhhhcCChHHHHHHHHHHHH
Confidence            679999999999999999998765321   1100                        000                  1


Q ss_pred             ecccCCEEEEEeeCCCC---CCCHHhhccc--ceEEEeCCCCHHHHHHHHHHHH
Q psy4924          52 FKKYPNVLIFTTSNLTG---AIDLAFLDRA--DIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        52 ~~~~~~~~~~~~~n~~~---~~d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      .......+++.++..+.   ...+.+.+|+  .....+..|+.+++..++++..
T Consensus       126 ~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka  179 (234)
T PRK05642        126 LRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRA  179 (234)
T ss_pred             HHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHH
Confidence            11223445555544442   2245667787  4677788989999999888543

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.02  E-value=1.1e-09  Score=77.85  Aligned_cols=86  Identities=16%  Similarity=0.261  Sum_probs=57.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC-----CCccccce----------------------------e-------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS-----IRLQTPQA----------------------------I-------------   50 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~-----~~~~~~~~----------------------------~-------------   50 (105)
                      ..++|+||+|+|||||++++++++.     ..+..+..                            +             
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~  216 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKER  216 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCHH
Confidence            4799999999999999999998873     22222111                            0             


Q ss_pred             ----------eecccCCEEEEEeeCCCC---CCCHHhhcccc--eEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------FFKKYPNVLIFTTSNLTG---AIDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------~~~~~~~~~~~~~~n~~~---~~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                .+......+++.+...+.   .+++.+.+|+.  ..+.++.|+.+.+..++.+..+.
T Consensus       217 ~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~  283 (405)
T TIGR00362       217 TQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEE  283 (405)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHH
Confidence                      011112234444444443   34566777875  57889999999999999987654

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).

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

Probab=99.01  E-value=5.7e-10  Score=70.80  Aligned_cols=34  Identities=26%  Similarity=0.451  Sum_probs=32.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ...++|+|++|+||||+.+.+|+.++.+|++.|.
T Consensus         2 ~~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D~   35 (172)
T COG0703           2 NMNIVLIGFMGAGKSTIGRALAKALNLPFIDTDQ   35 (172)
T ss_pred             CccEEEEcCCCCCHhHHHHHHHHHcCCCcccchH
Confidence            3579999999999999999999999999999997

>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=99.01  E-value=2.9e-10  Score=67.89  Aligned_cols=83  Identities=19%  Similarity=0.395  Sum_probs=52.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcccccee--------------------------eec-----ccCCEEEEEeeCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI--------------------------FFK-----KYPNVLIFTTSNL   66 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~--------------------------~~~-----~~~~~~~~~~~n~   66 (105)
                      .|+|.|||||||||+++.||+.++.++++.+.+                          .+.     .....+++.. .+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~~~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ii~g-~~   79 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLGFPVISMDDLIREPGWIERDDDEREYIDADIDLLDDILEQLQNKPDNDNWIIDG-SY   79 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTCEEEEEHHHHCCGTHCHGCTTCCHHHHHHHHHHHHHHHHHHETTT--EEEEEC-CS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCeEEEecceEEeccccccCcchhhHHHHHHHHHHHHHHhhhccCCCCeEEEeC-CC
Confidence            489999999999999999999999887665541                          000     0112233333 32


Q ss_pred             CCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          67 TGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        67 ~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      ....+. .....+..+++..|....+.+++++..+.
T Consensus        80 ~~~~~~-~~~~~~~~i~l~~~~~~~~~~~~~R~~~~  114 (121)
T PF13207_consen   80 ESEMEI-RLPEFDHVIYLDAPDEECRERRLKRRLRR  114 (121)
T ss_dssp             CHCCHS-CCHHGGCEEEEEEEEHHHHHHHHHHHHHH
T ss_pred             ccchhh-hhhcCCEEEEEECCCHHHHHHHHHHHhHH
Confidence            222222 22344677888888777888888887653

...

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=99.00  E-value=2.9e-10  Score=76.38  Aligned_cols=48  Identities=21%  Similarity=0.356  Sum_probs=41.0

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +.|++..+.+++   ++.|..+.|.||+|||||||++++++.+......+.
T Consensus        10 ~~y~~~~il~~ls~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~   60 (258)
T COG1120          10 FGYGGKPILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVL   60 (258)
T ss_pred             EEECCeeEEecceEEecCCcEEEEECCCCCCHHHHHHHHhccCCCCCCEEE
Confidence            357888888888   889999999999999999999999998886654433

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

Probab=99.00  E-value=1.9e-09  Score=81.44  Aligned_cols=84  Identities=18%  Similarity=0.328  Sum_probs=59.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------e-----------------ee
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------I-----------------FF   52 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------~-----------------~~   52 (105)
                      ..++|+||||+||||+|+++++..+.++..++.                           +                 ..
T Consensus        53 ~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~  132 (725)
T PRK13341         53 GSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPW  132 (725)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhhhHHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHH
Confidence            479999999999999999999998876654332                           0                 11


Q ss_pred             cccCCEEEEEee--CCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          53 KKYPNVLIFTTS--NLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        53 ~~~~~~~~~~~~--n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      .+...++++++|  |....++.++.+|+. .+.++.++.+++..++++.+.
T Consensus       133 lE~g~IiLI~aTTenp~~~l~~aL~SR~~-v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        133 VENGTITLIGATTENPYFEVNKALVSRSR-LFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             hcCceEEEEEecCCChHhhhhhHhhcccc-ceecCCCCHHHHHHHHHHHHH
Confidence            122345555554  333567788888875 466777888999999988876

>PLN03025 replication factor C subunit; Provisional

Probab=98.99  E-value=3.9e-09  Score=72.99  Aligned_cols=84  Identities=24%  Similarity=0.186  Sum_probs=56.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCc-----cccce------------------------------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL-----QTPQA------------------------------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~-----~~~~~------------------------------------------   49 (105)
                      ..++|+||||+||||+|+++|+++.++.     .+...                                          
T Consensus        35 ~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~  114 (319)
T PLN03025         35 PNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSG  114 (319)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCHH
Confidence            4699999999999999999999974321     11100                                          


Q ss_pred             ------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                            ..++. .....++.++|....+.+++.+|+. .+.+..++.+++...+.+..+
T Consensus       115 aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~-~i~f~~l~~~~l~~~L~~i~~  172 (319)
T PLN03025        115 AQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCA-IVRFSRLSDQEILGRLMKVVE  172 (319)
T ss_pred             HHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhh-cccCCCCCHHHHHHHHHHHHH
Confidence                  01222 1234456667777777777888885 556777778887777766543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.98  E-value=4e-09  Score=76.28  Aligned_cols=82  Identities=15%  Similarity=0.201  Sum_probs=58.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc------------------------cccce------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRL------------------------QTPQA------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~------------------------~~~~~------------------------   49 (105)
                      .++|+||+|+||||+|+.+|+.+++..                        +.++.                        
T Consensus        42 a~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~  121 (484)
T PRK14956         42 AYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGK  121 (484)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCC
Confidence            489999999999999999999998742                        11111                        


Q ss_pred             ---------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ---------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                           ..+++ ...++++.+|+.+..+.+.+++|+... .+..++.++....+.+.+
T Consensus       122 ~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~-~f~~ls~~~i~~~L~~i~  193 (484)
T PRK14956        122 YKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDF-IFKKVPLSVLQDYSEKLC  193 (484)
T ss_pred             CEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhhee-eecCCCHHHHHHHHHHHH
Confidence                                 02333 356777888888899999999998654 445555666666665544

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

Probab=98.98  E-value=5.4e-09  Score=75.03  Aligned_cols=30  Identities=33%  Similarity=0.651  Sum_probs=26.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..++.++|+||||+|||++|+.+|..+..
T Consensus       191 L~~~~~iil~GppGtGKT~lA~~la~~l~~  220 (459)
T PRK11331        191 LTIKKNIILQGPPGVGKTFVARRLAYLLTG  220 (459)
T ss_pred             HhcCCCEEEECCCCCCHHHHHHHHHHHhcC
Confidence            335788999999999999999999998864

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.98  E-value=4.6e-09  Score=69.24  Aligned_cols=86  Identities=14%  Similarity=0.142  Sum_probs=52.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC---Cccccce--------------------e----------------eeccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI---RLQTPQA--------------------I----------------FFKKY   55 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~---~~~~~~~--------------------~----------------~~~~~   55 (105)
                      .++.++|+||+|||||||+++++++...   +...++.                    +                .....
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~  120 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLLAFDFDPEAELYAVDDVERLDDAQQIALFNLFNRVRAH  120 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHHHHhhcccCCEEEEeChhhcCchHHHHHHHHHHHHHHc
Confidence            4568999999999999999999987611   1111110                    0                11222


Q ss_pred             CCEEEEEeeCCC---CCCCHHhhccc--ceEEEeCCCCHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLT---GAIDLAFLDRA--DIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        56 ~~~~~~~~~n~~---~~~d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      ...+++.+++.+   ..+...+.+|+  ...+.++.|+.+....++.+..
T Consensus       121 ~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~  170 (227)
T PRK08903        121 GQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAA  170 (227)
T ss_pred             CCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHH
Confidence            333344444332   13445556676  4788888888877777776654

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.97  E-value=8.6e-09  Score=71.81  Aligned_cols=44  Identities=11%  Similarity=0.197  Sum_probs=35.2

Q ss_pred             CCEEEEEeeCCCC-CCCHHhhcccceEEEeCCCCH-HHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTG-AIDLAFLDRADIKQYIGFPSA-AAIFNIFSSC   99 (105)
Q Consensus        56 ~~~~~~~~~n~~~-~~d~~~~~r~~~~~~~~~~~~-~~~~~i~~~~   99 (105)
                      .++++++++|..+ .+.+++++||.+.+.+++|.. +++.+++.+.
T Consensus       170 ~rfiviAt~NP~e~~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~  215 (334)
T PRK13407        170 ARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSPRDVETRVEVIRRR  215 (334)
T ss_pred             CCEEEEecCCcccCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHh
Confidence            4678888888644 688899999999999999955 7777777764

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.97  E-value=2.5e-09  Score=77.01  Aligned_cols=85  Identities=19%  Similarity=0.295  Sum_probs=56.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC---Cccccce----------------------------e------e--------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI---RLQTPQA----------------------------I------F--------   51 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~---~~~~~~~----------------------------~------~--------   51 (105)
                      ++++||||+|+|||||++++++++..   .+..+..                            +      .        
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~~q  221 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGATQ  221 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChhhH
Confidence            57999999999999999999987642   2111110                            0      0        


Q ss_pred             ---------ecccCCEEEEEeeCC-C---CCCCHHhhcccc--eEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          52 ---------FKKYPNVLIFTTSNL-T---GAIDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        52 ---------~~~~~~~~~~~~~n~-~---~~~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                               +...... ++.+++. +   ..++..+.+||.  +.+.+..|+.+.+..++.+..+.
T Consensus       222 eelf~l~N~l~~~~k~-IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~  286 (445)
T PRK12422        222 EEFFHTFNSLHTEGKL-IVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEA  286 (445)
T ss_pred             HHHHHHHHHHHHCCCc-EEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHH
Confidence                     1111223 3444443 3   346677788985  78888889999999999876653

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

Probab=98.96  E-value=5.7e-09  Score=62.97  Aligned_cols=26  Identities=54%  Similarity=0.870  Sum_probs=24.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .++.++++||+|+|||++++.+++.+
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999999988

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.

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

Probab=98.95  E-value=8.3e-09  Score=78.34  Aligned_cols=86  Identities=24%  Similarity=0.378  Sum_probs=65.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------------------   49 (105)
                      .++|+||||+|||.+|+++|..++.+++..+.                                                
T Consensus       490 ~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        490 SFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCCCcccccccchHHHHHHhCCCcEEEeccHhhh
Confidence            58999999999999999999999877653331                                                


Q ss_pred             ---------eeec------------ccCCEEEEEeeCCC-------------------------CCCCHHhhcccceEEE
Q psy4924          50 ---------IFFK------------KYPNVLIFTTSNLT-------------------------GAIDLAFLDRADIKQY   83 (105)
Q Consensus        50 ---------~~~~------------~~~~~~~~~~~n~~-------------------------~~~d~~~~~r~~~~~~   83 (105)
                               ..++            ...+.++++|||.-                         ....+.++.|+|.++.
T Consensus       570 ~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~  649 (758)
T PRK11034        570 HPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIW  649 (758)
T ss_pred             hHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEE
Confidence                     0011            12466789998832                         1244678889998888


Q ss_pred             eCCCCHHHHHHHHHHHHHHh
Q psy4924          84 IGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        84 ~~~~~~~~~~~i~~~~~~~l  103 (105)
                      +...+.+++.+|++..+.++
T Consensus       650 f~~L~~~~l~~I~~~~l~~~  669 (758)
T PRK11034        650 FDHLSTDVIHQVVDKFIVEL  669 (758)
T ss_pred             cCCCCHHHHHHHHHHHHHHH
Confidence            89899999999998887765

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.94  E-value=7.5e-10  Score=77.30  Aligned_cols=46  Identities=28%  Similarity=0.336  Sum_probs=39.0

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|++..+.+++   +..|..+.|.|||||||||++|+||.........
T Consensus        13 k~yg~~~av~~isl~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~p~~G~   61 (352)
T COG3842          13 KSFGDFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQPSSGE   61 (352)
T ss_pred             eecCCeeEEecceeeecCCcEEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            568877788777   8889999999999999999999999877665543

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=98.93  E-value=7.5e-10  Score=76.90  Aligned_cols=48  Identities=25%  Similarity=0.320  Sum_probs=38.1

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      |.|++..+.+++   +..|..+.|.|||||||||++++||........++.
T Consensus        11 K~yg~~~~l~~i~l~i~~Gef~vllGPSGcGKSTlLr~IAGLe~~~~G~I~   61 (338)
T COG3839          11 KSFGSFEVLKDVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEIL   61 (338)
T ss_pred             EEcCCceeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            456665456656   888999999999999999999999988876555433

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.92  E-value=6.8e-09  Score=79.80  Aligned_cols=45  Identities=16%  Similarity=0.189  Sum_probs=35.4

Q ss_pred             CEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          57 NVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        57 ~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      .+.+|++|+..     ...|+++.+||.. +.++.|+.++...+++.....
T Consensus       302 ~i~~IgaTt~~e~r~~~~~d~al~rRf~~-i~v~~p~~~~~~~iL~~~~~~  351 (852)
T TIGR03346       302 ELHCIGATTLDEYRKYIEKDAALERRFQP-VFVDEPTVEDTISILRGLKER  351 (852)
T ss_pred             ceEEEEeCcHHHHHHHhhcCHHHHhcCCE-EEeCCCCHHHHHHHHHHHHHH
Confidence            46678888765     3579999999985 689999999998888766443

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.90  E-value=1.3e-08  Score=74.27  Aligned_cols=84  Identities=18%  Similarity=0.248  Sum_probs=60.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccc----------------------------cce-------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQT----------------------------PQA-------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~----------------------------~~~-------------------   49 (105)
                      ..++|+||+|+||||+|+++|+.+++....                            ++.                   
T Consensus        44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~  123 (507)
T PRK06645         44 GGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYK  123 (507)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhc
Confidence            469999999999999999999999874210                            000                   


Q ss_pred             --------------------------eeec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 --------------------------IFFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 --------------------------~~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                                ..++ ..+.+.++.+|+..+.+...+.+|+. .+.+..++.+++...+++.++
T Consensus       124 P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~-~~ef~~ls~~el~~~L~~i~~  201 (507)
T PRK06645        124 PLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQ-RYDLRRLSFEEIFKLLEYITK  201 (507)
T ss_pred             cccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcce-EEEccCCCHHHHHHHHHHHHH
Confidence                                      0122 23456667777777788888888884 556777788888887776654

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.90  E-value=1e-08  Score=67.23  Aligned_cols=28  Identities=29%  Similarity=0.468  Sum_probs=24.5

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+..++|+||+||||||+++++++...
T Consensus        36 ~~~~~lll~G~~G~GKT~la~~~~~~~~   63 (226)
T TIGR03420        36 KGDRFLYLWGESGSGKSHLLQAACAAAE   63 (226)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3467899999999999999999998764

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.

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

Probab=98.90  E-value=1e-08  Score=77.70  Aligned_cols=86  Identities=29%  Similarity=0.412  Sum_probs=64.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------------------   49 (105)
                      .++|+||+|+|||++|+++|..++.++...+.                                                
T Consensus       486 ~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       486 SFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             eEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhc
Confidence            48999999999999999999999876543321                                                


Q ss_pred             ---------eee------------cccCCEEEEEeeCCCC-------------------------CCCHHhhcccceEEE
Q psy4924          50 ---------IFF------------KKYPNVLIFTTSNLTG-------------------------AIDLAFLDRADIKQY   83 (105)
Q Consensus        50 ---------~~~------------~~~~~~~~~~~~n~~~-------------------------~~d~~~~~r~~~~~~   83 (105)
                               ..+            ....+.++++|+|...                         ...+.++.|++..+.
T Consensus       566 ~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~  645 (731)
T TIGR02639       566 HPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIH  645 (731)
T ss_pred             CHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEE
Confidence                     000            1124567888887631                         135567789998888


Q ss_pred             eCCCCHHHHHHHHHHHHHHh
Q psy4924          84 IGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        84 ~~~~~~~~~~~i~~~~~~~l  103 (105)
                      +...+.+++..|+++.++++
T Consensus       646 F~pLs~e~l~~Iv~~~L~~l  665 (731)
T TIGR02639       646 FNPLSEEVLEKIVQKFVDEL  665 (731)
T ss_pred             cCCCCHHHHHHHHHHHHHHH
Confidence            88889999999999988764

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.90  E-value=4e-09  Score=69.16  Aligned_cols=79  Identities=20%  Similarity=0.301  Sum_probs=51.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCCEEEEEeeC-CCCCCCHHhhc-
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSN-LTGAIDLAFLD-   76 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~n-~~~~~d~~~~~-   76 (105)
                      .|++..+++++   ++......|.||+||||||++|++-+.....-....       .+.+.+...| +...+|..-+| 
T Consensus        16 yYg~~~aL~~i~l~i~~~~VTAlIGPSGcGKST~LR~lNRmndl~~~~r~-------~G~v~~~g~ni~~~~~d~~~lRr   88 (253)
T COG1117          16 YYGDKHALKDINLDIPKNKVTALIGPSGCGKSTLLRCLNRMNDLIPGARV-------EGEVLLDGKNIYDPKVDVVELRR   88 (253)
T ss_pred             EECchhhhccCceeccCCceEEEECCCCcCHHHHHHHHHhhcccCcCceE-------EEEEEECCeeccCCCCCHHHHHH
Confidence            47888888888   888999999999999999999999876653211100       1122233322 23355665554 


Q ss_pred             ccceEEEeCCC
Q psy4924          77 RADIKQYIGFP   87 (105)
Q Consensus        77 r~~~~~~~~~~   87 (105)
                      |..+++.-+.|
T Consensus        89 ~vGMVFQkPnP   99 (253)
T COG1117          89 RVGMVFQKPNP   99 (253)
T ss_pred             HheeeccCCCC
Confidence            56776665555

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.90  E-value=1.3e-09  Score=72.58  Aligned_cols=45  Identities=24%  Similarity=0.364  Sum_probs=39.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|+...+++++   +..|..+.|.||||||||||++.+|.........
T Consensus        12 ~f~~~~vl~~i~L~v~~GEfvsilGpSGcGKSTLLriiAGL~~p~~G~   59 (248)
T COG1116          12 SFGGVEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEKPTSGE   59 (248)
T ss_pred             EeCceEEeccceeEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            56777777777   8899999999999999999999999988776655

>PRK00131 aroK shikimate kinase; Reviewed

Probab=98.90  E-value=2.1e-09  Score=67.65  Aligned_cols=36  Identities=19%  Similarity=0.309  Sum_probs=32.2

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++..++|+|+|||||||+++.+|..++.++++.+.
T Consensus         2 ~~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d~   37 (175)
T PRK00131          2 LKGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTDH   37 (175)
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEChH
Confidence            457789999999999999999999999998887664

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.89  E-value=6.8e-09  Score=76.91  Aligned_cols=85  Identities=15%  Similarity=0.202  Sum_probs=56.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC-----Cccccce----------------------------e-------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI-----RLQTPQA----------------------------I-------------   50 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~-----~~~~~~~----------------------------~-------------   50 (105)
                      ..++|||++|+|||||++++++++..     .+..+..                            +             
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke~  394 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKES  394 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCHH
Confidence            46999999999999999999998742     1111111                            0             


Q ss_pred             ----------eecccCCEEEEEeeCCC----CCCCHHhhccc--ceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------FFKKYPNVLIFTTSNLT----GAIDLAFLDRA--DIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------~~~~~~~~~~~~~~n~~----~~~d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                .+...... ++.+++.+    ..++..+.+||  .+.+.+..|+.+.+..|+.....+
T Consensus       395 tqeeLF~l~N~l~e~gk~-IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~  461 (617)
T PRK14086        395 TQEEFFHTFNTLHNANKQ-IVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQ  461 (617)
T ss_pred             HHHHHHHHHHHHHhcCCC-EEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHh
Confidence                      11111222 34455543    34667777887  677788999999999999887653

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.89  E-value=8.9e-09  Score=79.11  Aligned_cols=43  Identities=9%  Similarity=0.086  Sum_probs=33.9

Q ss_pred             CEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          57 NVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        57 ~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      .+.+|++|+..     ...|+++.+||. .+.++.|+.++...|+....
T Consensus       316 ~l~~IgaTT~~e~~~~~~~d~AL~rRf~-~i~v~eps~~~~~~iL~~~~  363 (852)
T TIGR03345       316 ELRTIAATTWAEYKKYFEKDPALTRRFQ-VVKVEEPDEETAIRMLRGLA  363 (852)
T ss_pred             CeEEEEecCHHHHhhhhhccHHHHHhCe-EEEeCCCCHHHHHHHHHHHH
Confidence            46788888763     458999999997 67999999999888865443

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.89  E-value=2.9e-08  Score=69.27  Aligned_cols=43  Identities=14%  Similarity=0.161  Sum_probs=34.7

Q ss_pred             CCEEEEEeeCCCC-CCCHHhhcccceEEEeCCCCH-HHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTG-AIDLAFLDRADIKQYIGFPSA-AAIFNIFSS   98 (105)
Q Consensus        56 ~~~~~~~~~n~~~-~~d~~~~~r~~~~~~~~~~~~-~~~~~i~~~   98 (105)
                      .++++++++|..+ .+.+++++||.+.+.+++|.. +++.+++++
T Consensus       173 ~r~iviat~np~eg~l~~~LldRf~l~i~l~~p~~~eer~eIL~~  217 (337)
T TIGR02030       173 ARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVELRVEIVER  217 (337)
T ss_pred             CCEEEEeccccccCCCCHHHHhhcceEEECCCCCCHHHHHHHHHh
Confidence            4577888887654 688899999999999999965 677777776

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.88  E-value=1.3e-08  Score=76.97  Aligned_cols=82  Identities=21%  Similarity=0.252  Sum_probs=59.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc------------------------cccce------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRL------------------------QTPQA------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~------------------------~~~~~------------------------   49 (105)
                      .++|+||+|+||||+++++++.+++..                        ++++.                        
T Consensus        40 AyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr  119 (830)
T PRK07003         40 AYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDAR  119 (830)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEecccccccHHHHHHHHHHHHhccccCC
Confidence            579999999999999999999998631                        11111                        


Q ss_pred             ---------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ---------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                           ..+++ ...+.+|.+|+.++.+...+++|+. .+.+...+.+++...+.+.+
T Consensus       120 ~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq-~f~Fk~Ls~eeIv~~L~~Il  191 (830)
T PRK07003        120 FKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCL-QFNLKQMPAGHIVSHLERIL  191 (830)
T ss_pred             ceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheE-EEecCCcCHHHHHHHHHHHH
Confidence                                 02333 3467788888888999888999994 55666667777776666654

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.88  E-value=2.1e-08  Score=70.59  Aligned_cols=44  Identities=16%  Similarity=0.184  Sum_probs=30.6

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      +.+.++.+++.++.+...+.+|+. .+.+..++.+++...+.+.+
T Consensus       148 ~~~~fIl~t~~~~~l~~tI~SRc~-~~~~~~l~~~el~~~L~~~~  191 (363)
T PRK14961        148 QHIKFILATTDVEKIPKTILSRCL-QFKLKIISEEKIFNFLKYIL  191 (363)
T ss_pred             CCeEEEEEcCChHhhhHHHHhhce-EEeCCCCCHHHHHHHHHHHH
Confidence            344556666666778777888884 56777778888777766644

>smart00350 MCM minichromosome maintenance proteins

Probab=98.88  E-value=3e-08  Score=72.55  Aligned_cols=45  Identities=13%  Similarity=0.143  Sum_probs=34.0

Q ss_pred             CCEEEEEeeCCCC-------------CCCHHhhcccceEEEe-CCCCHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTG-------------AIDLAFLDRADIKQYI-GFPSAAAIFNIFSSCV  100 (105)
Q Consensus        56 ~~~~~~~~~n~~~-------------~~d~~~~~r~~~~~~~-~~~~~~~~~~i~~~~~  100 (105)
                      .+..+++++|+..             .+++++++|||+...+ +.|+.+....+.++.+
T Consensus       342 ~~~~viAa~NP~~g~y~~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~  400 (509)
T smart00350      342 ARCSVLAAANPIGGRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVV  400 (509)
T ss_pred             CCcEEEEEeCCCCcccCCCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHH
Confidence            4567889999763             5899999999986554 7788887777776643

>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=98.86  E-value=8.6e-09  Score=63.20  Aligned_cols=75  Identities=20%  Similarity=0.367  Sum_probs=51.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCcccccee---------------------------eecccCCEEEEEeeCCCCCCC
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI---------------------------FFKKYPNVLIFTTSNLTGAID   71 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~---------------------------~~~~~~~~~~~~~~n~~~~~d   71 (105)
                      +.+.|+|||||||+++.++..++.++++.+.+                           .+...+.+++.+.. .    +
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~~i~~e~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~Vidg~~-~----~   76 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTGGIRTEEVGKLASEVAAIPEVRKALDERQRELAKKPGIVLEGRD-I----G   76 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccccCCHHHHHHHHHHhcccHhHHHHHHHHHHHHhhCCCEEEEeee-e----e
Confidence            78999999999999999999999999876631                           12223444443322 1    1


Q ss_pred             HHhhcccceEEEeCCCCHHHHHHHHHH
Q psy4924          72 LAFLDRADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        72 ~~~~~r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                      ....+.+++.+++..|......++..+
T Consensus        77 ~~~~~~~~~~i~l~~~~~~r~~R~~~r  103 (147)
T cd02020          77 TVVFPDADLKIFLTASPEVRAKRRAKQ  103 (147)
T ss_pred             eEEcCCCCEEEEEECCHHHHHHHHHHH
Confidence            112345788899999977776777664

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.86  E-value=1.4e-08  Score=75.88  Aligned_cols=84  Identities=15%  Similarity=0.201  Sum_probs=57.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCc------------------------cccce-----------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL------------------------QTPQA-----------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~------------------------~~~~~-----------------------   49 (105)
                      ..++|+||+|+||||+|+++|+.+++..                        +.++.                       
T Consensus        38 HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~g  117 (702)
T PRK14960         38 HAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQG  117 (702)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcC
Confidence            4679999999999999999999998732                        11111                       


Q ss_pred             ----------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ----------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ----------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                            ..++. .+.+.++.+++.+..+...+++|+. .+.+..++.+++...+.+.++
T Consensus       118 k~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq-~feFkpLs~eEI~k~L~~Il~  191 (702)
T PRK14960        118 RFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCL-QFTLRPLAVDEITKHLGAILE  191 (702)
T ss_pred             CcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhh-eeeccCCCHHHHHHHHHHHHH
Confidence                                  02222 2445667777777778888888885 445666777777666665543

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.86  E-value=1.3e-08  Score=74.17  Aligned_cols=29  Identities=41%  Similarity=0.605  Sum_probs=24.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+..++++||||+|||++++.++..+.
T Consensus       207 a~~G~~llliG~~GsGKTtLak~L~gllp  235 (506)
T PRK09862        207 AAGGHNLLLIGPPGTGKTMLASRINGLLP  235 (506)
T ss_pred             ccCCcEEEEECCCCCcHHHHHHHHhccCC
Confidence            45678899999999999999999986554

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.86  E-value=1.6e-08  Score=73.22  Aligned_cols=29  Identities=24%  Similarity=0.438  Sum_probs=25.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+..++|.||||+|||++|++++...+
T Consensus        36 alag~hVLL~GpPGTGKT~LAraLa~~~~   64 (498)
T PRK13531         36 ALSGESVFLLGPPGIAKSLIARRLKFAFQ   64 (498)
T ss_pred             HccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence            44688999999999999999999998654

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.85  E-value=1e-08  Score=76.47  Aligned_cols=82  Identities=18%  Similarity=0.227  Sum_probs=58.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC-----------------------------ccccce-------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR-----------------------------LQTPQA-------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~-----------------------------~~~~~~-------------------   49 (105)
                      .++|+||+|+||||+++.+++.+++.                             +++++.                   
T Consensus        40 A~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~  119 (700)
T PRK12323         40 AYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYA  119 (700)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhc
Confidence            57999999999999999999999872                             111111                   


Q ss_pred             --------------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 --------------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 --------------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                                ..+++ ..++.+|.+|+.++.+...+++|+. .+.+..++.++....+.+.+
T Consensus       120 P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq-~f~f~~ls~eei~~~L~~Il  196 (700)
T PRK12323        120 PTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCL-QFNLKQMPPGHIVSHLDAIL  196 (700)
T ss_pred             hhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHH-hcccCCCChHHHHHHHHHHH
Confidence                                      13333 3457778888888899998999984 44666776776666555443

>KOG0989|consensus

Probab=98.85  E-value=1.4e-08  Score=69.55  Aligned_cols=28  Identities=46%  Similarity=0.590  Sum_probs=25.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ...+++|||||+|||+.++++|+++.++
T Consensus        57 lp~~LFyGPpGTGKTStalafar~L~~~   84 (346)
T KOG0989|consen   57 LPHYLFYGPPGTGKTSTALAFARALNCE   84 (346)
T ss_pred             CceEEeeCCCCCcHhHHHHHHHHHhcCc
Confidence            5679999999999999999999999983

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.84  E-value=2.1e-08  Score=74.89  Aligned_cols=81  Identities=16%  Similarity=0.226  Sum_probs=59.0

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCc------------------------cccce-------------------------
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRL------------------------QTPQA-------------------------   49 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~------------------------~~~~~-------------------------   49 (105)
                      ++|+||+|+||||+|+++|+.+++..                        +.++.                         
T Consensus        41 yLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~  120 (647)
T PRK07994         41 YLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRF  120 (647)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCC
Confidence            79999999999999999999998842                        11111                         


Q ss_pred             --------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 --------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 --------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                          ..+++ .+.+.++.+|+.+..+...+++|+ ..+.+..++.++....+.+.+
T Consensus       121 KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC-~~~~f~~Ls~~ei~~~L~~il  191 (647)
T PRK07994        121 KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQIRQQLEHIL  191 (647)
T ss_pred             EEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhh-eEeeCCCCCHHHHHHHHHHHH
Confidence                                02333 245667777777888888888897 566777787888777776654

>PRK00625 shikimate kinase; Provisional

Probab=98.84  E-value=5e-09  Score=66.85  Aligned_cols=32  Identities=38%  Similarity=0.499  Sum_probs=29.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++|+|.|||||||+++.+|+.++.++++.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D~   33 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTDD   33 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhhH
Confidence            48999999999999999999999999987774

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=98.84  E-value=7.7e-09  Score=65.82  Aligned_cols=34  Identities=29%  Similarity=0.619  Sum_probs=30.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ...++|+||+||||||+++.++..++.++++.+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            4679999999999999999999999999887764

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.82  E-value=7.8e-09  Score=69.41  Aligned_cols=43  Identities=23%  Similarity=0.468  Sum_probs=37.2

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      |.|++..+.+++   ++.|..+++.|||||||||++++|-+.+...
T Consensus         9 k~y~~~~av~~v~l~I~~gef~vliGpSGsGKTTtLkMINrLiept   54 (309)
T COG1125           9 KRYGNKKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMINRLIEPT   54 (309)
T ss_pred             hhcCCceeeeeeeEEecCCeEEEEECCCCCcHHHHHHHHhcccCCC
Confidence            568877777777   8899999999999999999999998877544

>PRK06547 hypothetical protein; Provisional

Probab=98.82  E-value=4.7e-08  Score=62.32  Aligned_cols=35  Identities=31%  Similarity=0.426  Sum_probs=29.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ....+.+.|++||||||+++.+++.++.+++..+.
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d~   48 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAARTGFQLVHLDD   48 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCCCeecccc
Confidence            34578888999999999999999999988776654

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.82  E-value=1.9e-08  Score=73.60  Aligned_cols=27  Identities=30%  Similarity=0.536  Sum_probs=24.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..++|+||+|+||||+|+++|+.+++.
T Consensus        39 ha~Lf~Gp~G~GKTt~A~~lAk~l~c~   65 (509)
T PRK14958         39 HAYLFTGTRGVGKTTISRILAKCLNCE   65 (509)
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            357999999999999999999999875

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.81  E-value=9.4e-09  Score=68.93  Aligned_cols=47  Identities=26%  Similarity=0.393  Sum_probs=38.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .|++..+++++   ++.|..+.|.||+|+|||||++++...+......+.
T Consensus        13 ~y~~~~vl~~i~l~v~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~   62 (254)
T COG1121          13 SYGNRPVLEDISLSVEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIK   62 (254)
T ss_pred             EECCEeeeeccEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEE
Confidence            46644688888   888999999999999999999999987765544433

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.81  E-value=1.6e-08  Score=67.09  Aligned_cols=44  Identities=18%  Similarity=0.392  Sum_probs=36.8

Q ss_pred             CCC-ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKF-SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~-~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +.| ++..+++++   ++.|..+.|.||+|+|||||+|++....+...
T Consensus        11 k~yp~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKSTLLR~lngl~d~t~   58 (258)
T COG3638          11 KTYPGGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTS   58 (258)
T ss_pred             eecCCCceeeeeEeEEeCCCcEEEEECCCCCcHHHHHHHHhcccCCCc
Confidence            356 677777777   88999999999999999999999998665443

>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=98.81  E-value=3.5e-09  Score=69.28  Aligned_cols=40  Identities=20%  Similarity=0.283  Sum_probs=33.5

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus        17 ~~il~~~s~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   59 (218)
T cd03255          17 VQALKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLDRPTSG   59 (218)
T ss_pred             eeEEeeeEEEEcCCCEEEEEcCCCCCHHHHHHHHhCCcCCCce
Confidence            4567766   889999999999999999999999988764433

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.

>PRK03839 putative kinase; Provisional

Probab=98.81  E-value=4.8e-09  Score=66.90  Aligned_cols=32  Identities=31%  Similarity=0.579  Sum_probs=29.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++|.|+|||||||+++.+|+.++.++++.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d~   33 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLTE   33 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehhh
Confidence            48999999999999999999999999987664

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.81  E-value=3.9e-08  Score=72.38  Aligned_cols=82  Identities=22%  Similarity=0.231  Sum_probs=56.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc------------------------cccce------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRL------------------------QTPQA------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~------------------------~~~~~------------------------   49 (105)
                      .++|+||+|+||||+|+.+|+.+.+..                        +.++.                        
T Consensus        40 a~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~  119 (546)
T PRK14957         40 AYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGR  119 (546)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeecccccCHHHHHHHHHHHHhhhhcCC
Confidence            478999999999999999999988621                        11111                        


Q ss_pred             ---------------------eeeccc-CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKY-PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ---------------------~~~~~~-~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                           ..+++. +.+.++.+|+....+.+.+.+|+ ..+.+..++.+++...+.+.+
T Consensus       120 ~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc-~~~~f~~Ls~~eI~~~L~~il  191 (546)
T PRK14957        120 YKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRC-IQLHLKHISQADIKDQLKIIL  191 (546)
T ss_pred             cEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHhe-eeEEeCCCCHHHHHHHHHHHH
Confidence                                 023332 34556666666777777788888 455677777777776666544

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=98.80  E-value=1.2e-08  Score=66.61  Aligned_cols=28  Identities=43%  Similarity=0.631  Sum_probs=20.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.+++++||||||||++|+.+...+..
T Consensus        21 G~h~lLl~GppGtGKTmlA~~l~~lLP~   48 (206)
T PF01078_consen   21 GGHHLLLIGPPGTGKTMLARRLPSLLPP   48 (206)
T ss_dssp             CC--EEEES-CCCTHHHHHHHHHHCS--
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHhCCC
Confidence            3568999999999999999999877654

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.80  E-value=5e-08  Score=72.67  Aligned_cols=82  Identities=13%  Similarity=0.229  Sum_probs=57.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc-----------------------------cccce-------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRL-----------------------------QTPQA-------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~-----------------------------~~~~~-------------------   49 (105)
                      .++|+||+|+||||+++++|+.++|..                             +.++.                   
T Consensus        40 a~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~  119 (618)
T PRK14951         40 AYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYK  119 (618)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhC
Confidence            479999999999999999999998731                             11111                   


Q ss_pred             --------------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 --------------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 --------------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                                ..+++ .+.+.++.+|+.+..+...+++|+ ..+.+..++.+++...+.+.+
T Consensus       120 p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSRc-~~~~f~~Ls~eei~~~L~~i~  196 (618)
T PRK14951        120 PVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRC-LQFNLRPMAPETVLEHLTQVL  196 (618)
T ss_pred             cccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHhc-eeeecCCCCHHHHHHHHHHHH
Confidence                                      03333 245566777777777888888888 455667777777766666544

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.80  E-value=6e-09  Score=62.30  Aligned_cols=29  Identities=45%  Similarity=0.791  Sum_probs=26.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +..++|+||||||||++++.++..+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~   30 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG   30 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence            57899999999999999999999998653

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.

>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=98.80  E-value=3.4e-09  Score=70.14  Aligned_cols=43  Identities=21%  Similarity=0.433  Sum_probs=35.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++..+....
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~   54 (235)
T cd03261           9 SFGGRTVLKGVDLDVRRGEILAIIGPSGSGKSTLLRLIVGLLRPDS   54 (235)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            45555567776   88999999999999999999999998775443

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.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=98.80  E-value=3.6e-09  Score=68.90  Aligned_cols=42  Identities=21%  Similarity=0.370  Sum_probs=34.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++......
T Consensus         9 ~~~~~~~l~~v~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~   53 (210)
T cd03269           9 RFGRVTALDDISFSVEKGEIFGLLGPNGAGKTTTIRMILGIILPD   53 (210)
T ss_pred             EECCEEEEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35555566666   7889999999999999999999999876543

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=98.79  E-value=4e-09  Score=68.86  Aligned_cols=43  Identities=23%  Similarity=0.390  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++.......
T Consensus         8 ~~~~~~~l~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~   53 (213)
T cd03235           8 SYGGHPVLEDVSFEVKPGEFLAIVGPNGAGKSTLLKAILGLLKPTS   53 (213)
T ss_pred             EECCEEeeecceeEEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCC
Confidence            45555566766   88999999999999999999999998775433

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=98.79  E-value=4e-09  Score=68.42  Aligned_cols=42  Identities=19%  Similarity=0.374  Sum_probs=34.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++..+...
T Consensus         7 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   51 (206)
T TIGR03608         7 KFGDKIILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLEKFD   51 (206)
T ss_pred             EECCEEEEeceEEEEeCCcEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            45555667776   7889999999999999999999999877543

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=98.79  E-value=4.4e-09  Score=68.63  Aligned_cols=43  Identities=21%  Similarity=0.353  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++.......
T Consensus         9 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~   54 (213)
T cd03259           9 TYGSVRALDDLSLTVEPGEFLALLGPSGCGKTTLLRLIAGLERPDS   54 (213)
T ss_pred             EeCCeeeecceeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            45555567766   88899999999999999999999998765433

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=98.79  E-value=4.1e-09  Score=68.73  Aligned_cols=44  Identities=25%  Similarity=0.377  Sum_probs=35.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus         9 ~~~~~~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03301           9 RFGNVTALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSG   55 (213)
T ss_pred             EECCeeeeeceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            35555566776   788999999999999999999999988754433

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.79  E-value=4.1e-08  Score=69.79  Aligned_cols=81  Identities=19%  Similarity=0.308  Sum_probs=57.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCc-------------------------cccce---------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRL-------------------------QTPQA---------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~-------------------------~~~~~---------------------   49 (105)
                      +..++|+||+|+|||++|+.+|+.+.+..                         +....                     
T Consensus        36 ~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~  115 (394)
T PRK07940         36 THAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPST  115 (394)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCccc
Confidence            45699999999999999999999887752                         10000                     


Q ss_pred             -----------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHH
Q psy4924          50 -----------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFS   97 (105)
Q Consensus        50 -----------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~   97 (105)
                                             ..+++ .++..++.+++.++.+.+.+.+|+. .+.++.|+.++....+.
T Consensus       116 ~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSRc~-~i~f~~~~~~~i~~~L~  186 (394)
T PRK07940        116 GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCR-HVALRTPSVEAVAEVLV  186 (394)
T ss_pred             CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhhCe-EEECCCCCHHHHHHHHH
Confidence                                   02333 2344455555557889999999984 66788888888776665

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=98.79  E-value=4.9e-09  Score=71.99  Aligned_cols=45  Identities=20%  Similarity=0.271  Sum_probs=37.9

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      |.|++..+.+++   +.+|..+.|.||+|+|||||+++++..+.....
T Consensus         1 k~y~~~~~l~~vs~~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G   48 (302)
T TIGR01188         1 KVYGDFKAVDGVNFKVREGEVFGFLGPNGAGKTTTIRMLTTLLRPTSG   48 (302)
T ss_pred             CeeCCeeEEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            567777778877   889999999999999999999999987764433

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>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=98.79  E-value=4.9e-09  Score=68.75  Aligned_cols=43  Identities=28%  Similarity=0.417  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++.......
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~   54 (222)
T cd03224           9 GYGKSQILFGVSLTVPEGEIVALLGRNGAGKTTLLKTIMGLLPPRS   54 (222)
T ss_pred             ecCCeeEeeeeeEEEcCCeEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            46555566666   78899999999999999999999998775443

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.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=4.6e-08  Score=71.47  Aligned_cols=45  Identities=11%  Similarity=0.119  Sum_probs=32.5

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      +...++.+++.+..+...+.+|+. .+.+..++.+++...+.+.++
T Consensus       145 ~~t~~Il~t~~~~kl~~~I~SRc~-~~~f~~ls~~el~~~L~~i~~  189 (504)
T PRK14963        145 EHVIFILATTEPEKMPPTILSRTQ-HFRFRRLTEEEIAGKLRRLLE  189 (504)
T ss_pred             CCEEEEEEcCChhhCChHHhcceE-EEEecCCCHHHHHHHHHHHHH
Confidence            345666777777888888888886 557777788887777766543

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=98.79  E-value=5.9e-09  Score=69.26  Aligned_cols=41  Identities=24%  Similarity=0.451  Sum_probs=34.3

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|+ +..+.+++   +.+|..+.|.||+|||||||+++|+.....
T Consensus        10 ~~~~~~~il~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~   54 (243)
T TIGR02315        10 VYPNGKQALKNINLNINPGEFVAIIGPSGAGKSTLLRCINRLVEP   54 (243)
T ss_pred             ecCCCcceeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCcCC
Confidence            455 45577777   888999999999999999999999987654

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.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=98.79  E-value=4.1e-09  Score=67.45  Aligned_cols=45  Identities=24%  Similarity=0.328  Sum_probs=35.1

Q ss_pred             CCccccccccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHSKVKSNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~~~~~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|++..+..+.  ++++..+.|.||+|+|||||+++++.........
T Consensus         9 ~~~~~~~l~~~~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~   55 (177)
T cd03222           9 RYGVFFLLVELGVVKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDN   55 (177)
T ss_pred             EECCEEEEccCcEECCCCEEEEECCCCChHHHHHHHHHcCCCCCCcE
Confidence            46665555544  6789999999999999999999999887654433

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.79  E-value=1.4e-08  Score=73.07  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=22.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+++||||+|+|||||++++++++.
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~  155 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVV  155 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Confidence            4799999999999999999999863

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

Probab=98.79  E-value=4.7e-09  Score=68.41  Aligned_cols=42  Identities=26%  Similarity=0.446  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++......
T Consensus         9 ~~~~~~~l~~~s~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~   53 (213)
T cd03262           9 SFGDFHVLKGIDLTVKKGEVVVIIGPSGSGKSTLLRCINLLEEPD   53 (213)
T ss_pred             EECCeEeecCceEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            45555566666   7889999999999999999999999877543

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

>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=98.78  E-value=4.5e-09  Score=68.97  Aligned_cols=42  Identities=24%  Similarity=0.384  Sum_probs=34.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+...
T Consensus         9 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~   53 (220)
T cd03265           9 KYGDFEAVRGVSFRVRRGEIFGLLGPNGAGKTTTIKMLTTLLKPT   53 (220)
T ss_pred             EECCEEeeeceeEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            45555677766   7889999999999999999999999876543

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=98.78  E-value=5.4e-09  Score=68.09  Aligned_cols=42  Identities=26%  Similarity=0.460  Sum_probs=34.4

Q ss_pred             CCcc--ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSH--SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~--~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++  ..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus         8 ~~~~~~~~il~~vs~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~   54 (211)
T cd03225           8 SYPDGARPALDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLLGPT   54 (211)
T ss_pred             ecCCCCeeeecceEEEEcCCcEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            4554  4567776   7889999999999999999999999876543

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.

>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=98.78  E-value=5.8e-09  Score=68.94  Aligned_cols=38  Identities=13%  Similarity=0.245  Sum_probs=32.8

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+.+++   +.+|..+.|.||+|||||||+++++..+....
T Consensus        19 ~il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~   59 (233)
T cd03258          19 TALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLERPTS   59 (233)
T ss_pred             eeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            567776   88999999999999999999999998876443

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.

>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=98.78  E-value=7e-09  Score=68.32  Aligned_cols=39  Identities=23%  Similarity=0.425  Sum_probs=33.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++...
T Consensus         9 ~~~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260           9 YYGDKHALKDISLDIPKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EcCCceeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            46555677776   8899999999999999999999999987

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).

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=98.78  E-value=4.3e-09  Score=69.90  Aligned_cols=44  Identities=27%  Similarity=0.393  Sum_probs=36.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++........
T Consensus        11 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (239)
T cd03296          11 RFGDFVALDDVSLDIPSGELVALLGPSGSGKTTLLRLIAGLERPDSG   57 (239)
T ss_pred             EECCEEeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            45555677776   889999999999999999999999988754433

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.78  E-value=4.9e-09  Score=68.09  Aligned_cols=43  Identities=21%  Similarity=0.419  Sum_probs=34.8

Q ss_pred             CCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++ ..+++++   +.+|..+.|.||+|||||||+++++.......
T Consensus         8 ~~~~~~~~l~~v~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~   54 (205)
T cd03226           8 SYKKGTEILDDLSLDLYAGEIIALTGKNGAGKTTLAKILAGLIKESS   54 (205)
T ss_pred             EeCCcCceeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCc
Confidence            4554 4566666   78899999999999999999999998765433

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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=4.6e-08  Score=75.08  Aligned_cols=82  Identities=18%  Similarity=0.196  Sum_probs=57.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcc------------------------ccce------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQ------------------------TPQA------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~------------------------~~~~------------------------   49 (105)
                      .++|+||+|+||||+|+++|+.+++...                        .++.                        
T Consensus        40 AyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk  119 (944)
T PRK14949         40 AYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGR  119 (944)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCC
Confidence            4689999999999999999999988511                        0000                        


Q ss_pred             ---------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ---------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                           ..+++ ...+.++.+|+.+..+...++.|+. .+.+..++.++....+.+.+
T Consensus       120 ~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq-~f~fkpLs~eEI~~~L~~il  191 (944)
T PRK14949        120 FKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCL-QFNLKSLTQDEIGTQLNHIL  191 (944)
T ss_pred             cEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhhe-EEeCCCCCHHHHHHHHHHHH
Confidence                                 02332 2446667777777788888888884 55667777777776666644

>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.78  E-value=6.2e-09  Score=67.70  Aligned_cols=49  Identities=18%  Similarity=0.299  Sum_probs=43.3

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      |.|++..+.+++   +++|+..-+.||+|+|||||+..+++.++.....+..
T Consensus         9 K~y~~~~vl~~isl~i~~g~iTs~IGPNGAGKSTLLS~~sRL~~~d~G~i~i   60 (252)
T COG4604           9 KSYGTKVVLDDVSLDIPKGGITSIIGPNGAGKSTLLSMMSRLLKKDSGEITI   60 (252)
T ss_pred             HhhCCEEeeccceeeecCCceeEEECCCCccHHHHHHHHHHhccccCceEEE
Confidence            468888888888   8999999999999999999999999999988776654

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=98.78  E-value=6.7e-09  Score=68.47  Aligned_cols=43  Identities=33%  Similarity=0.447  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++|+.......
T Consensus        16 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~   61 (225)
T PRK10247         16 LAGDAKILNNISFSLRAGEFKLITGPSGCGKSTLLKIVASLISPTS   61 (225)
T ss_pred             eeCCceeeeccEEEEcCCCEEEEECCCCCCHHHHHHHHhcccCCCC
Confidence            45555567777   88999999999999999999999998765433

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

Probab=98.77  E-value=5.3e-08  Score=69.23  Aligned_cols=85  Identities=14%  Similarity=0.187  Sum_probs=57.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce--------------------------------e-------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA--------------------------------I-------------   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~--------------------------------~-------------   50 (105)
                      ..+++||||+|+|||||+++++++......+...                                +             
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y~~dlllIDDiq~l~gk~~  192 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQFLAGKER  192 (408)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhhccCeeeechHhHhcCChh
Confidence            5689999999999999999999887754432211                                0             


Q ss_pred             ----------eecccCCEEEEEeeCCCCC---CCHHhhccc--ceEEEeCCCCHHHHHHHHHHHH
Q psy4924          51 ----------FFKKYPNVLIFTTSNLTGA---IDLAFLDRA--DIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        51 ----------~~~~~~~~~~~~~~n~~~~---~d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                .+.....-+++.+...|..   +++.+.+|+  .+...+..|+.+.+..++.+..
T Consensus       193 ~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka  257 (408)
T COG0593         193 TQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKA  257 (408)
T ss_pred             HHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHH
Confidence                      1222233344444444543   445566676  6678888999999998888744

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=98.77  E-value=6.5e-09  Score=70.31  Aligned_cols=42  Identities=14%  Similarity=0.344  Sum_probs=35.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++|+..+...
T Consensus        33 ~~~~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~p~   77 (269)
T cd03294          33 KTGQTVGVNDVSLDVREGEIFVIMGLSGSGKSTLLRCINRLIEPT   77 (269)
T ss_pred             hcCCceEeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            46666677777   8899999999999999999999999887543

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. 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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=98.77  E-value=6.2e-09  Score=69.01  Aligned_cols=41  Identities=24%  Similarity=0.460  Sum_probs=34.4

Q ss_pred             CCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++ ..+.+++   +.+|..+.|.||+|||||||+++++..+..
T Consensus         9 ~~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~   53 (241)
T cd03256           9 TYPNGKKALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNGLVEP   53 (241)
T ss_pred             ecCCccEEEecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCcCC
Confidence            4655 5567776   889999999999999999999999987654

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=98.77  E-value=6.1e-09  Score=68.24  Aligned_cols=44  Identities=18%  Similarity=0.263  Sum_probs=35.4

Q ss_pred             CCcc--ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSH--SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~--~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++  ..+++++   +.+|..+.|.||+|||||||+++++........
T Consensus         9 ~~~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (220)
T cd03263           9 TYKKGTKPAVDDLSLNVYKGEIFGLLGHNGAGKTTTLKMLTGELRPTSG   57 (220)
T ss_pred             EeCCCCceeecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4554  4577776   888999999999999999999999987754433

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=98.77  E-value=1.1e-07  Score=66.65  Aligned_cols=44  Identities=14%  Similarity=0.147  Sum_probs=35.6

Q ss_pred             CCEEEEEeeCCCC-CCCHHhhcccceEEEeCCCC-HHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTG-AIDLAFLDRADIKQYIGFPS-AAAIFNIFSSC   99 (105)
Q Consensus        56 ~~~~~~~~~n~~~-~~d~~~~~r~~~~~~~~~~~-~~~~~~i~~~~   99 (105)
                      .+++++++.|..+ .+.+++++||.+.+.+++|. .+...+|+++.
T Consensus       186 ~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~  231 (350)
T CHL00081        186 ARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVEQR  231 (350)
T ss_pred             CCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHHHHHHHhh
Confidence            4567788878654 68899999999999999996 57888888764

>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=98.77  E-value=6e-09  Score=68.78  Aligned_cols=43  Identities=23%  Similarity=0.387  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++.......
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~   54 (232)
T cd03218           9 RYGKRKVVNGVSLSVKQGEIVGLLGPNGAGKTTTFYMIVGLVKPDS   54 (232)
T ss_pred             EeCCEEeeccceeEecCCcEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            45555567776   78899999999999999999999998765433

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.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=98.77  E-value=5.4e-09  Score=68.95  Aligned_cols=44  Identities=23%  Similarity=0.387  Sum_probs=35.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (230)
T TIGR03410         9 YYGQSHILRGVSLEVPKGEVTCVLGRNGVGKTTLLKTLMGLLPVKSG   55 (230)
T ss_pred             EeCCeEEecceeeEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            45555566666   889999999999999999999999988765433

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.

>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=98.77  E-value=4.9e-09  Score=69.35  Aligned_cols=43  Identities=23%  Similarity=0.325  Sum_probs=34.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+....
T Consensus         9 ~~~~~~~l~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~   54 (236)
T cd03219           9 RFGGLVALDDVSFSVRPGEIHGLIGPNGAGKTTLFNLISGFLRPTS   54 (236)
T ss_pred             EECCEEEecCceEEecCCcEEEEECCCCCCHHHHHHHHcCCCCCCC
Confidence            35555566666   78899999999999999999999998765433

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).

>PRK13947 shikimate kinase; Provisional

Probab=98.77  E-value=8.6e-09  Score=65.02  Aligned_cols=32  Identities=38%  Similarity=0.449  Sum_probs=29.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++|.|+|||||||+++.+|+.++.++++.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d~   34 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTDK   34 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECch
Confidence            58999999999999999999999999988775

>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=98.76  E-value=5.6e-09  Score=68.50  Aligned_cols=40  Identities=25%  Similarity=0.327  Sum_probs=33.3

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++++........
T Consensus        17 ~~il~~vs~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   59 (220)
T cd03293          17 VTALEDISLSVEEGEFVALVGPSGCGKSTLLRIIAGLERPTSG   59 (220)
T ss_pred             eEEEeceeEEEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4567776   889999999999999999999999987654333

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=5.4e-08  Score=70.80  Aligned_cols=27  Identities=30%  Similarity=0.514  Sum_probs=24.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..++|+||+|+||||+|+.+|+.++|.
T Consensus        36 ha~Lf~Gp~G~GKTT~ArilAk~LnC~   62 (491)
T PRK14964         36 QSILLVGASGVGKTTCARIISLCLNCS   62 (491)
T ss_pred             ceEEEECCCCccHHHHHHHHHHHHcCc
Confidence            469999999999999999999988764

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=98.76  E-value=7.4e-09  Score=68.07  Aligned_cols=39  Identities=26%  Similarity=0.359  Sum_probs=33.0

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +.+|..+.|.||+|||||||+++++........
T Consensus        19 ~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   60 (228)
T cd03257          19 KALDDVSFSIKKGETLGLVGESGSGKSTLARAILGLLKPTSG   60 (228)
T ss_pred             eeecCceeEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            567776   889999999999999999999999987754433

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=98.76  E-value=6e-09  Score=70.01  Aligned_cols=44  Identities=20%  Similarity=0.397  Sum_probs=35.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++........
T Consensus        10 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   56 (255)
T PRK11248         10 DYGGKPALEDINLTLESGELLVVLGPSGCGKTTLLNLIAGFVPYQHG   56 (255)
T ss_pred             EeCCeeeEeeeeEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            45555566666   888999999999999999999999987754433

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.76  E-value=6.4e-09  Score=69.09  Aligned_cols=43  Identities=23%  Similarity=0.365  Sum_probs=35.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++.......
T Consensus        12 ~~~~~~~l~~~sl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~   57 (241)
T PRK10895         12 AYKGRRVVEDVSLTVNSGEIVGLLGPNGAGKTTTFYMVVGIVPRDA   57 (241)
T ss_pred             EeCCEEEEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            45555566666   88999999999999999999999998875433

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=98.75  E-value=7.4e-09  Score=68.30  Aligned_cols=42  Identities=17%  Similarity=0.223  Sum_probs=35.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++......
T Consensus        31 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~   75 (224)
T cd03220          31 EVGEFWALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGIYPPD   75 (224)
T ss_pred             hcCCeEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            46667777777   8899999999999999999999999876543

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=98.75  E-value=9.3e-09  Score=66.07  Aligned_cols=42  Identities=21%  Similarity=0.245  Sum_probs=34.7

Q ss_pred             Cccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           3 FSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         3 ~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |++..+++++   +.+|..+.|.||+|||||||+++++.......
T Consensus         2 ~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~   46 (190)
T TIGR01166         2 PGGPEVLKGLNFAAERGEVLALLGANGAGKSTLLLHLNGLLRPQS   46 (190)
T ss_pred             CCccceecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            3555677776   88999999999999999999999998765433

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.

>PRK14530 adenylate kinase; Provisional

Probab=98.75  E-value=1.1e-08  Score=67.12  Aligned_cols=32  Identities=28%  Similarity=0.515  Sum_probs=28.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..++|.|||||||||+++.||+.++.+++..
T Consensus         3 ~~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          3 QPRILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            45799999999999999999999999887743

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

Probab=98.75  E-value=6.5e-09  Score=65.52  Aligned_cols=42  Identities=24%  Similarity=0.358  Sum_probs=34.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus         9 ~~~~~~vl~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~   53 (163)
T cd03216           9 RFGGVKALDGVSLSVRRGEVHALLGENGAGKSTLMKILSGLYKPD   53 (163)
T ss_pred             EECCeEEEeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            45555566666   8899999999999999999999999876543

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

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=98.75  E-value=6.7e-09  Score=69.05  Aligned_cols=41  Identities=22%  Similarity=0.317  Sum_probs=34.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++.....
T Consensus        11 ~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~   54 (242)
T PRK11124         11 FYGAHQALFDITLDCPQGETLVLLGPSGAGKSSLLRVLNLLEMP   54 (242)
T ss_pred             EECCeeeEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            45555677776   889999999999999999999999987654

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=98.75  E-value=6.6e-09  Score=69.96  Aligned_cols=43  Identities=21%  Similarity=0.341  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+.......
T Consensus        21 ~~~~~~il~~isl~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~~p~~   66 (257)
T PRK11247         21 RYGERTVLNQLDLHIPAGQFVAVVGRSGCGKSTLLRLLAGLETPSA   66 (257)
T ss_pred             EECCcceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCC
Confidence            45555566666   88899999999999999999999998775443

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=98.74  E-value=6.5e-09  Score=68.92  Aligned_cols=44  Identities=18%  Similarity=0.356  Sum_probs=35.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++........
T Consensus        10 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G   56 (236)
T TIGR03864        10 AYGARRALDDVSFTVRPGEFVALLGPNGAGKSTLFSLLTRLYVAQEG   56 (236)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            35555566766   889999999999999999999999987654433

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.

>TIGR00235 udk uridine kinase

Probab=98.74  E-value=1.2e-07  Score=61.74  Aligned_cols=27  Identities=22%  Similarity=0.471  Sum_probs=24.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+..+.|.||+|||||||+++++..++
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            467889999999999999999998876

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

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.74  E-value=7.7e-09  Score=67.50  Aligned_cols=39  Identities=28%  Similarity=0.428  Sum_probs=32.6

Q ss_pred             cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           5 HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         5 ~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +..+.+++   +.+|..+.|.||+|||||||+++++..+...
T Consensus        14 ~~~il~~is~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~   55 (214)
T TIGR02673        14 GVAALHDVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGALTPS   55 (214)
T ss_pred             CceeecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            34566666   8889999999999999999999999876543

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.

>KOG0735|consensus

Probab=98.74  E-value=6.5e-08  Score=72.55  Aligned_cols=89  Identities=21%  Similarity=0.318  Sum_probs=69.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc----ce-----------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP----QA-----------------------------------------   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~----~~-----------------------------------------   49 (105)
                      ....++|.||+|||||.|+++++.+...+.+.-    +.                                         
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~~  509 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSIIVLDDLDCLASA  509 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEEEEcchhhhhcc
Confidence            356799999999999999999999987543311    11                                         


Q ss_pred             ------------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ------------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ------------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                              +....+..+.++++.+..+.+.+.+.+  +|+.++.++.|...++..|+...+++.
T Consensus       510 s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~  589 (952)
T KOG0735|consen  510 SSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKN  589 (952)
T ss_pred             CcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhh
Confidence                                    133444557889998888888887665  799999999999999999998887653

>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=98.74  E-value=7.4e-09  Score=66.03  Aligned_cols=42  Identities=26%  Similarity=0.509  Sum_probs=34.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus         9 ~~~~~~~l~~i~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~   53 (178)
T cd03229           9 RYGQKTVLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAGLEEPD   53 (178)
T ss_pred             EECCeEEEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35555566666   7889999999999999999999999876543

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.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=98.74  E-value=7.1e-09  Score=67.44  Aligned_cols=42  Identities=21%  Similarity=0.386  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||++.++......
T Consensus         9 ~~~~~~~l~~~~~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~   53 (208)
T cd03268           9 TYGKKRVLDDISLHVKKGEIYGFLGPNGAGKTTTMKIILGLIKPD   53 (208)
T ss_pred             EECCeEeEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCcCCC
Confidence            45555566666   7889999999999999999999999876543

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.

>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=98.74  E-value=5.9e-09  Score=63.79  Aligned_cols=32  Identities=34%  Similarity=0.753  Sum_probs=26.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++++|||||||||+++.+++.++..+++.+.
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~~~~i~~D~   32 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLGAVVISQDE   32 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHSTEEEEEHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCCCEEEeHHH
Confidence            37999999999999999999999866655444

...

>PRK08233 hypothetical protein; Provisional

Probab=98.74  E-value=9.1e-08  Score=60.69  Aligned_cols=82  Identities=13%  Similarity=0.179  Sum_probs=49.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC-Ccccccee--------------------------------eecccC--CEEE
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI-RLQTPQAI--------------------------------FFKKYP--NVLI   60 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~-~~~~~~~~--------------------------------~~~~~~--~~~~   60 (105)
                      +..+.+.|+|||||||+++.|+..++. .....+..                                ......  .++ 
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~v-   81 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLKNSKALYFDRYDFDNCPEDICKWIDKGANYSEWVLTPLIKDIQELIAKSNVDYI-   81 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCCCCceEEECCEEcccCchhhhhhhhccCChhhhhhHHHHHHHHHHHcCCCceEE-
Confidence            467889999999999999999999862 22111110                                000111  222 


Q ss_pred             EEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          61 FTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        61 ~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                      +....+. .........++..++++.|....+.++.+|.
T Consensus        82 ivd~~~~-~~~~~~~~~~d~~i~l~~~~~~~~~R~~~R~  119 (182)
T PRK08233         82 IVDYPFA-YLNSEMRQFIDVTIFIDTPLDIAMARRILRD  119 (182)
T ss_pred             EEeeehh-hccHHHHHHcCEEEEEcCCHHHHHHHHHHHH
Confidence            3222221 2233344568999999999887777766654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.74  E-value=3.6e-08  Score=75.61  Aligned_cols=86  Identities=22%  Similarity=0.246  Sum_probs=59.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC----------CCccccce-------------------------------e---
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS----------IRLQTPQA-------------------------------I---   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~----------~~~~~~~~-------------------------------~---   50 (105)
                      ..++++|+||||+|||++++.+|..+.          .+++.++.                               +   
T Consensus       199 ~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiD  278 (821)
T CHL00095        199 TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERLKRIFDEIQENNNIILVID  278 (821)
T ss_pred             ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEe
Confidence            345789999999999999999999874          23333221                               0   


Q ss_pred             ----------------------eecccCCEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                            ..-....+.+|++|+..     ...|+++.+||.. +.++.|+.++...++.....
T Consensus       279 Eih~l~~~g~~~g~~~~a~lLkp~l~rg~l~~IgaTt~~ey~~~ie~D~aL~rRf~~-I~v~ep~~~e~~aILr~l~~  355 (821)
T CHL00095        279 EVHTLIGAGAAEGAIDAANILKPALARGELQCIGATTLDEYRKHIEKDPALERRFQP-VYVGEPSVEETIEILFGLRS  355 (821)
T ss_pred             cHHHHhcCCCCCCcccHHHHhHHHHhCCCcEEEEeCCHHHHHHHHhcCHHHHhcceE-EecCCCCHHHHHHHHHHHHH
Confidence                                  00111346778888765     3578889999986 56788888887777765543

>PRK13948 shikimate kinase; Provisional

Probab=98.73  E-value=1.8e-08  Score=64.74  Aligned_cols=36  Identities=22%  Similarity=0.220  Sum_probs=33.2

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..+..++|.|++||||||+++.+|..++.++++.+.
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D~   43 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALMLHFIDTDR   43 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECCH
Confidence            456889999999999999999999999999998885

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=98.73  E-value=1.1e-08  Score=67.93  Aligned_cols=42  Identities=29%  Similarity=0.396  Sum_probs=35.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|+...+++++   +.+|..+.|.||+|||||||+++|+......
T Consensus        30 ~~~~~~il~~vs~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~~p~   74 (236)
T cd03267          30 KYREVEALKGISFTIEKGEIVGFIGPNGAGKTTTLKILSGLLQPT   74 (236)
T ss_pred             ccCCeeeeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCcCCC
Confidence            35556677777   8889999999999999999999999876543

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

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

Probab=98.73  E-value=1.8e-07  Score=60.45  Aligned_cols=27  Identities=44%  Similarity=0.683  Sum_probs=23.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|.|.||+||||||+|+.|+..++...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~   27 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRG   27 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccC
Confidence            378999999999999999999998543

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 ....

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=98.73  E-value=1.7e-08  Score=64.15  Aligned_cols=30  Identities=27%  Similarity=0.522  Sum_probs=27.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      ++.++|.|||||||||+++.++..++.++.
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~~~~~~   31 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVLAEPWL   31 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhCCCcc
Confidence            678999999999999999999999877654

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

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.73  E-value=8.9e-09  Score=69.64  Aligned_cols=42  Identities=24%  Similarity=0.358  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+...
T Consensus        10 ~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~   54 (271)
T PRK13638         10 RYQDEPVLKGLNLDFSLSPVTGLVGANGCGKSTLFMNLSGLLRPQ   54 (271)
T ss_pred             EcCCcccccceEEEEcCCCEEEEECCCCCCHHHHHHHHcCCCCCC
Confidence            46655677776   8889999999999999999999999877543

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=98.73  E-value=1.1e-08  Score=66.99  Aligned_cols=37  Identities=27%  Similarity=0.361  Sum_probs=31.8

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+++++   +.+|..+.|.||+|||||||+++++......
T Consensus        19 ~il~~~sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~   58 (218)
T cd03266          19 QAVDGVSFTVKPGEVTGLLGPNGAGKTTTLRMLAGLLEPD   58 (218)
T ss_pred             eeecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCcCCC
Confidence            567776   7889999999999999999999999876543

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=98.73  E-value=8.1e-09  Score=68.53  Aligned_cols=39  Identities=21%  Similarity=0.458  Sum_probs=33.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+...
T Consensus         9 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (243)
T TIGR01978         9 SVEDKEILKGVNLTVKKGEIHAIMGPNGSGKSTLSKTIAGHP   50 (243)
T ss_pred             EECCEEEEeccceEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45555566666   8889999999999999999999999874

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.72  E-value=1e-08  Score=66.44  Aligned_cols=41  Identities=27%  Similarity=0.421  Sum_probs=34.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++.....
T Consensus        10 ~~~~~~il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~   53 (200)
T PRK13540         10 DYHDQPLLQQISFHLPAGGLLHLKGSNGAGKTTLLKLIAGLLNP   53 (200)
T ss_pred             EeCCeeEEeeeeEEECCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            45555677777   889999999999999999999999987654

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=98.72  E-value=9.7e-09  Score=68.52  Aligned_cols=41  Identities=32%  Similarity=0.454  Sum_probs=34.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+..
T Consensus        12 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~   55 (250)
T PRK11264         12 KFHGQTVLHGIDLEVKPGEVVAIIGPSGSGKTTLLRCINLLEQP   55 (250)
T ss_pred             EECCeeeeccceEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            45555677776   788999999999999999999999987654

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=98.72  E-value=9.2e-09  Score=68.79  Aligned_cols=42  Identities=21%  Similarity=0.339  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++......
T Consensus        12 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   56 (253)
T TIGR02323        12 SYGGGKGCRDVSFDLYPGEVLGIVGESGSGKSTLLGCLAGRLAPD   56 (253)
T ss_pred             EeCCceEeecceEEEeCCcEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35544566666   8889999999999999999999999887543

Members of this family are the PhnK 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 complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.72  E-value=1e-08  Score=68.29  Aligned_cols=42  Identities=19%  Similarity=0.338  Sum_probs=34.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++......
T Consensus        12 ~~~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~   56 (241)
T PRK14250         12 SSFGKEILKDISVKFEGGAIYTIVGPSGAGKSTLIKLINRLIDPT   56 (241)
T ss_pred             EeCCeeeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            45555566766   7889999999999999999999999876543

>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=98.72  E-value=1.3e-08  Score=62.90  Aligned_cols=32  Identities=25%  Similarity=0.410  Sum_probs=28.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++|+|+|||||||+++.++..++.++++.+.
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~~d~   32 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLDE   32 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEEchH
Confidence            37899999999999999999999998887665

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.

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.72  E-value=1.4e-08  Score=67.46  Aligned_cols=46  Identities=15%  Similarity=0.318  Sum_probs=40.6

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      ++||++.+++++   +..|+.+.+.||||||||||+|.+...+.....+
T Consensus        16 ~~fG~~~Ild~v~l~V~~Gei~~iiGgSGsGKStlLr~I~Gll~P~~Ge   64 (263)
T COG1127          16 KSFGDRVILDGVDLDVPRGEILAILGGSGSGKSTLLRLILGLLRPDKGE   64 (263)
T ss_pred             eecCCEEEecCceeeecCCcEEEEECCCCcCHHHHHHHHhccCCCCCCe
Confidence            578999999999   8899999999999999999999999888765433

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.72  E-value=1.7e-07  Score=66.57  Aligned_cols=50  Identities=18%  Similarity=0.272  Sum_probs=39.3

Q ss_pred             eecccCCEEEEEeeCCC-CCCCHHhhcccceEEEeCCC-CHHHHHHHHHHHH
Q psy4924          51 FFKKYPNVLIFTTSNLT-GAIDLAFLDRADIKQYIGFP-SAAAIFNIFSSCV  100 (105)
Q Consensus        51 ~~~~~~~~~~~~~~n~~-~~~d~~~~~r~~~~~~~~~~-~~~~~~~i~~~~~  100 (105)
                      ++...-++++++|.|.. ..+-+.++|||++.+.+..| +.+++..|..+..
T Consensus       181 si~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~  232 (423)
T COG1239         181 SIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRL  232 (423)
T ss_pred             eeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHH
Confidence            45555678899999986 57778899999999999999 5666777776654

>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=98.71  E-value=1.1e-08  Score=65.38  Aligned_cols=42  Identities=29%  Similarity=0.446  Sum_probs=34.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++......
T Consensus         8 ~~~~~~~l~~~~~~i~~G~~~~l~G~nGsGKStLl~~i~G~~~~~   52 (180)
T cd03214           8 GYGGRTVLDDLSLSIEAGEIVGILGPNGAGKSTLLKTLAGLLKPS   52 (180)
T ss_pred             EECCeeeEeeeEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35554566666   7889999999999999999999999876543

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.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=98.71  E-value=9.4e-09  Score=70.61  Aligned_cols=43  Identities=21%  Similarity=0.395  Sum_probs=35.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++++..+....
T Consensus        13 ~~~~~~~l~~vsl~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~   58 (303)
T TIGR01288        13 SYGDKVVVNDLSFTIARGECFGLLGPNGAGKSTIARMLLGMISPDR   58 (303)
T ss_pred             EeCCeEEEcceeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            46665677776   88999999999999999999999998775433

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=98.71  E-value=1.3e-08  Score=64.80  Aligned_cols=30  Identities=23%  Similarity=0.573  Sum_probs=27.4

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ++++|||||||||+++.+|..++..++.++
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~is~~   31 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHLSAG   31 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEECC
Confidence            789999999999999999999998877764

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.

>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=98.71  E-value=6.4e-08  Score=65.77  Aligned_cols=47  Identities=28%  Similarity=0.406  Sum_probs=30.4

Q ss_pred             CCEEEEEeeCCCC---CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          56 PNVLIFTTSNLTG---AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        56 ~~~~~~~~~n~~~---~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      ..+.++++.+...   .+++.+++.|. .+.++.|+.+.+..|+...+...
T Consensus       147 ~~i~~vaa~~p~~Gr~~is~R~~r~f~-i~~~~~p~~~sl~~If~~il~~~  196 (272)
T PF12775_consen  147 EDIQFVAAMNPTGGRNPISPRFLRHFN-ILNIPYPSDESLNTIFSSILQSH  196 (272)
T ss_dssp             CSEEEEEEESSTTT--SHHHHHHTTEE-EEE----TCCHHHHHHHHHHHHH
T ss_pred             eeeEEEEecCCCCCCCCCChHHhhheE-EEEecCCChHHHHHHHHHHHhhh
Confidence            5677788877643   34555666664 66889999999999998887653

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

Probab=98.71  E-value=1.8e-08  Score=64.11  Aligned_cols=43  Identities=33%  Similarity=0.471  Sum_probs=35.1

Q ss_pred             cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           5 HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         5 ~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..+++++   +.+|..++|.||+|||||||++++|.........+
T Consensus        15 ~a~il~~isl~v~~Ge~iaitGPSG~GKStllk~va~Lisp~~G~l   60 (223)
T COG4619          15 DAKILNNISLSVRAGEFIAITGPSGCGKSTLLKIVASLISPTSGTL   60 (223)
T ss_pred             CCeeecceeeeecCCceEEEeCCCCccHHHHHHHHHhccCCCCceE
Confidence            34566666   77899999999999999999999998887655443

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=98.71  E-value=1.2e-08  Score=67.83  Aligned_cols=42  Identities=26%  Similarity=0.502  Sum_probs=34.4

Q ss_pred             CCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++ ..+++++   +.+|..+.|.||+|+|||||+++++......
T Consensus         9 ~~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   54 (242)
T cd03295           9 RYGGGKKAVNNLNLEIAKGEFLVLIGPSGSGKTTTMKMINRLIEPT   54 (242)
T ss_pred             EeCCcceEeeeeEEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            4555 4566666   8899999999999999999999999876543

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. 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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.71  E-value=8.9e-09  Score=67.12  Aligned_cols=41  Identities=22%  Similarity=0.392  Sum_probs=32.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.++ .+.|.||+|||||||+++++..+...
T Consensus         9 ~~~~~~~l~~vs~~i~~g-~~~i~G~nGsGKSTLl~~l~Gl~~~~   52 (211)
T cd03264           9 RYGKKRALDGVSLTLGPG-MYGLLGPNGAGKTTLMRILATLTPPS   52 (211)
T ss_pred             EECCEEEEcceeEEEcCC-cEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35544566666   6678 99999999999999999999876543

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.71  E-value=1.4e-08  Score=72.44  Aligned_cols=34  Identities=26%  Similarity=0.493  Sum_probs=31.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +++++|+||||+|||++++++|..++.+++.++.
T Consensus        47 p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vda   80 (441)
T TIGR00390        47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEA   80 (441)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCCeEEEeec
Confidence            4789999999999999999999999999988775

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.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=98.71  E-value=1.1e-08  Score=68.32  Aligned_cols=40  Identities=23%  Similarity=0.413  Sum_probs=33.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++....
T Consensus        15 ~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   57 (253)
T PRK14242         15 FYGDFQALHDISLEFEQNQVTALIGPSGCGKSTFLRCLNRMND   57 (253)
T ss_pred             EECCeeeecceeEEEeCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            45555566666   88899999999999999999999998753

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.71  E-value=1.1e-08  Score=66.51  Aligned_cols=44  Identities=25%  Similarity=0.321  Sum_probs=35.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus        10 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G   56 (204)
T PRK13538         10 ERDERILFSGLSFTLNAGELVQIEGPNGAGKTSLLRILAGLARPDAG   56 (204)
T ss_pred             EECCEEEEecceEEECCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            35555566666   888999999999999999999999988764433

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

Probab=98.70  E-value=1.6e-08  Score=64.10  Aligned_cols=42  Identities=24%  Similarity=0.390  Sum_probs=34.0

Q ss_pred             CCccc--cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHS--KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~--~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++.  .+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus         9 ~~~~~~~~~l~~i~~~i~~G~~~~l~G~nGsGKstLl~~i~G~~~~~   55 (171)
T cd03228           9 SYPGRPKPVLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLLLRLYDPT   55 (171)
T ss_pred             EcCCCCcccccceEEEEcCCCEEEEECCCCCCHHHHHHHHHcCCCCC
Confidence            34443  456665   8889999999999999999999999987644

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.

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.70  E-value=1.1e-08  Score=68.73  Aligned_cols=44  Identities=25%  Similarity=0.442  Sum_probs=35.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+........
T Consensus        11 ~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~p~~G   57 (258)
T PRK13548         11 RLGGRTLLDDVSLTLRPGEVVAILGPNGAGKSTLLRALSGELSPDSG   57 (258)
T ss_pred             EeCCeeeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            46555677776   788999999999999999999999988754433

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=98.70  E-value=1e-08  Score=69.33  Aligned_cols=42  Identities=21%  Similarity=0.442  Sum_probs=34.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+......
T Consensus        16 ~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~   60 (269)
T PRK11831         16 TRGNRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQIAPD   60 (269)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35555566666   8889999999999999999999999887543

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.70  E-value=1.4e-08  Score=66.45  Aligned_cols=44  Identities=23%  Similarity=0.354  Sum_probs=35.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +..|..+.|.||+|||||||+++++........
T Consensus        20 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   66 (214)
T PRK13543         20 SRNEEPVFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGLLHVESG   66 (214)
T ss_pred             ecCCceeeecceEEECCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCe
Confidence            45555566766   888999999999999999999999987654433

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.70  E-value=1.1e-08  Score=68.29  Aligned_cols=40  Identities=28%  Similarity=0.539  Sum_probs=33.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++....
T Consensus        12 ~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   54 (250)
T PRK14247         12 SFGQVEVLDGVNLEIPDNTITALMGPSGSGKSTLLRVFNRLIE   54 (250)
T ss_pred             EECCeeeeecceeEEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            45555566666   78899999999999999999999998764

>PRK14532 adenylate kinase; Provisional

Probab=98.70  E-value=1.7e-08  Score=64.76  Aligned_cols=31  Identities=23%  Similarity=0.450  Sum_probs=28.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+++.|||||||||+++.+|+.++..+++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is~~   32 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLSTG   32 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEeCc
Confidence            4899999999999999999999999888764

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.70  E-value=2.6e-07  Score=68.02  Aligned_cols=43  Identities=21%  Similarity=0.123  Sum_probs=32.5

Q ss_pred             EEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          59 LIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        59 ~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      ++.+|++.++.+++++.+|+. .+.++.++.+++..++++..++
T Consensus       236 lI~ATt~~p~~L~paLrsR~~-~I~f~pL~~eei~~Il~~~a~k  278 (531)
T TIGR02902       236 LIGATTRNPEEIPPALRSRCV-EIFFRPLLDEEIKEIAKNAAEK  278 (531)
T ss_pred             EEEEecCCcccCChHHhhhhh-eeeCCCCCHHHHHHHHHHHHHH
Confidence            345566778999999999986 4556666788888888887754

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

>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=98.70  E-value=1.2e-08  Score=64.74  Aligned_cols=40  Identities=28%  Similarity=0.428  Sum_probs=32.8

Q ss_pred             Cccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           3 FSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         3 ~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      |++..+++++   +.+|..+.|.||+|||||||++.++.....
T Consensus        10 ~~~~~~l~~~~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~   52 (173)
T cd03230          10 YGKKTALDDISLTVEKGEIYGLLGPNGAGKTTLIKIILGLLKP   52 (173)
T ss_pred             ECCeeeeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4444566666   788999999999999999999999987654

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.70  E-value=1.3e-08  Score=66.39  Aligned_cols=42  Identities=26%  Similarity=0.377  Sum_probs=34.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus        11 ~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   55 (207)
T PRK13539         11 VRGGRVLFSGLSFTLAAGEALVLTGPNGSGKTTLLRLIAGLLPPA   55 (207)
T ss_pred             EECCeEEEeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35554566666   7889999999999999999999999876543

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

Probab=98.70  E-value=1.2e-08  Score=67.78  Aligned_cols=42  Identities=33%  Similarity=0.597  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus        10 ~~~~~~il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~   54 (240)
T PRK09493         10 HFGPTQVLHNIDLNIDQGEVVVIIGPSGSGKSTLLRCINKLEEIT   54 (240)
T ss_pred             EECCeEEeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35555566666   7889999999999999999999999876543

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=98.69  E-value=1.1e-08  Score=68.58  Aligned_cols=43  Identities=26%  Similarity=0.490  Sum_probs=34.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+....
T Consensus        13 ~~~~~~vl~~vs~~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~~p~~   58 (251)
T PRK09544         13 SFGQRRVLSDVSLELKPGKILTLLGPNGAGKSTLVRVVLGLVAPDE   58 (251)
T ss_pred             EECCceEEEeEEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            35555566666   88999999999999999999999998765433

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.3e-08  Score=68.02  Aligned_cols=40  Identities=20%  Similarity=0.472  Sum_probs=34.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+..+.
T Consensus        13 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   55 (252)
T PRK14256         13 HFGKNHAVKDVSMDFPENSVTAIIGPSGCGKSTVLRSINRMHD   55 (252)
T ss_pred             EeCCeeEEecceEEEcCCCEEEEECCCCCCHHHHHHHHHhccc
Confidence            45555677776   88999999999999999999999999764

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.3e-08  Score=68.47  Aligned_cols=40  Identities=28%  Similarity=0.468  Sum_probs=33.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++....
T Consensus        22 ~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   64 (260)
T PRK10744         22 YYGKFHALKNINLDIAKNQVTAFIGPSGCGKSTLLRTFNRMYE   64 (260)
T ss_pred             EeCCeEEeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            45555567776   88999999999999999999999998764

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=98.69  E-value=1.3e-08  Score=66.62  Aligned_cols=37  Identities=24%  Similarity=0.344  Sum_probs=31.8

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++   +.+|..+.|.||+|||||||+++++......
T Consensus        17 ~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~   56 (216)
T TIGR00960        17 PALDNLNFHITKGEMVFLVGHSGAGKSTFLKLILGIEKPT   56 (216)
T ss_pred             eEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            466666   8889999999999999999999999877543

>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=98.69  E-value=1.2e-08  Score=63.12  Aligned_cols=41  Identities=27%  Similarity=0.352  Sum_probs=33.4

Q ss_pred             Cccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           3 FSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         3 ~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      |++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus        10 ~~~~~~l~~~~~~~~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~   53 (144)
T cd03221          10 YGGKLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAGELEPD   53 (144)
T ss_pred             ECCceEEEeeEEEECCCCEEEEECCCCCCHHHHHHHHcCCCCCC
Confidence            4444556665   7889999999999999999999999887543

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.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.5e-08  Score=68.12  Aligned_cols=40  Identities=28%  Similarity=0.470  Sum_probs=33.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++|+....
T Consensus        21 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   63 (259)
T PRK14274         21 WYGQHHALKNINLSIPENEVTAIIGPSGCGKSTFIKTLNLMIQ   63 (259)
T ss_pred             EECCeeeEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            35555566666   88899999999999999999999998765

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.69  E-value=2.6e-07  Score=69.23  Aligned_cols=43  Identities=19%  Similarity=0.274  Sum_probs=32.1

Q ss_pred             CCEEEEEeeCCC-CCCCHHhhcccceEEEeCCCC-HHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLT-GAIDLAFLDRADIKQYIGFPS-AAAIFNIFSS   98 (105)
Q Consensus        56 ~~~~~~~~~n~~-~~~d~~~~~r~~~~~~~~~~~-~~~~~~i~~~   98 (105)
                      .++.+++++|.. ..+..++++||++.+.++.+. .+++.+++.+
T Consensus       168 ~~~~lIat~np~eg~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~  212 (633)
T TIGR02442       168 ARFVLIGTMNPEEGDLRPQLLDRFGLCVDVAAPRDPEERVEIIRR  212 (633)
T ss_pred             CCeEEEEecCCCCCCCCHHHHhhcceEEEccCCCchHHHHHHHHH
Confidence            357888888864 457788999999999999884 4555666654

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.69  E-value=6e-08  Score=70.03  Aligned_cols=34  Identities=12%  Similarity=0.106  Sum_probs=26.5

Q ss_pred             CCCHHhhccc--ceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          69 AIDLAFLDRA--DIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        69 ~~d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      .++..+..||  ++...+..|+.+.+..++.+..+.
T Consensus       255 ~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~  290 (450)
T PRK14087        255 GFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKN  290 (450)
T ss_pred             hccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHh
Confidence            3466677777  577788889999999999887754

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=98.69  E-value=1.4e-08  Score=68.11  Aligned_cols=43  Identities=23%  Similarity=0.336  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||++.++..+....
T Consensus        15 ~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~   60 (258)
T PRK11701         15 LYGPRKGCRDVSFDLYPGEVLGIVGESGSGKTTLLNALSARLAPDA   60 (258)
T ss_pred             EcCCceeeeeeeEEEeCCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            45555566666   88999999999999999999999998875433

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.69  E-value=1.9e-08  Score=69.01  Aligned_cols=46  Identities=26%  Similarity=0.364  Sum_probs=37.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|++...++++   ++.|+.+.|.|||||||||++|+||......-..+
T Consensus        11 ~~~~~~a~~di~l~i~~Ge~vaLlGpSGaGKsTlLRiIAGLe~p~~G~I   59 (345)
T COG1118          11 RFGAFGALDDISLDIKSGELVALLGPSGAGKSTLLRIIAGLETPDAGRI   59 (345)
T ss_pred             hcccccccccceeeecCCcEEEEECCCCCcHHHHHHHHhCcCCCCCceE
Confidence            45555566655   88999999999999999999999998887655443

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=98.69  E-value=1.5e-08  Score=66.39  Aligned_cols=39  Identities=21%  Similarity=0.308  Sum_probs=32.5

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+.+++   +.+|..+.|.||+|||||||+++++........
T Consensus        19 ~~l~~isl~i~~G~~~~i~G~nGsGKSTLl~~i~G~~~~~~G   60 (221)
T TIGR02211        19 RVLKGVSLSIGKGEIVAIVGSSGSGKSTLLHLLGGLDNPTSG   60 (221)
T ss_pred             EeEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            366665   889999999999999999999999988764433

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.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.69  E-value=1.4e-08  Score=65.73  Aligned_cols=42  Identities=21%  Similarity=0.320  Sum_probs=34.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus         9 ~~~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   53 (198)
T TIGR01189         9 SRGERMLFEGLSFTLNAGEALQVTGPNGIGKTTLLRILAGLLRPD   53 (198)
T ss_pred             EECCEEEEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35555566666   7889999999999999999999999876543

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.

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=98.69  E-value=1.3e-08  Score=68.13  Aligned_cols=42  Identities=24%  Similarity=0.427  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||||||||||++.|+......
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   53 (252)
T TIGR03005         9 RFGILTVLDGLNFSVAAGEKVALIGPSGSGKSTILRILMTLEPID   53 (252)
T ss_pred             EeCCeeEEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35555566666   8899999999999999999999999876543

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=98.69  E-value=1.7e-08  Score=64.30  Aligned_cols=38  Identities=24%  Similarity=0.404  Sum_probs=32.3

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+.+++   +++|..+.|.||+|+|||||+++++.......
T Consensus        16 ~~l~~i~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~   56 (178)
T cd03247          16 QVLKNLSLELKQGEKIALLGRSGSGKSTLLQLLTGDLKPQQ   56 (178)
T ss_pred             cceEEEEEEEcCCCEEEEECCCCCCHHHHHHHHhccCCCCC
Confidence            466666   88999999999999999999999998875433

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.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.3e-08  Score=68.15  Aligned_cols=41  Identities=29%  Similarity=0.526  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++++..+..
T Consensus        13 ~~~~~~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~   56 (253)
T PRK14267         13 YYGSNHVIKGVDLKIPQNGVFALMGPSGCGKSTLLRTFNRLLEL   56 (253)
T ss_pred             EeCCeeeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhccCCc
Confidence            45555677776   888999999999999999999999987643

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.5e-08  Score=68.50  Aligned_cols=40  Identities=18%  Similarity=0.366  Sum_probs=34.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+....
T Consensus        28 ~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   70 (267)
T PRK14235         28 FYGEKQALFDVDLDIPEKTVTAFIGPSGCGKSTFLRCLNRMND   70 (267)
T ss_pred             EECCEEEEEEEEEEEcCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            45555567777   88999999999999999999999999875

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.69  E-value=1.2e-08  Score=68.20  Aligned_cols=44  Identities=23%  Similarity=0.329  Sum_probs=35.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++........
T Consensus        14 ~~~~~~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   60 (255)
T PRK11300         14 RFGGLLAVNNVNLEVREQEIVSLIGPNGAGKTTVFNCLTGFYKPTGG   60 (255)
T ss_pred             EECCEEEEEeeeeEEcCCeEEEEECCCCCCHHHHHHHHhCCcCCCcc
Confidence            35555566666   788999999999999999999999988764443

>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=98.68  E-value=1.4e-08  Score=66.19  Aligned_cols=38  Identities=32%  Similarity=0.439  Sum_probs=32.0

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++++......
T Consensus        14 ~~~l~~~sl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~   54 (214)
T cd03292          14 TAALDGINISISAGEFVFLVGPSGAGKSTLLKLIYKEELPT   54 (214)
T ss_pred             ceeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            3466666   7889999999999999999999999876543

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

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.68  E-value=2.7e-07  Score=59.23  Aligned_cols=41  Identities=12%  Similarity=0.027  Sum_probs=30.4

Q ss_pred             CEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHH
Q psy4924          57 NVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        57 ~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                      ...++..++.+..+..++.+|+. .+.+..++.+++..++.+
T Consensus       126 ~~~~il~~~~~~~l~~~i~sr~~-~~~~~~~~~~~~~~~l~~  166 (188)
T TIGR00678       126 NTLFILITPSPEKLLPTIRSRCQ-VLPFPPLSEEALLQWLIR  166 (188)
T ss_pred             CeEEEEEECChHhChHHHHhhcE-EeeCCCCCHHHHHHHHHH
Confidence            35566666666888888888885 667788888888777765

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=7.9e-08  Score=70.62  Aligned_cols=27  Identities=33%  Similarity=0.592  Sum_probs=24.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..++|+||+|+||||+|+++|+.+++.
T Consensus        39 ha~Lf~Gp~G~GKTt~A~~lAk~l~c~   65 (527)
T PRK14969         39 HAYLFTGTRGVGKTTLARILAKSLNCE   65 (527)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            347999999999999999999999873

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.68  E-value=1.5e-08  Score=67.89  Aligned_cols=41  Identities=27%  Similarity=0.454  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+..
T Consensus        16 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~   59 (254)
T PRK14273         16 FYTDFKALNNINIKILKNSITALIGPSGCGKSTFLRTLNRMNDL   59 (254)
T ss_pred             EeCCceeecceeeEEcCCCEEEEECCCCCCHHHHHHHHhccccC
Confidence            45555577776   889999999999999999999999987653

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=98.68  E-value=1.8e-08  Score=70.93  Aligned_cols=44  Identities=16%  Similarity=0.262  Sum_probs=38.3

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |.|++..+.+++   +..|..+.|.||+|||||||+++|+.......
T Consensus         1 ~~~~~~~~l~~vs~~i~~Gei~~l~G~sGsGKSTLLr~L~Gl~~p~~   47 (363)
T TIGR01186         1 KKTGGKKGVNDADLAIAKGEIFVIMGLSGSGKSTTVRMLNRLIEPTA   47 (363)
T ss_pred             CccCCceeEEeeEEEEcCCCEEEEECCCCChHHHHHHHHhCCCCCCc
Confidence            568887788888   88999999999999999999999998876543

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>PRK10908 cell division protein FtsE; Provisional

Probab=98.68  E-value=1.5e-08  Score=66.52  Aligned_cols=40  Identities=18%  Similarity=0.273  Sum_probs=32.8

Q ss_pred             ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           4 SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         4 ~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++..+.+++   +.+|..+.|.||+|||||||+++|+......
T Consensus        13 ~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   55 (222)
T PRK10908         13 GGRQALQGVTFHMRPGEMAFLTGHSGAGKSTLLKLICGIERPS   55 (222)
T ss_pred             CCCeEEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            334566666   7889999999999999999999999876543

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=98.68  E-value=1.4e-08  Score=68.13  Aligned_cols=43  Identities=23%  Similarity=0.489  Sum_probs=35.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+....
T Consensus        11 ~~~~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~   56 (255)
T PRK11231         11 GYGTKRILNDLSLSLPTGKITALIGPNGCGKSTLLKCFARLLTPQS   56 (255)
T ss_pred             EECCEEEEeeeeeEEcCCcEEEEECCCCCCHHHHHHHHhCCcCCCC
Confidence            45655677776   78899999999999999999999998765433

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.68  E-value=1.7e-08  Score=67.05  Aligned_cols=43  Identities=21%  Similarity=0.370  Sum_probs=34.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++.......
T Consensus        11 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~   56 (242)
T TIGR03411        11 SFDGFKALNDLSLYVDPGELRVIIGPNGAGKTTMMDVITGKTRPDE   56 (242)
T ss_pred             EcCCeEEeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            45555566666   88899999999999999999999998875433

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.68  E-value=1.8e-08  Score=66.99  Aligned_cols=47  Identities=19%  Similarity=0.261  Sum_probs=37.3

Q ss_pred             CCcccc----ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924           2 KFSHSK----VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus         2 ~~~~~~----~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .|+...    +.+++   +..|..+-|+|++|||||||+++++........++.
T Consensus        12 ~y~~~~~~~~~l~~VS~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I~   65 (252)
T COG1124          12 VYGGGKFAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEKPSSGSIL   65 (252)
T ss_pred             EecCCcchhhhhcceeEEecCCCEEEEEcCCCCCHHHHHHHHhcccCCCCceEE
Confidence            355544    66776   889999999999999999999999988776554433

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=3.1e-07  Score=64.52  Aligned_cols=84  Identities=18%  Similarity=0.213  Sum_probs=55.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcc------------ccce---------------------------e------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ------------TPQA---------------------------I------   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~------------~~~~---------------------------~------   50 (105)
                      +..++|+||+|+|||++++++++.+.++..            +.+.                           +      
T Consensus        39 ~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~  118 (367)
T PRK14970         39 AQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVH  118 (367)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChh
Confidence            347999999999999999999999876211            0000                           0      


Q ss_pred             ------------eecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          51 ------------FFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        51 ------------~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                  .++. .....++.+++....+.+++.+|+.. +.+..++.+++..++.+..
T Consensus       119 ~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~-v~~~~~~~~~l~~~l~~~~  180 (367)
T PRK14970        119 MLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQI-FDFKRITIKDIKEHLAGIA  180 (367)
T ss_pred             hcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhccee-EecCCccHHHHHHHHHHHH
Confidence                        1222 23345566666667888888888864 5667777777776666543

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.68  E-value=1.2e-08  Score=69.19  Aligned_cols=41  Identities=34%  Similarity=0.437  Sum_probs=34.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+..+..
T Consensus        10 ~~~~~~il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~laG~~~p   53 (272)
T PRK13547         10 ARRHRAILRDLSLRIEPGRVTALLGRNGAGKSTLLKALAGDLTG   53 (272)
T ss_pred             EECCEeEEecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            45555677776   889999999999999999999999987753

>PRK14527 adenylate kinase; Provisional

Probab=98.67  E-value=3.5e-08  Score=63.55  Aligned_cols=35  Identities=34%  Similarity=0.646  Sum_probs=30.7

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..+..++++|||||||||+++.++..++...+..+
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~~~~is~g   38 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQELGLKKLSTG   38 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCCCCCCcc
Confidence            35778999999999999999999999998877653

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.67  E-value=1.8e-08  Score=68.04  Aligned_cols=39  Identities=23%  Similarity=0.472  Sum_probs=33.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++...
T Consensus        30 ~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   71 (268)
T PRK14248         30 YYGEKRAVNDISMDIEKHAVTALIGPSGCGKSTFLRSINRMN   71 (268)
T ss_pred             EeCCceeeeceEEEEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            45555677766   7889999999999999999999999865

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

Probab=98.67  E-value=2e-08  Score=62.11  Aligned_cols=31  Identities=26%  Similarity=0.509  Sum_probs=26.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +++.|+|||||||+++.++..++..+++.+.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~~D~   32 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFIDGDD   32 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEeCcc
Confidence            7899999999999999999998877765443

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

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=98.67  E-value=1.4e-08  Score=68.19  Aligned_cols=40  Identities=18%  Similarity=0.361  Sum_probs=33.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||++.++....
T Consensus        13 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~laGl~~   55 (258)
T PRK14241         13 YYGSFHAVEDVNLNIEPRSVTAFIGPSGCGKSTVLRTLNRMHE   55 (258)
T ss_pred             EECCEeeeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            45555566666   88899999999999999999999998764

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=98.67  E-value=1.3e-08  Score=68.56  Aligned_cols=44  Identities=20%  Similarity=0.389  Sum_probs=35.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++........
T Consensus        16 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   62 (265)
T PRK10253         16 GYGKYTVAENLTVEIPDGHFTAIIGPNGCGKSTLLRTLSRLMTPAHG   62 (265)
T ss_pred             EECCEEEeeecceEECCCCEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            45555567776   788999999999999999999999988764433

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.67  E-value=1.3e-07  Score=70.14  Aligned_cols=84  Identities=18%  Similarity=0.263  Sum_probs=57.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcc------------------------ccce----------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ------------------------TPQA----------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~------------------------~~~~----------------------   49 (105)
                      +..++++||+|+||||+|+++|+.+.|...                        .++.                      
T Consensus        38 ~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~  117 (605)
T PRK05896         38 THAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTT  117 (605)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCceEEeccccccCHHHHHHHHHHHHhchhh
Confidence            346899999999999999999999876321                        0110                      


Q ss_pred             -----------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 -----------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 -----------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                             -.++. .+...++.+|+.+..+...+.+|+. .+.+..++.+++...+.+.+
T Consensus       118 ~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq-~ieF~~Ls~~eL~~~L~~il  191 (605)
T PRK05896        118 FKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQ-RYNFKKLNNSELQELLKSIA  191 (605)
T ss_pred             CCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhh-hcccCCCCHHHHHHHHHHHH
Confidence                                   02222 2356666777777888888888986 45667777777766666543

>PRK14531 adenylate kinase; Provisional

Probab=98.67  E-value=2.9e-08  Score=63.63  Aligned_cols=32  Identities=25%  Similarity=0.494  Sum_probs=28.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..++++|||||||||+++.+|..++.+++...
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~~~is~g   34 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGLRHLSTG   34 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeEecc
Confidence            46999999999999999999999999877653

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=98.67  E-value=1.4e-08  Score=71.16  Aligned_cols=45  Identities=31%  Similarity=0.419  Sum_probs=36.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|++..+.+++   +..|..+.|.||+|||||||+++|+.........
T Consensus        15 ~~~~~~~l~~isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~   62 (351)
T PRK11432         15 RFGSNTVIDNLNLTIKQGTMVTLLGPSGCGKTTVLRLVAGLEKPTEGQ   62 (351)
T ss_pred             EECCeEEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCceE
Confidence            46655566666   8889999999999999999999999887654443

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=98.67  E-value=1.4e-08  Score=68.50  Aligned_cols=43  Identities=19%  Similarity=0.257  Sum_probs=34.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++.......
T Consensus        20 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~   65 (265)
T PRK10575         20 RVPGRTLLHPLSLTFPAGKVTGLIGHNGSGKSTLLKMLGRHQPPSE   65 (265)
T ss_pred             EECCEEEEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCC
Confidence            35555566666   78899999999999999999999998765433

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=98.67  E-value=1.7e-08  Score=63.31  Aligned_cols=31  Identities=26%  Similarity=0.536  Sum_probs=26.2

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +++.||+||||||+++.++..++..+++.+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~~D~   31 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIEGDD   31 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEeCcc
Confidence            4789999999999999999999877655444

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.

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

Probab=98.67  E-value=1.7e-08  Score=67.36  Aligned_cols=41  Identities=29%  Similarity=0.503  Sum_probs=34.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++.....
T Consensus        10 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p   53 (247)
T TIGR00972        10 FYGEKEALKNINLDIPKNQVTALIGPSGCGKSTLLRSLNRMNDL   53 (247)
T ss_pred             EECCeeeecceeEEECCCCEEEEECCCCCCHHHHHHHHhccCCC
Confidence            45555566666   889999999999999999999999988754

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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.67  E-value=1e-07  Score=71.59  Aligned_cols=84  Identities=17%  Similarity=0.256  Sum_probs=57.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcc------------------------ccce-----------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQ------------------------TPQA-----------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~------------------------~~~~-----------------------   49 (105)
                      ..++|+||+|+||||+|+++|+.+++...                        .++.                       
T Consensus        39 Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~g  118 (709)
T PRK08691         39 HAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAG  118 (709)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhC
Confidence            36899999999999999999999876421                        1110                       


Q ss_pred             ----------------------eeec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ----------------------IFFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ----------------------~~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                            ..++ ..+.+.+|.+++.+..+...+++|+ ..+.+..++.+++...+.+.++
T Consensus       119 k~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC-~~f~f~~Ls~eeI~~~L~~Il~  192 (709)
T PRK08691        119 KYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRC-LQFVLRNMTAQQVADHLAHVLD  192 (709)
T ss_pred             CcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHH-hhhhcCCCCHHHHHHHHHHHHH
Confidence                                  0122 2245667777787888888888887 3445566777777766665544

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.67  E-value=1.6e-08  Score=67.01  Aligned_cols=44  Identities=20%  Similarity=0.323  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++........
T Consensus        14 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G   60 (237)
T PRK11614         14 HYGKIQALHEVSLHINQGEIVTLIGANGAGKTTLLGTLCGDPRATSG   60 (237)
T ss_pred             eeCCceeeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            45555566666   889999999999999999999999987654333

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.67  E-value=2e-08  Score=66.98  Aligned_cols=40  Identities=25%  Similarity=0.442  Sum_probs=33.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++|+....
T Consensus        12 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   54 (249)
T PRK14253         12 FYGENQALKSINLPIPARQVTALIGPSGCGKSTLLRCLNRMND   54 (249)
T ss_pred             EECCeeeeecceEEecCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            45555567776   88999999999999999999999998765

>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=98.66  E-value=2.3e-08  Score=63.17  Aligned_cols=40  Identities=30%  Similarity=0.408  Sum_probs=33.1

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus        14 ~~~l~~i~l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (166)
T cd03223          14 RVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRALAGLWPWGSG   56 (166)
T ss_pred             CeeeecCeEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            3466666   788999999999999999999999988765433

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

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=98.66  E-value=1.5e-08  Score=71.45  Aligned_cols=44  Identities=25%  Similarity=0.431  Sum_probs=35.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++|+........
T Consensus        12 ~~~~~~vl~~vsl~i~~Ge~~~l~G~nGsGKSTLL~~iaGl~~p~~G   58 (369)
T PRK11000         12 AYGDVVISKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLEDITSG   58 (369)
T ss_pred             EeCCeEEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            46655566666   788999999999999999999999987754433

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=98.66  E-value=1.6e-08  Score=67.85  Aligned_cols=44  Identities=20%  Similarity=0.258  Sum_probs=36.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++|+..+.....
T Consensus        10 ~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   56 (256)
T TIGR03873        10 SAGGRLIVDGVDVTAPPGSLTGLLGPNGSGKSTLLRLLAGALRPDAG   56 (256)
T ss_pred             EECCEEEEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            45555677777   789999999999999999999999987765443

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.66  E-value=3.6e-07  Score=62.60  Aligned_cols=84  Identities=23%  Similarity=0.212  Sum_probs=52.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcc-----ccc-----------------------------ee------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQ-----TPQ-----------------------------AI------------   50 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~-----~~~-----------------------------~~------------   50 (105)
                      ..++|+||+|+|||++++++++++..+..     ...                             .+            
T Consensus        39 ~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~~~  118 (319)
T PRK00440         39 PHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTSDA  118 (319)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCHHH
Confidence            35899999999999999999998743211     110                             00            


Q ss_pred             ------eec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ------FFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ------~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                            .++ ..+...++.+++....+..++.+|+.. +.++.++.+++..++.+..+
T Consensus       119 ~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~-~~~~~l~~~ei~~~l~~~~~  175 (319)
T PRK00440        119 QQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAV-FRFSPLKKEAVAERLRYIAE  175 (319)
T ss_pred             HHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhe-eeeCCCCHHHHHHHHHHHHH
Confidence                  000 112233455556555566667777764 56677777887777776554

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.66  E-value=1.7e-08  Score=67.42  Aligned_cols=40  Identities=18%  Similarity=0.377  Sum_probs=33.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|+...+++++   +.+|..+.|.||+|||||||+++++....
T Consensus        13 ~~~~~~~l~~~sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   55 (251)
T PRK14251         13 SYGNYEALHGISLDFEEKELTALIGPSGCGKSTFLRCLNRMND   55 (251)
T ss_pred             EECCeeeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhhccc
Confidence            45555566666   88899999999999999999999998764

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=98.66  E-value=1.8e-08  Score=69.04  Aligned_cols=44  Identities=27%  Similarity=0.375  Sum_probs=37.6

Q ss_pred             CCCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |.|+ +..+.+++   +++|..+.|.||||+||||++++++.......
T Consensus        12 k~~~~~~~~l~~vs~~i~~Gei~gllG~NGAGKTTllk~l~gl~~p~~   59 (293)
T COG1131          12 KKYGGDKTALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLKPTS   59 (293)
T ss_pred             EEeCCCCEEEeceeEEEcCCeEEEEECCCCCCHHHHHHHHhCCcCCCc
Confidence            3577 57788888   88899999999999999999999998886543

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.66  E-value=1.8e-08  Score=67.23  Aligned_cols=40  Identities=28%  Similarity=0.494  Sum_probs=33.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++|+....
T Consensus        12 ~~~~~~~l~~i~~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~   54 (250)
T PRK14262         12 YYGEKKAVKNVTMKIFKNQITAIIGPSGCGKTTLLRSINRMND   54 (250)
T ss_pred             EeCCceeEeeeeEeecCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            45555566666   78899999999999999999999998654

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.66  E-value=3.4e-07  Score=61.14  Aligned_cols=88  Identities=24%  Similarity=0.200  Sum_probs=65.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccccee--------------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI--------------------------------------------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~--------------------------------------------   50 (105)
                      +...++|||.-|+|||+|++++-.+.+.....+-.+                                            
T Consensus        84 pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~  163 (287)
T COG2607          84 PANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSA  163 (287)
T ss_pred             cccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHhhHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHH
Confidence            456799999999999999999998887665443320                                            


Q ss_pred             ----eecccCCEEEEEeeCCCCCCCH----------------------HhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----FFKKYPNVLIFTTSNLTGAIDL----------------------AFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----~~~~~~~~~~~~~~n~~~~~d~----------------------~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                          .-....+|++.+|+|+-..+..                      .+-+||++.+-+..++|++...++..+.+.
T Consensus       164 LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~  241 (287)
T COG2607         164 LEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKH  241 (287)
T ss_pred             hcCCcccCCCeEEEEEecCCcccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHH
Confidence                1233467889999998533321                      245689998888888999999998887754

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=98.66  E-value=1.9e-08  Score=66.98  Aligned_cols=41  Identities=20%  Similarity=0.308  Sum_probs=36.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|+++.++.++   ++++....|+||+|||||||++.++.+.-.
T Consensus        40 ~r~gk~iL~~isW~V~~ge~W~I~G~NGsGKTTLL~ll~~~~~p   83 (257)
T COG1119          40 RRNGKKILGDLSWQVNPGEHWAIVGPNGAGKTTLLSLLTGEHPP   83 (257)
T ss_pred             EECCEeeccccceeecCCCcEEEECCCCCCHHHHHHHHhcccCC
Confidence            46788889988   889999999999999999999999987754

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=98.66  E-value=1.8e-08  Score=68.03  Aligned_cols=40  Identities=20%  Similarity=0.439  Sum_probs=33.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++....
T Consensus        29 ~~~~~~il~~vsl~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   71 (267)
T PRK14237         29 YYGKKEAIKGIDMQFEKNKITALIGPSGSGKSTYLRSLNRMND   71 (267)
T ss_pred             EECCeeeEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            45555667777   88899999999999999999999998764

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=98.66  E-value=2.4e-08  Score=65.75  Aligned_cols=42  Identities=26%  Similarity=0.419  Sum_probs=34.2

Q ss_pred             CCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++ ..+.+++   +..|..+.|.||+|||||||+++++......
T Consensus        11 ~~~~~~~~l~~isl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~   56 (229)
T cd03254          11 SYDEKKPVLKDINFSIKPGETVAIVGPTGAGKTTLINLLMRFYDPQ   56 (229)
T ss_pred             ecCCCCccccceEEEEcCCCEEEEECCCCCCHHHHHHHHhcCcCCC
Confidence            4543 3467776   8889999999999999999999999887543

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=98.66  E-value=3.5e-08  Score=62.92  Aligned_cols=32  Identities=22%  Similarity=0.614  Sum_probs=27.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      ...+++.|||||||||+++.++..++......
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~   34 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKYGFTHLST   34 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            46799999999999999999999988776654

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.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=98.65  E-value=1.9e-08  Score=66.57  Aligned_cols=37  Identities=22%  Similarity=0.329  Sum_probs=31.6

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+++++   +.+|..+.|.||+|||||||+++++..+...
T Consensus        23 ~il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~   62 (233)
T PRK11629         23 DVLHNVSFSIGEGEMMAIVGSSGSGKSTLLHLLGGLDTPT   62 (233)
T ss_pred             eeEEeeEEEEcCCcEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            466666   8889999999999999999999999876543

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.65  E-value=1.9e-08  Score=66.14  Aligned_cols=43  Identities=33%  Similarity=0.462  Sum_probs=34.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++..+....
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~   54 (223)
T TIGR03740         9 RFGKQTAVNNISLTVPKNSVYGLLGPNGAGKSTLLKMITGILRPTS   54 (223)
T ss_pred             EECCEEEEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            35555566666   77899999999999999999999998765433

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>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=98.65  E-value=3.1e-08  Score=62.88  Aligned_cols=37  Identities=27%  Similarity=0.442  Sum_probs=31.2

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus        16 ~~l~~~~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~   55 (173)
T cd03246          16 PVLRNVSFSIEPGESLAIIGPSGSGKSTLARLILGLLRPT   55 (173)
T ss_pred             cceeeeEEEECCCCEEEEECCCCCCHHHHHHHHHhccCCC
Confidence            355555   7889999999999999999999999887543

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

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=98.65  E-value=1.8e-08  Score=70.75  Aligned_cols=44  Identities=27%  Similarity=0.376  Sum_probs=35.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +..|..+.|.||+|||||||+++||........
T Consensus        13 ~~~~~~~l~~vs~~i~~Ge~~~l~GpsGsGKSTLLr~iaGl~~p~~G   59 (353)
T TIGR03265        13 RFGAFTALKDISLSVKKGEFVCLLGPSGCGKTTLLRIIAGLERQTAG   59 (353)
T ss_pred             EeCCeEEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHHCCCCCCce
Confidence            46655566655   788999999999999999999999987764433

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

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

Probab=98.65  E-value=3.1e-08  Score=70.78  Aligned_cols=35  Identities=34%  Similarity=0.562  Sum_probs=30.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ....++|+||||||||++|+++|+.++.++..++.
T Consensus       107 ~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~  141 (412)
T PRK05342        107 QKSNILLIGPTGSGKTLLAQTLARILDVPFAIADA  141 (412)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCceecch
Confidence            35679999999999999999999999988875544

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=98.65  E-value=1.9e-08  Score=70.31  Aligned_cols=46  Identities=17%  Similarity=0.317  Sum_probs=37.7

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|++..+.+++   +++|..+.|.||+|+|||||+++|+..+......
T Consensus        49 k~y~~~~~l~~is~~i~~Gei~gLlGpNGaGKSTLl~~L~Gl~~p~~G~   97 (340)
T PRK13536         49 KSYGDKAVVNGLSFTVASGECFGLLGPNGAGKSTIARMILGMTSPDAGK   97 (340)
T ss_pred             EEECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCceE
Confidence            356666677777   8899999999999999999999999887654443

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.65  E-value=2.1e-08  Score=67.12  Aligned_cols=40  Identities=30%  Similarity=0.463  Sum_probs=33.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++....
T Consensus        15 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   57 (253)
T PRK14261         15 WYGEKHALYDITISIPKNRVTALIGPSGCGKSTLLRCFNRMND   57 (253)
T ss_pred             EECCeeeeeeeEEEECCCcEEEEECCCCCCHHHHHHHHhcccc
Confidence            45555677777   88899999999999999999999997654

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=98.65  E-value=2.7e-08  Score=64.58  Aligned_cols=40  Identities=28%  Similarity=0.373  Sum_probs=33.8

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .+++++   +++|..+.|.||+|+|||||++.++.........
T Consensus        19 ~il~~~s~~i~~G~~~~i~G~nG~GKSTLl~~i~G~~~~~~G~   61 (204)
T cd03250          19 FTLKDINLEVPKGELVAIVGPVGSGKSSLLSALLGELEKLSGS   61 (204)
T ss_pred             ceeeeeeEEECCCCEEEEECCCCCCHHHHHHHHhCcCCCCCCe
Confidence            467776   8899999999999999999999999987654443

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting 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.

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.65  E-value=2.5e-07  Score=68.82  Aligned_cols=45  Identities=13%  Similarity=0.076  Sum_probs=34.8

Q ss_pred             CCEEEEEeeCCCC---CCCHHhhcccceEEEeCCC-CHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTG---AIDLAFLDRADIKQYIGFP-SAAAIFNIFSSCV  100 (105)
Q Consensus        56 ~~~~~~~~~n~~~---~~d~~~~~r~~~~~~~~~~-~~~~~~~i~~~~~  100 (105)
                      ..+.+++++|...   .+.+++++||++++.+.++ +.+++.+++++.+
T Consensus       126 ~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~~~~~er~eil~~~~  174 (589)
T TIGR02031       126 AKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDVASQDLRVEIVRRER  174 (589)
T ss_pred             CceEEEEecCCccccCCCCHHHHHhccCeeecCCCCCHHHHHHHHHHHH
Confidence            3577888888764   6888999999998888776 5666777777654

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=98.65  E-value=2.5e-08  Score=65.94  Aligned_cols=38  Identities=29%  Similarity=0.478  Sum_probs=32.0

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++++......-
T Consensus        16 ~~l~~i~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~   56 (234)
T cd03251          16 PVLRDISLDIPAGETVALVGPSGSGKSTLVNLIPRFYDVDS   56 (234)
T ss_pred             cceeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhccccCCC
Confidence            466665   78899999999999999999999998875433

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.

>PRK13946 shikimate kinase; Provisional

Probab=98.65  E-value=3.7e-08  Score=63.18  Aligned_cols=34  Identities=26%  Similarity=0.470  Sum_probs=31.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+.|++.|++||||||+++.+|..++.++++.+.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D~   43 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDADT   43 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcCH
Confidence            4679999999999999999999999999998775

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=98.65  E-value=2e-08  Score=68.05  Aligned_cols=42  Identities=19%  Similarity=0.312  Sum_probs=34.3

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|+ +..+++++   +.+|..+.|.||+|||||||+++|+......
T Consensus        15 ~~~~~~~il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~   60 (272)
T PRK15056         15 TWRNGHTALRDASFTVPGGSIAALVGVNGSGKSTLFKALMGFVRLA   60 (272)
T ss_pred             EecCCcEEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            353 34567776   8899999999999999999999999886543

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=98.65  E-value=2e-08  Score=67.10  Aligned_cols=39  Identities=23%  Similarity=0.466  Sum_probs=32.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++...
T Consensus        14 ~~~~~~~l~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (252)
T PRK14239         14 YYNKKKALNSVSLDFYPNEITALIGPSGSGKSTLLRSINRMN   55 (252)
T ss_pred             EECCeeeeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhccc
Confidence            45555566666   7889999999999999999999999763

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=98.64  E-value=2e-08  Score=67.39  Aligned_cols=42  Identities=14%  Similarity=0.325  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus        14 ~~~~~~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~   58 (257)
T PRK10619         14 RYGEHEVLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLEKPS   58 (257)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35545566666   8899999999999999999999999887543

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.64  E-value=2.2e-07  Score=64.75  Aligned_cols=45  Identities=11%  Similarity=0.132  Sum_probs=30.8

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      +.+.++.+++.++.+...+.+|+. .+.+..|+.+++..++....+
T Consensus       146 ~~~~lIl~~~~~~~l~~~l~sr~~-~~~~~~~~~~~l~~~l~~~~~  190 (355)
T TIGR02397       146 EHVVFILATTEPHKIPATILSRCQ-RFDFKRIPLEDIVERLKKILD  190 (355)
T ss_pred             cceeEEEEeCCHHHHHHHHHhhee-EEEcCCCCHHHHHHHHHHHHH
Confidence            445566677766666777778885 456677778888777776543

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.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=98.64  E-value=1.8e-08  Score=69.18  Aligned_cols=44  Identities=20%  Similarity=0.322  Sum_probs=36.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++........
T Consensus        11 ~~~~~~~l~~is~~i~~Gei~~l~G~NGaGKTTLl~~l~Gl~~~~~G   57 (301)
T TIGR03522        11 LYGTQNALDEVSFEAQKGRIVGFLGPNGAGKSTTMKIITGYLPPDSG   57 (301)
T ss_pred             EECCEEEEEEeEEEEeCCeEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            46666677777   889999999999999999999999987654433

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.64  E-value=3.2e-07  Score=67.87  Aligned_cols=84  Identities=21%  Similarity=0.217  Sum_probs=57.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcc------------------------ccce----------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ------------------------TPQA----------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~------------------------~~~~----------------------   49 (105)
                      +..++|+||+|+|||++|+.+|+.+++...                        .++.                      
T Consensus        38 ~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~  117 (559)
T PRK05563         38 SHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSE  117 (559)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCccc
Confidence            445889999999999999999999986431                        1100                      


Q ss_pred             -----------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 -----------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 -----------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                             ..++. ...+++|.+|+.++.+...+.+|+... .+..++..++...+...+
T Consensus       118 ~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~-~f~~~~~~ei~~~L~~i~  191 (559)
T PRK05563        118 AKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRF-DFKRISVEDIVERLKYIL  191 (559)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEE-ecCCCCHHHHHHHHHHHH
Confidence                                   01222 245566666777788888888888654 566667777666665544

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=98.64  E-value=2e-08  Score=69.16  Aligned_cols=45  Identities=18%  Similarity=0.263  Sum_probs=36.7

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      |.|++..+.+++   +..|..+.|.||+|+|||||+++++..+.....
T Consensus        15 k~~~~~~~l~~vsl~i~~Gei~gllGpNGaGKSTLl~~l~Gl~~p~~G   62 (306)
T PRK13537         15 KRYGDKLVVDGLSFHVQRGECFGLLGPNGAGKTTTLRMLLGLTHPDAG   62 (306)
T ss_pred             EEECCeEEEecceEEEeCCcEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            356666677777   788999999999999999999999987765433

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=98.64  E-value=2e-08  Score=67.61  Aligned_cols=41  Identities=24%  Similarity=0.491  Sum_probs=34.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++|+.....
T Consensus        13 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~p   56 (262)
T PRK09984         13 TFNQHQALHAVDLNIHHGEMVALLGPSGSGKSTLLRHLSGLITG   56 (262)
T ss_pred             EeCCeEEEecceEEEcCCcEEEEECCCCCCHHHHHHHHhccCCC
Confidence            45555566666   788999999999999999999999988753

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=98.64  E-value=2.9e-08  Score=65.01  Aligned_cols=37  Identities=27%  Similarity=0.313  Sum_probs=31.6

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+++++   +.+|..+.|.||+|||||||+++++......
T Consensus        18 ~~l~~i~~~i~~G~~~~i~G~nGsGKSTLl~~i~G~~~~~   57 (220)
T cd03245          18 PALDNVSLTIRAGEKVAIIGRVGSGKSTLLKLLAGLYKPT   57 (220)
T ss_pred             ccccceEEEEcCCCEEEEECCCCCCHHHHHHHHhcCcCCC
Confidence            466666   7899999999999999999999999876543

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.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=98.64  E-value=2e-08  Score=70.52  Aligned_cols=44  Identities=27%  Similarity=0.457  Sum_probs=35.3

Q ss_pred             CC-ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KF-SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~-~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .| ++..+++++   +..|..+.|.||||||||||+++||........
T Consensus        12 ~~~~~~~~l~~vsl~i~~Ge~~~llG~sGsGKSTLLr~iaGl~~p~~G   59 (356)
T PRK11650         12 SYDGKTQVIKGIDLDVADGEFIVLVGPSGCGKSTLLRMVAGLERITSG   59 (356)
T ss_pred             EeCCCCEEEeeeeEEEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCce
Confidence            45 445566666   888999999999999999999999998765443

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=98.64  E-value=2.7e-08  Score=65.03  Aligned_cols=42  Identities=19%  Similarity=0.312  Sum_probs=32.9

Q ss_pred             CCCccccccccc-ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           1 MKFSHSKVKSNI-ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         1 ~~~~~~~~~~~~-~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      |+|++..+.-++ +.+ ..+.|.||+|||||||+++++..+...
T Consensus         8 ~~~~~~~~~vsl~i~~-e~~~i~G~nGsGKSTLl~~l~G~~~~~   50 (214)
T cd03297           8 KRLPDFTLKIDFDLNE-EVTGIFGASGAGKSTLLRCIAGLEKPD   50 (214)
T ss_pred             EecCCeeeCceEEEcc-eeEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            467776552222 778 999999999999999999999887543

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.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.64  E-value=2.1e-08  Score=75.03  Aligned_cols=44  Identities=23%  Similarity=0.233  Sum_probs=37.4

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +.|++..+++++   +.+|..+.|+||+|||||||+++|+.......
T Consensus         9 ~~~g~~~~l~~vs~~i~~Ge~v~LvG~NGsGKSTLLkiL~G~~~pd~   55 (638)
T PRK10636          9 IRRGVRVLLDNATATINPGQKVGLVGKNGCGKSTLLALLKNEISADG   55 (638)
T ss_pred             EEeCCceeecCcEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            357777788887   88999999999999999999999998765433

>PTZ00301 uridine kinase; Provisional

Probab=98.64  E-value=3.8e-07  Score=59.87  Aligned_cols=24  Identities=33%  Similarity=0.638  Sum_probs=21.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..|.|.|||||||||+|+.|+.++
T Consensus         4 ~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          4 TVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             EEEEEECCCcCCHHHHHHHHHHHH
Confidence            568999999999999999998776

>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=98.64  E-value=2.8e-08  Score=63.70  Aligned_cols=32  Identities=31%  Similarity=0.568  Sum_probs=28.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .|+|+|||||||||+++.||..++..++..+.
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~~~~~i~~~~   32 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKYGLPHISTGD   32 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcCCeEEECcH
Confidence            37999999999999999999999988877643

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

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=98.64  E-value=2.6e-08  Score=65.61  Aligned_cols=38  Identities=18%  Similarity=0.280  Sum_probs=32.2

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+++++   +.+|..+.|.||+|+|||||+++++.......
T Consensus        24 ~~l~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~p~~   64 (228)
T PRK10584         24 SILTGVELVVKRGETIALIGESGSGKSTLLAILAGLDDGSS   64 (228)
T ss_pred             EEEeccEEEEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCC
Confidence            366666   88999999999999999999999998875443

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=98.64  E-value=2.5e-08  Score=67.50  Aligned_cols=40  Identities=28%  Similarity=0.465  Sum_probs=33.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.|++|||||||+++|+..+.
T Consensus        33 ~~~~~~il~~vsl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~   75 (271)
T PRK14238         33 WYGEDHALKNINLDIHENEVTAIIGPSGCGKSTYIKTLNRMVE   75 (271)
T ss_pred             EECCcceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            35555566666   88899999999999999999999998765

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.63  E-value=3.6e-07  Score=63.92  Aligned_cols=46  Identities=15%  Similarity=0.017  Sum_probs=33.1

Q ss_pred             CCEEEEEeeCCCC---CCCHHhhcccc-eEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTG---AIDLAFLDRAD-IKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~~---~~d~~~~~r~~-~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      .++.+++.+|.++   .++....+|+. ..+.++.++.+++..++.+.++
T Consensus       164 ~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~  213 (365)
T TIGR02928       164 AKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAE  213 (365)
T ss_pred             CeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHH
Confidence            4566777887764   46666667774 4567777788899999887764

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.

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=98.63  E-value=2.8e-08  Score=67.02  Aligned_cols=40  Identities=20%  Similarity=0.387  Sum_probs=33.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++++....
T Consensus        19 ~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   61 (264)
T PRK14243         19 YYGSFLAVKNVWLDIPKNQITAFIGPSGCGKSTILRCFNRLND   61 (264)
T ss_pred             EECCEEEeecceEEEcCCCEEEEECCCCCCHHHHHHHHHhhhc
Confidence            35555566666   88899999999999999999999998654

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=98.63  E-value=2.5e-08  Score=66.61  Aligned_cols=40  Identities=25%  Similarity=0.416  Sum_probs=33.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++|+....
T Consensus        12 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   54 (250)
T PRK14240         12 FYGDFQALKKINLDIEENQVTALIGPSGCGKSTFLRTLNRMND   54 (250)
T ss_pred             EECCceeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            35555566666   78899999999999999999999998654

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=98.63  E-value=2.7e-08  Score=64.53  Aligned_cols=42  Identities=21%  Similarity=0.299  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus         9 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~   53 (201)
T cd03231           9 ERDGRALFSGLSFTLAAGEALQVTGPNGSGKTTLLRILAGLSPPL   53 (201)
T ss_pred             EeCCceeeccceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            35555566666   7889999999999999999999999877543

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.63  E-value=2.7e-08  Score=72.28  Aligned_cols=42  Identities=24%  Similarity=0.362  Sum_probs=35.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+...
T Consensus        12 ~~~~~~il~~vsl~i~~Ge~~~liG~nGsGKSTLl~~l~G~~~p~   56 (490)
T PRK10938         12 RLSDTKTLQLPSLTLNAGDSWAFVGANGSGKSALARALAGELPLL   56 (490)
T ss_pred             EcCCeeecccceEEEcCCCEEEEECCCCCCHHHHHHHHhccCCCC
Confidence            56665677776   8899999999999999999999999877543

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.63  E-value=2.3e-08  Score=67.60  Aligned_cols=40  Identities=23%  Similarity=0.465  Sum_probs=33.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+....
T Consensus        22 ~~~~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   64 (269)
T PRK14259         22 SYGTFEAVKNVFCDIPRGKVTALIGPSGCGKSTVLRSLNRMND   64 (269)
T ss_pred             EECCEEEEcceEEEEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            35555566666   78899999999999999999999998754

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.63  E-value=2.4e-08  Score=66.71  Aligned_cols=40  Identities=20%  Similarity=0.378  Sum_probs=32.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++|+....
T Consensus        14 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (252)
T PRK14255         14 FYGKFEALKGIDLDFNQNEITALIGPSGCGKSTYLRTLNRMND   56 (252)
T ss_pred             EECCeeEEecceEEEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            35555566666   78899999999999999999999998643

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=98.63  E-value=3.5e-08  Score=66.46  Aligned_cols=46  Identities=26%  Similarity=0.315  Sum_probs=35.7

Q ss_pred             CCCccc-cccccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHS-KVKSNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~-~~~~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |+|++. .+.+++  +.+|..+.|.||+|+|||||+++++......-..
T Consensus         8 ~~y~~~~~~l~~i~~i~~Ge~~~IvG~nGsGKSTLlk~l~Gl~~p~~G~   56 (255)
T cd03236           8 HRYGPNSFKLHRLPVPREGQVLGLVGPNGIGKSTALKILAGKLKPNLGK   56 (255)
T ss_pred             eeecCcchhhhcCCCCCCCCEEEEECCCCCCHHHHHHHHhCCcCCCCce
Confidence            356543 355555  6789999999999999999999999988765444

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, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

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

Probab=98.63  E-value=1.7e-08  Score=73.03  Aligned_cols=66  Identities=21%  Similarity=0.301  Sum_probs=50.5

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCCEEEEEeeCCCCCCCHHhhcccceEEE
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQY   83 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~   83 (105)
                      .+.+++   +.+|..+-++||+|||||||+|.+..                  -|....++.+.+..|...++|..+-.+
T Consensus       350 pil~~isF~l~~G~~lgIIGPSgSGKSTLaR~lvG------------------~w~p~~G~VRLDga~l~qWd~e~lG~h  411 (580)
T COG4618         350 PILKGISFALQAGEALGIIGPSGSGKSTLARLLVG------------------IWPPTSGSVRLDGADLRQWDREQLGRH  411 (580)
T ss_pred             cceecceeEecCCceEEEECCCCccHHHHHHHHHc------------------ccccCCCcEEecchhhhcCCHHHhccc
Confidence            455555   78899999999999999999999984                  444555556667777777777777777


Q ss_pred             eCCCCHH
Q psy4924          84 IGFPSAA   90 (105)
Q Consensus        84 ~~~~~~~   90 (105)
                      ++|.+|+
T Consensus       412 iGYLPQd  418 (580)
T COG4618         412 IGYLPQD  418 (580)
T ss_pred             cCcCccc
Confidence            7877665

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.63  E-value=2.6e-08  Score=67.95  Aligned_cols=37  Identities=19%  Similarity=0.293  Sum_probs=31.9

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +++++   +.+|..+.|.||+|||||||+++++..+....
T Consensus        26 il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~   65 (289)
T PRK13645         26 ALNNTSLTFKKNKVTCVIGTTGSGKSTMIQLTNGLIISET   65 (289)
T ss_pred             eeeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCC
Confidence            66666   88899999999999999999999998875443

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.63  E-value=2.4e-08  Score=66.79  Aligned_cols=41  Identities=27%  Similarity=0.475  Sum_probs=34.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||++.++.....
T Consensus        13 ~~~~~~il~~~s~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~   56 (251)
T PRK14249         13 FYHKHQVLKNINMDFPERQITAIIGPSGCGKSTLLRALNRMNDI   56 (251)
T ss_pred             EECCeeEecceEEEEcCCCEEEEECCCCCCHHHHHHHHhcccCc
Confidence            45555566666   788999999999999999999999987753

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.63  E-value=2.4e-08  Score=66.70  Aligned_cols=41  Identities=24%  Similarity=0.480  Sum_probs=34.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++++..+..
T Consensus        13 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~   56 (252)
T PRK14272         13 YYGDKQAVKNVNLDVQRGTVNALIGPSGCGKTTFLRAINRMHDL   56 (252)
T ss_pred             EECCEEeeccceEEEcCCCEEEEECCCCCCHHHHHHHHhccCCC
Confidence            45555677776   788999999999999999999999998643

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=98.62  E-value=2.7e-08  Score=66.07  Aligned_cols=42  Identities=24%  Similarity=0.442  Sum_probs=34.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++++..+...
T Consensus         9 ~~~~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~   53 (237)
T TIGR00968         9 RFGSFQALDDVNLEVPTGSLVALLGPSGSGKSTLLRIIAGLEQPD   53 (237)
T ss_pred             EECCeeeeeeEEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            45555677776   8899999999999999999999999876543

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=98.62  E-value=3e-08  Score=65.65  Aligned_cols=44  Identities=23%  Similarity=0.247  Sum_probs=35.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +|++..+.+++   +.+|..+.|.||+|+|||||+++++......-.
T Consensus         9 ~~~~~~il~~i~~~i~~Ge~~~i~G~nGsGKSTLl~~l~g~~~~~~G   55 (232)
T cd03300           9 FYGGFVALDGVSLDIKEGEFFTLLGPSGCGKTTLLRLIAGFETPTSG   55 (232)
T ss_pred             EeCCeeeeccceEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            35545566776   888999999999999999999999988765433

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=98.62  E-value=2.4e-08  Score=70.05  Aligned_cols=44  Identities=32%  Similarity=0.482  Sum_probs=35.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +..|..+.|.||+|||||||+++|+........
T Consensus        11 ~~~~~~~l~~isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G   57 (353)
T PRK10851         11 SFGRTQVLNDISLDIPSGQMVALLGPSGSGKTTLLRIIAGLEHQTSG   57 (353)
T ss_pred             EeCCeEEEEEeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            45555566666   788999999999999999999999998765443

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.62  E-value=3.2e-08  Score=66.53  Aligned_cols=40  Identities=30%  Similarity=0.489  Sum_probs=34.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.|++|||||||++.++..+.
T Consensus        16 ~~~~~~il~~isl~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl~~   58 (259)
T PRK14260         16 YYNTSKAIEGISMDIYRNKVTAIIGPSGCGKSTFIKTLNRISE   58 (259)
T ss_pred             EECCeEeecceEEEEcCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            45555567777   88999999999999999999999998765

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.62  E-value=3.6e-08  Score=66.33  Aligned_cols=43  Identities=26%  Similarity=0.482  Sum_probs=36.2

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.|++..+.+++   +.+|..+.|.||+|+|||||++.|+......
T Consensus        18 ~~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~iaG~~~~~   63 (257)
T PRK14246         18 LYINDKAILKDITIKIPNNSIFGIMGPSGSGKSTLLKVLNRLIEIY   63 (257)
T ss_pred             EecCCceeEeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            356776777777   7889999999999999999999999876543

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

Probab=98.62  E-value=4.1e-08  Score=70.13  Aligned_cols=34  Identities=26%  Similarity=0.493  Sum_probs=31.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.+++|+||||+|||++|+.+|..++.+++.++.
T Consensus        50 ~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~   83 (443)
T PRK05201         50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEA   83 (443)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCChheeecc
Confidence            4789999999999999999999999999988775

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=98.62  E-value=2.4e-08  Score=70.59  Aligned_cols=43  Identities=30%  Similarity=0.417  Sum_probs=34.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +..|..+.|.||+|||||||+++||......-
T Consensus        23 ~~~~~~~l~~vsl~i~~Ge~~~LlGpsGsGKSTLLr~IaGl~~p~~   68 (375)
T PRK09452         23 SFDGKEVISNLDLTINNGEFLTLLGPSGCGKTTVLRLIAGFETPDS   68 (375)
T ss_pred             EECCeEEEeeeEEEEeCCCEEEEECCCCCcHHHHHHHHhCCCCCCc
Confidence            45555555555   78899999999999999999999998776543

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

Probab=98.61  E-value=4.4e-08  Score=62.76  Aligned_cols=30  Identities=43%  Similarity=0.620  Sum_probs=24.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..+.+++|+||+|+||||||.+++.++-.
T Consensus        44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~~   73 (178)
T PF01695_consen   44 IENGENLILYGPPGTGKTHLAVAIANEAIR   73 (178)
T ss_dssp             -SC--EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             cccCeEEEEEhhHhHHHHHHHHHHHHHhcc
Confidence            566889999999999999999999987643

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.

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=2.7e-08  Score=66.37  Aligned_cols=40  Identities=20%  Similarity=0.375  Sum_probs=33.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++....
T Consensus        11 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   53 (246)
T PRK14269         11 FYGKKQALFDINMQIEQNKITALIGASGCGKSTFLRCFNRMND   53 (246)
T ss_pred             EECCEeeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            35555566666   88899999999999999999999998754

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.61  E-value=3.2e-08  Score=63.91  Aligned_cols=32  Identities=22%  Similarity=0.327  Sum_probs=28.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +.+|..+.|.||+|+|||||+++++.......
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~   54 (195)
T PRK13541         23 FLPSAITYIKGANGCGKSSLLRMIAGIMQPSS   54 (195)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCCCCCC
Confidence            77899999999999999999999999875443

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.61  E-value=2.6e-08  Score=72.54  Aligned_cols=44  Identities=25%  Similarity=0.312  Sum_probs=36.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++..+.....
T Consensus        13 ~~~~~~~l~~is~~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~~G   59 (501)
T PRK10762         13 AFPGVKALSGAALNVYPGRVMALVGENGAGKSTMMKVLTGIYTRDAG   59 (501)
T ss_pred             EeCCeEEeeeeeEEEcCCeEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            46665677776   888999999999999999999999988754433

>PRK06526 transposase; Provisional

Probab=98.61  E-value=3.7e-08  Score=66.34  Aligned_cols=29  Identities=34%  Similarity=0.607  Sum_probs=25.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+.+++|+||||+|||||+.+++.++.
T Consensus        95 i~~~~nlll~Gp~GtGKThLa~al~~~a~  123 (254)
T PRK06526         95 VTGKENVVFLGPPGTGKTHLAIGLGIRAC  123 (254)
T ss_pred             hhcCceEEEEeCCCCchHHHHHHHHHHHH
Confidence            55678999999999999999999988764

>PTZ00088 adenylate kinase 1; Provisional

Probab=98.61  E-value=4.4e-08  Score=65.09  Aligned_cols=33  Identities=21%  Similarity=0.438  Sum_probs=29.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      -.++|.|||||||||+++.+|+.++.+++.++.
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~~~g~~~is~gd   39 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSKKENLKHINMGN   39 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEECCh
Confidence            359999999999999999999999999887765

>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=98.61  E-value=3.4e-08  Score=61.68  Aligned_cols=43  Identities=28%  Similarity=0.460  Sum_probs=33.1

Q ss_pred             Cccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           3 FSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         3 ~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      |.+..+..++   +.++..+.|.||+|+|||||+++++..+.....
T Consensus         9 ~~~~~~l~~~~~~i~~g~~~~i~G~nGsGKStll~~l~g~~~~~~G   54 (157)
T cd00267           9 YGGRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSG   54 (157)
T ss_pred             eCCeeeEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            4333344444   788999999999999999999999988764433

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.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=98.61  E-value=3e-08  Score=64.31  Aligned_cols=39  Identities=26%  Similarity=0.442  Sum_probs=32.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++...
T Consensus         9 ~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (200)
T cd03217           9 SVGGKEILKGVNLTIKKGEVHALMGPNGSGKSTLAKTIMGHP   50 (200)
T ss_pred             EeCCEEeeeccceEECCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45555566666   7889999999999999999999999874

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=3.3e-08  Score=66.10  Aligned_cols=40  Identities=20%  Similarity=0.366  Sum_probs=33.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++....
T Consensus        14 ~~~~~~~l~~is~~i~~Ge~~~I~G~nGsGKSTLl~~i~G~~~   56 (251)
T PRK14244         14 WYGSKQILFDINLDIYKREVTAFIGPSGCGKSTFLRCFNRMND   56 (251)
T ss_pred             EECCeeeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            34444566666   78899999999999999999999998764

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=3.1e-08  Score=67.20  Aligned_cols=40  Identities=18%  Similarity=0.367  Sum_probs=33.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+....
T Consensus        29 ~~~~~~~l~~vs~~i~~Ge~~~IiG~nGsGKSTLl~~l~Gl~~   71 (274)
T PRK14265         29 FYGGFLALVDVHLKIPAKKIIAFIGPSGCGKSTLLRCFNRMND   71 (274)
T ss_pred             EeCCeEEEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            35544566666   88899999999999999999999998754

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.61  E-value=4.5e-07  Score=67.81  Aligned_cols=44  Identities=16%  Similarity=0.146  Sum_probs=31.8

Q ss_pred             EEEEE-eeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          58 VLIFT-TSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        58 ~~~~~-~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      +++++ +++.+..+++++.+|+... .++..+.+++..++.+...+
T Consensus       324 ~VLI~aTt~~~~~l~~aLrSR~~~i-~~~pls~edi~~Il~~~a~~  368 (615)
T TIGR02903       324 FVLIGATTRDPEEINPALRSRCAEV-FFEPLTPEDIALIVLNAAEK  368 (615)
T ss_pred             EEEEEeccccccccCHHHHhceeEE-EeCCCCHHHHHHHHHHHHHH
Confidence            34444 4555778899988898754 55666788999999887654

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

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.61  E-value=3.7e-07  Score=69.03  Aligned_cols=82  Identities=24%  Similarity=0.291  Sum_probs=57.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcc---------------------ccce--------------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQ---------------------TPQA--------------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~---------------------~~~~--------------------------   49 (105)
                      ..++++||+|+|||++|+++|+.+.|...                     ..+.                          
T Consensus        41 HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~K  120 (725)
T PRK07133         41 HAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYK  120 (725)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCE
Confidence            35799999999999999999999877421                     0000                          


Q ss_pred             -------------------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          50 -------------------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        50 -------------------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                                         ..++. .+.+.++.+|+.++.+.+.+.+|+. .+.+..++.+++...+...
T Consensus       121 V~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq-~ieF~~L~~eeI~~~L~~i  189 (725)
T PRK07133        121 IYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQ-RFNFRRISEDEIVSRLEFI  189 (725)
T ss_pred             EEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhce-eEEccCCCHHHHHHHHHHH
Confidence                               02222 3456677777777888888888996 5567777777776666543

>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=3.9e-08  Score=65.65  Aligned_cols=40  Identities=28%  Similarity=0.508  Sum_probs=33.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++|+...+
T Consensus        12 ~~~~~~~l~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   54 (250)
T PRK14266         12 YFDDAHILKNVNLDIPKNSVTALIGPSGCGKSTFIRTLNRMND   54 (250)
T ss_pred             EeCCeEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhhc
Confidence            35555567777   78899999999999999999999998754

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=98.61  E-value=5.1e-08  Score=61.58  Aligned_cols=33  Identities=33%  Similarity=0.490  Sum_probs=30.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..++|+|++||||||+++.+|..++.++++.+.
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg~~~~d~D~   35 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALGYRFVDTDQ   35 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEEccH
Confidence            468999999999999999999999999988774

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.61  E-value=2.6e-08  Score=74.45  Aligned_cols=42  Identities=31%  Similarity=0.419  Sum_probs=35.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|+||+|||||||+++|+......
T Consensus        12 ~~~~~~il~~is~~i~~Ge~v~LvG~NGsGKSTLLriiaG~~~p~   56 (635)
T PRK11147         12 SFSDAPLLDNAELHIEDNERVCLVGRNGAGKSTLMKILNGEVLLD   56 (635)
T ss_pred             EeCCceeEeCcEEEECCCCEEEEECCCCCCHHHHHHHHcCCCCCC
Confidence            56666777777   8899999999999999999999999876543

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=98.61  E-value=3.2e-08  Score=67.03  Aligned_cols=40  Identities=28%  Similarity=0.448  Sum_probs=33.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++....
T Consensus        34 ~~~~~~il~~vs~~i~~Ge~~~I~G~nGsGKSTLl~~laGl~~   76 (272)
T PRK14236         34 FYGDKQALFDISMRIPKNRVTAFIGPSGCGKSTLLRCFNRMND   76 (272)
T ss_pred             EECCeeEeeeEEEEEcCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            35555566666   88899999999999999999999998764

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.60  E-value=3.2e-08  Score=66.09  Aligned_cols=39  Identities=23%  Similarity=0.352  Sum_probs=32.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++...
T Consensus        12 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~   53 (250)
T PRK14245         12 WYGDFHALKGISMEIEEKSVVAFIGPSGCGKSTFLRLFNRMN   53 (250)
T ss_pred             EECCEeEEeeeeEEEeCCCEEEEECCCCCCHHHHHHHHhhhh
Confidence            35555566665   8889999999999999999999999764

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.60  E-value=3.3e-08  Score=66.41  Aligned_cols=40  Identities=25%  Similarity=0.453  Sum_probs=33.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+....
T Consensus        21 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~   63 (258)
T PRK14268         21 WYGEKQALKNVSMQIPKNSVTALIGPSGCGKSTFIRCLNRMND   63 (258)
T ss_pred             EeCCeeeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35555566666   78899999999999999999999998664

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=98.60  E-value=4.4e-08  Score=64.18  Aligned_cols=43  Identities=26%  Similarity=0.333  Sum_probs=34.4

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|+ +..+++++   +.+|..+.|.||+|||||||+++|+.......
T Consensus         9 ~~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~   55 (218)
T cd03290           9 SWGSGLATLSNINIRIPTGQLTMIVGQVGCGKSSLLLAILGEMQTLE   55 (218)
T ss_pred             ecCCCCcceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhccCCCCC
Confidence            354 23466666   88899999999999999999999998875443

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.60  E-value=2.7e-08  Score=70.88  Aligned_cols=44  Identities=30%  Similarity=0.469  Sum_probs=37.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   +.+|..+.|.||||+|||||+++++..+.....
T Consensus        12 ~y~~~~vL~~vs~~i~~Geiv~liGpNGaGKSTLLk~LaGll~p~sG   58 (402)
T PRK09536         12 EFGDTTVLDGVDLSVREGSLVGLVGPNGAGKTTLLRAINGTLTPTAG   58 (402)
T ss_pred             EECCEEEEEeeEEEECCCCEEEEECCCCchHHHHHHHHhcCCCCCCc
Confidence            46666677777   889999999999999999999999988765443

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=98.60  E-value=4.1e-08  Score=64.95  Aligned_cols=39  Identities=21%  Similarity=0.415  Sum_probs=32.4

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++|+.......
T Consensus        14 ~~~l~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~~~~   55 (236)
T cd03253          14 RPVLKDVSFTIPAGKKVAIVGPSGSGKSTILRLLFRFYDVSS   55 (236)
T ss_pred             CceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcccCCCC
Confidence            3466665   78899999999999999999999998775433

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08181 transposase; Validated

Probab=98.60  E-value=3.8e-08  Score=66.76  Aligned_cols=30  Identities=37%  Similarity=0.597  Sum_probs=26.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..+..++|+||+|+|||||+.+++.++..
T Consensus       103 ~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~  132 (269)
T PRK08181        103 LAKGANLLLFGPPGGGKSHLAAAIGLALIE  132 (269)
T ss_pred             HhcCceEEEEecCCCcHHHHHHHHHHHHHH
Confidence            456788999999999999999999987643

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.60  E-value=3.4e-08  Score=72.37  Aligned_cols=41  Identities=24%  Similarity=0.313  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+..
T Consensus        10 ~~~~~~il~~vsl~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p   53 (530)
T PRK15064         10 QFGAKPLFENISVKFGGGNRYGLIGANGCGKSTFMKILGGDLEP   53 (530)
T ss_pred             EeCCcEeEeCCEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            46666677777   889999999999999999999999987754

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=3.2e-07  Score=66.85  Aligned_cols=44  Identities=11%  Similarity=0.169  Sum_probs=29.8

Q ss_pred             CEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          57 NVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        57 ~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ..+++.+++..+.+...+.+|+. .+.+..++.+++...+.+..+
T Consensus       149 ~~v~Il~tt~~~kl~~tI~SRc~-~i~f~~ls~~el~~~L~~i~k  192 (486)
T PRK14953        149 RTIFILCTTEYDKIPPTILSRCQ-RFIFSKPTKEQIKEYLKRICN  192 (486)
T ss_pred             CeEEEEEECCHHHHHHHHHHhce-EEEcCCCCHHHHHHHHHHHHH
Confidence            45556666666777777788886 456677777877776666543

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.60  E-value=3.9e-08  Score=65.76  Aligned_cols=40  Identities=23%  Similarity=0.446  Sum_probs=33.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++|+....
T Consensus        13 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   55 (251)
T PRK14270         13 WYGEKQALNDINLPIYENKITALIGPSGCGKSTFLRCLNRMND   55 (251)
T ss_pred             EECCeeeeeceeEEEcCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            35555566666   78899999999999999999999998754

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.60  E-value=4.1e-08  Score=66.47  Aligned_cols=38  Identities=24%  Similarity=0.380  Sum_probs=32.4

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..+++++   +.+|..+.|.||+|||||||+++++......
T Consensus        22 ~~il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~   62 (271)
T PRK13632         22 NNALKNVSFEINEGEYVAILGHNGSGKSTISKILTGLLKPQ   62 (271)
T ss_pred             ccceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            3566766   7889999999999999999999999887543

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=98.60  E-value=3.2e-08  Score=63.94  Aligned_cols=35  Identities=26%  Similarity=0.472  Sum_probs=30.9

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++++...
T Consensus        22 ~~~l~~~~~~i~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          22 KQLLKNVSGKAKPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             ccceecceEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3466666   8889999999999999999999999877

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=98.60  E-value=4.2e-08  Score=62.98  Aligned_cols=30  Identities=37%  Similarity=0.628  Sum_probs=26.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +..++|.||+||||||+++.|+...+.++.
T Consensus         2 g~~i~l~G~sGsGKsTl~~~l~~~~~~~~~   31 (186)
T PRK10078          2 GKLIWLMGPSGSGKDSLLAALRQREQTQLL   31 (186)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCCCeEE
Confidence            568999999999999999999998876543

>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.60  E-value=3.2e-08  Score=67.50  Aligned_cols=39  Identities=21%  Similarity=0.377  Sum_probs=32.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+...
T Consensus        48 ~~~~~~il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~   89 (286)
T PRK14275         48 YYGEFEAVKKVNADILSKYVTAIIGPSGCGKSTFLRAINRMN   89 (286)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            35555566666   8899999999999999999999999864

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.59  E-value=3.1e-08  Score=67.28  Aligned_cols=40  Identities=25%  Similarity=0.434  Sum_probs=34.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++|+....
T Consensus        30 ~~~~~~il~~vs~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   72 (276)
T PRK14271         30 GFAGKTVLDQVSMGFPARAVTSLMGPTGSGKTTFLRTLNRMND   72 (276)
T ss_pred             EECCEEEeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            45555667776   88999999999999999999999998764

>PRK12377 putative replication protein; Provisional

Probab=98.59  E-value=3.9e-08  Score=66.05  Aligned_cols=28  Identities=32%  Similarity=0.591  Sum_probs=25.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ...++|+||||+||||||.++++.+...
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~  128 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAK  128 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999998644

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.59  E-value=6.5e-07  Score=69.14  Aligned_cols=33  Identities=18%  Similarity=0.124  Sum_probs=26.3

Q ss_pred             CHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          71 DLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        71 d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      .++++.|++..+.+..++.+.+..|++..+.++
T Consensus       750 ~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l  782 (857)
T PRK10865        750 RPEFINRIDEVVVFHPLGEQHIASIAQIQLQRL  782 (857)
T ss_pred             cHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHH
Confidence            356778888887778888888999988888765

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.59  E-value=4.5e-07  Score=69.61  Aligned_cols=26  Identities=38%  Similarity=0.598  Sum_probs=23.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+||+||+|+||||+++++|+.++|.
T Consensus        39 a~Lf~Gp~G~GKTt~A~~lAr~L~C~   64 (824)
T PRK07764         39 AYLFSGPRGCGKTSSARILARSLNCV   64 (824)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            48999999999999999999999863

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.59  E-value=3.8e-08  Score=63.46  Aligned_cols=35  Identities=29%  Similarity=0.437  Sum_probs=29.8

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+.+++   +.++..+.|.||+|+|||||+++++...
T Consensus        20 ~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   57 (192)
T cd03232          20 RQLLNNISGYVKPGTLTALMGESGAGKTTLLDVLAGRK   57 (192)
T ss_pred             eEeEEccEEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3466666   7889999999999999999999999753

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.

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.59  E-value=3.2e-08  Score=72.22  Aligned_cols=42  Identities=19%  Similarity=0.271  Sum_probs=35.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++......
T Consensus        14 ~~~~~~il~~vs~~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p~   58 (510)
T PRK09700         14 SFGPVHALKSVNLTVYPGEIHALLGENGAGKSTLMKVLSGIHEPT   58 (510)
T ss_pred             EcCCeEEeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHcCCcCCC
Confidence            46666677777   8899999999999999999999999887543

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=98.59  E-value=3.3e-08  Score=69.59  Aligned_cols=43  Identities=26%  Similarity=0.380  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +..+..+.|.||+|||||||+++||.......
T Consensus        14 ~~~~~~~l~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~   59 (362)
T TIGR03258        14 AYGANTVLDDLSLEIEAGELLALIGKSGCGKTTLLRAIAGFVKAAG   59 (362)
T ss_pred             EECCeEEEeeeEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            46655566666   78899999999999999999999998765443

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.59  E-value=3.2e-08  Score=67.50  Aligned_cols=40  Identities=20%  Similarity=0.450  Sum_probs=33.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++|+....
T Consensus        48 ~~~~~~il~~is~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   90 (285)
T PRK14254         48 FYGDEQALDDVSMDIPENQVTAMIGPSGCGKSTFLRCINRMND   90 (285)
T ss_pred             EECCEeeEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            45555567776   88999999999999999999999998764

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=4.6e-07  Score=67.32  Aligned_cols=26  Identities=38%  Similarity=0.616  Sum_probs=23.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .++|+||+|+||||+|+++|+.+++.
T Consensus        37 a~Lf~Gp~G~GKTt~A~~lAk~l~c~   62 (584)
T PRK14952         37 AYLFSGPRGCGKTSSARILARSLNCA   62 (584)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccc
Confidence            47999999999999999999999864

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.59  E-value=4.3e-07  Score=70.02  Aligned_cols=23  Identities=52%  Similarity=0.732  Sum_probs=21.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .++|+||+|+|||++|+++|..+
T Consensus       598 ~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       598 VFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999999988

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.

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=98.58  E-value=3.9e-08  Score=65.69  Aligned_cols=38  Identities=24%  Similarity=0.511  Sum_probs=31.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..
T Consensus        16 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         16 SVNENEILKGLNLSINKGEIHAIMGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             EeCCEEeeecceeEEcCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            35544566666   788999999999999999999999985

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.58  E-value=3.6e-08  Score=66.45  Aligned_cols=40  Identities=23%  Similarity=0.402  Sum_probs=33.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++....
T Consensus        25 ~~~~~~vl~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   67 (265)
T PRK14252         25 YYGGYQALKNINMMVHEKQVTALIGPSGCGKSTFLRCFNRMHD   67 (265)
T ss_pred             EECCeeeeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhcccC
Confidence            45555567776   88999999999999999999999998764

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=98.58  E-value=8.1e-07  Score=58.46  Aligned_cols=28  Identities=25%  Similarity=0.548  Sum_probs=25.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ...|.+.|+|||||||+++.|+..++..
T Consensus         8 ~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           8 VIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            3578899999999999999999999965

>TIGR01351 adk adenylate kinases

Probab=98.58  E-value=5.1e-08  Score=63.69  Aligned_cols=30  Identities=33%  Similarity=0.632  Sum_probs=27.5

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ++++|||||||||+++.||..++.+++...
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is~g   31 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHISTG   31 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeeehh
Confidence            789999999999999999999998887654

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.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=98.58  E-value=5.3e-08  Score=61.28  Aligned_cols=32  Identities=31%  Similarity=0.697  Sum_probs=28.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+.+.|||||||||+++.||+.++.+++....
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~~vsaG~   33 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLKLVSAGT   33 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCceeeccH
Confidence            47899999999999999999999999887443

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.58  E-value=4.1e-08  Score=72.41  Aligned_cols=42  Identities=17%  Similarity=0.141  Sum_probs=35.8

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|+ +..+++++   +..|..+.|.||+|||||||+++|+..+...
T Consensus        15 ~y~~~~~il~~vs~~i~~Ge~~~iiG~NGsGKSTLlk~i~G~~~p~   60 (556)
T PRK11819         15 VVPPKKQILKDISLSFFPGAKIGVLGLNGAGKSTLLRIMAGVDKEF   60 (556)
T ss_pred             EeCCCCeeeeCceEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            466 56677777   8899999999999999999999999887543

>PRK14528 adenylate kinase; Provisional

Probab=98.58  E-value=7.1e-08  Score=62.08  Aligned_cols=33  Identities=30%  Similarity=0.611  Sum_probs=28.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.+++.|||||||||+++.++..++.+++....
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~~~~is~~~   34 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLSIPQISTGD   34 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeeeCCH
Confidence            468999999999999999999999888765543

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.58  E-value=5.5e-08  Score=68.19  Aligned_cols=27  Identities=33%  Similarity=0.614  Sum_probs=25.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.++|+|||||||||+|++|++.++.
T Consensus        78 r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       78 KQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            467899999999999999999999976

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

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=98.58  E-value=3.7e-08  Score=65.61  Aligned_cols=39  Identities=21%  Similarity=0.399  Sum_probs=32.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+.+++   +.+|..+.|.||+|||||||+++++...
T Consensus        10 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (248)
T PRK09580         10 SVEDKAILRGLNLEVRPGEVHAIMGPNGSGKSTLSATLAGRE   51 (248)
T ss_pred             EeCCeeeeecceeEEcCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            35555566666   7889999999999999999999999874

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.58  E-value=4.7e-08  Score=66.07  Aligned_cols=36  Identities=17%  Similarity=0.315  Sum_probs=31.1

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.+++   +.+|..+.|.||+|||||||+++|+......
T Consensus        24 ~l~~isl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~~~   62 (269)
T PRK13648         24 TLKDVSFNIPKGQWTSIVGHNGSGKSTIAKLMIGIEKVK   62 (269)
T ss_pred             ceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            56666   7889999999999999999999999876543

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=98.57  E-value=5.6e-08  Score=64.39  Aligned_cols=37  Identities=30%  Similarity=0.372  Sum_probs=31.7

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++   +.+|..+.|.||+|||||||+++++......
T Consensus        16 ~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~   55 (237)
T cd03252          16 VILDNISLRIKPGEVVGIVGRSGSGKSTLTKLIQRFYVPE   55 (237)
T ss_pred             cceeceEEEEcCCCEEEEECCCCCCHHHHHHHHhcCcCCC
Confidence            466666   7889999999999999999999999887543

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK09183 transposase/IS protein; Provisional

Probab=98.57  E-value=5.9e-08  Score=65.52  Aligned_cols=29  Identities=38%  Similarity=0.567  Sum_probs=25.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+..++|+||||+|||||+.+++....
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~  127 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYEAV  127 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence            56788999999999999999999987754

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=98.57  E-value=4.6e-08  Score=66.14  Aligned_cols=37  Identities=27%  Similarity=0.368  Sum_probs=31.8

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++|+.....
T Consensus        25 ~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   64 (268)
T PRK10419         25 QTVLNNVSLSLKSGETVALLGRSGCGKSTLARLLVGLESP   64 (268)
T ss_pred             eeeEeceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4566776   888999999999999999999999987653

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=98.57  E-value=3.8e-08  Score=69.65  Aligned_cols=43  Identities=21%  Similarity=0.302  Sum_probs=34.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.+++   +..|..+.|.||+|||||||+++||......-
T Consensus        28 ~~~~~~~l~~vsl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~   73 (377)
T PRK11607         28 SFDGQHAVDDVSLTIYKGEIFALLGASGCGKSTLLRMLAGFEQPTA   73 (377)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCc
Confidence            45554555555   78899999999999999999999998775443

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.57  E-value=3.5e-08  Score=71.97  Aligned_cols=41  Identities=27%  Similarity=0.415  Sum_probs=34.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++|+..+..
T Consensus        14 ~~~~~~il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~   57 (506)
T PRK13549         14 TFGGVKALDNVSLKVRAGEIVSLCGENGAGKSTLMKVLSGVYPH   57 (506)
T ss_pred             EeCCeEeecceeEEEeCCeEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            46666677777   888999999999999999999999987753

>TIGR00368 Mg chelatase-related protein

Probab=98.57  E-value=4.3e-07  Score=66.39  Aligned_cols=27  Identities=37%  Similarity=0.594  Sum_probs=23.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+..++|+||||+|||++++.++..
T Consensus       208 a~~g~~vlliG~pGsGKTtlar~l~~l  234 (499)
T TIGR00368       208 AAGGHNLLLFGPPGSGKTMLASRLQGI  234 (499)
T ss_pred             ccCCCEEEEEecCCCCHHHHHHHHhcc
Confidence            445778999999999999999999863

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.57  E-value=3.8e-08  Score=71.88  Aligned_cols=42  Identities=29%  Similarity=0.373  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++..+...
T Consensus        20 ~~~~~~il~~vsl~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~   64 (510)
T PRK15439         20 QYSGVEVLKGIDFTLHAGEVHALLGGNGAGKSTLMKIIAGIVPPD   64 (510)
T ss_pred             EeCCceeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            46665677777   8889999999999999999999999877543

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

Probab=98.57  E-value=9.2e-08  Score=61.83  Aligned_cols=46  Identities=22%  Similarity=0.345  Sum_probs=36.6

Q ss_pred             CCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           2 KFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         2 ~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|.. ..++.++   ++++.-+++.||||+|||||++.|..+.......+
T Consensus        10 ~Y~~g~~aL~~vs~~i~~Gef~fl~GpSGAGKSTllkLi~~~e~pt~G~i   59 (223)
T COG2884          10 AYPGGREALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYGEERPTRGKI   59 (223)
T ss_pred             hcCCCchhhhCceEeecCceEEEEECCCCCCHHHHHHHHHhhhcCCCceE
Confidence            4533 3366666   88999999999999999999999999887665443

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.57  E-value=6.9e-07  Score=68.97  Aligned_cols=32  Identities=22%  Similarity=0.134  Sum_probs=25.0

Q ss_pred             HHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          72 LAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        72 ~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      +.++.|++..+.+..++.+.+..|+...+..+
T Consensus       748 pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l  779 (852)
T TIGR03346       748 PEFLNRIDEIVVFHPLGREQIARIVEIQLGRL  779 (852)
T ss_pred             HHHhcCcCeEEecCCcCHHHHHHHHHHHHHHH
Confidence            44666888888888888999888888887654

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.

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.57  E-value=4.5e-08  Score=66.46  Aligned_cols=37  Identities=14%  Similarity=0.194  Sum_probs=31.5

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+++++   +.+|..+.|.||+|||||||+++|+......
T Consensus        21 ~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~p~   60 (280)
T PRK13649         21 RALFDVNLTIEDGSYTAFIGHTGSGKSTIMQLLNGLHVPT   60 (280)
T ss_pred             ceeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            366666   7889999999999999999999999876543

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.57  E-value=5.4e-08  Score=66.04  Aligned_cols=42  Identities=21%  Similarity=0.314  Sum_probs=34.2

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|+ +..+++++   +.+|..+.|.||+|+|||||+++++..+...
T Consensus        10 ~~~~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~   55 (274)
T PRK13644         10 SYPDGTPALENINLVIKKGEYIGIIGKNGSGKSTLALHLNGLLRPQ   55 (274)
T ss_pred             EcCCCCceeeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            353 34466766   8899999999999999999999999877543

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=3.3e-07  Score=68.33  Aligned_cols=83  Identities=14%  Similarity=0.169  Sum_probs=57.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCc------------------------cccce-----------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL------------------------QTPQA-----------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~------------------------~~~~~-----------------------   49 (105)
                      ..++|+||+|+||||+|+.+|+.+.+..                        +.++.                       
T Consensus        39 ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g  118 (624)
T PRK14959         39 PAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEG  118 (624)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcC
Confidence            3588999999999999999999998741                        11110                       


Q ss_pred             ----------------------eeec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 ----------------------IFFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ----------------------~~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                            ..++ ..+.+.+|.+|+.+..+...+.+|+.. +.+..++.+++...+.+.+
T Consensus       119 ~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~-i~F~pLs~~eL~~~L~~il  191 (624)
T PRK14959        119 RYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQH-FTFTRLSEAGLEAHLTKVL  191 (624)
T ss_pred             CceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhc-cccCCCCHHHHHHHHHHHH
Confidence                                  0222 224566777777777777778888864 4567777777776666543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.57  E-value=7.2e-07  Score=68.63  Aligned_cols=31  Identities=19%  Similarity=0.259  Sum_probs=25.8

Q ss_pred             HhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          73 AFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        73 ~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      .++.|.|-++.+...+.+++..|+++.+.++
T Consensus       705 eflnRid~ii~F~pL~~~~l~~Iv~~~l~~l  735 (821)
T CHL00095        705 EFLNRLDEIIVFRQLTKNDVWEIAEIMLKNL  735 (821)
T ss_pred             HHhccCCeEEEeCCCCHHHHHHHHHHHHHHH
Confidence            4677888888888888999999999888765

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.57  E-value=5.7e-08  Score=64.24  Aligned_cols=35  Identities=23%  Similarity=0.365  Sum_probs=29.9

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +++++   +..|..+.|.||||||||||+..++.....
T Consensus        20 ~L~~v~l~i~~Ge~vaI~GpSGSGKSTLLniig~ld~p   57 (226)
T COG1136          20 ALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLDKP   57 (226)
T ss_pred             ecccceEEEcCCCEEEEECCCCCCHHHHHHHHhcccCC
Confidence            45555   888999999999999999999999976654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.56  E-value=6.6e-07  Score=66.67  Aligned_cols=28  Identities=29%  Similarity=0.466  Sum_probs=25.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ..++|+||+|+||||+|+++|+.+++..
T Consensus        47 ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~   74 (598)
T PRK09111         47 QAFMLTGVRGVGKTTTARILARALNYEG   74 (598)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhCcCC
Confidence            3699999999999999999999998753

>PRK02496 adk adenylate kinase; Provisional

Probab=98.56  E-value=6.9e-08  Score=61.75  Aligned_cols=31  Identities=29%  Similarity=0.532  Sum_probs=27.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+++.|||||||||+++.++..++.+.+...
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~~~~i~~~   33 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLHIPHISTG   33 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEhH
Confidence            5899999999999999999999998777543

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.56  E-value=4.8e-08  Score=65.85  Aligned_cols=40  Identities=18%  Similarity=0.314  Sum_probs=34.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+.+++   +.+|..+.|.||+|+|||||+++++..+.
T Consensus        17 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (261)
T PRK14263         17 FYGNFMAVRDSHVPIRKNEITGFIGPSGCGKSTVLRSLNRMND   59 (261)
T ss_pred             EeCCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHcccc
Confidence            45655666766   88999999999999999999999998875

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=98.56  E-value=5.5e-08  Score=63.94  Aligned_cols=37  Identities=30%  Similarity=0.465  Sum_probs=31.8

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++++..+...
T Consensus        22 ~il~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~   61 (224)
T TIGR02324        22 PVLKNVSLTVNAGECVALSGPSGAGKSTLLKSLYANYLPD   61 (224)
T ss_pred             EEEecceEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            466666   7889999999999999999999999887543

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.

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=98.56  E-value=5.2e-08  Score=65.84  Aligned_cols=39  Identities=18%  Similarity=0.301  Sum_probs=32.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +.+|..+.|.||+|||||||+++|+..+.....
T Consensus        27 ~~l~~vsl~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G   68 (267)
T PRK15112         27 EAVKPLSFTLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSG   68 (267)
T ss_pred             ceeeeeeEEecCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCC
Confidence            466666   889999999999999999999999988765433

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

Probab=98.56  E-value=7.7e-08  Score=61.18  Aligned_cols=27  Identities=30%  Similarity=0.572  Sum_probs=23.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ++.++|.|||||||||++++|+..++.
T Consensus         1 ~~~~~i~G~sGsGKttl~~~l~~~~~~   27 (179)
T TIGR02322         1 GRLIYVVGPSGAGKDTLLDYARARLAG   27 (179)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCc
Confidence            357899999999999999999998764

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.

>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=98.56  E-value=6.5e-08  Score=64.13  Aligned_cols=37  Identities=19%  Similarity=0.318  Sum_probs=31.5

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++   +.+|..+.|.||+|||||||+++++......
T Consensus        17 ~~l~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~   56 (238)
T cd03249          17 PILKGLSLTIPPGKTVALVGSSGCGKSTVVSLLERFYDPT   56 (238)
T ss_pred             cceeceEEEecCCCEEEEEeCCCCCHHHHHHHHhccCCCC
Confidence            366665   8899999999999999999999999887543

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.

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.56  E-value=5e-08  Score=71.53  Aligned_cols=42  Identities=21%  Similarity=0.373  Sum_probs=34.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++..+...
T Consensus       328 ~~~~~~~l~~is~~i~~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~  372 (530)
T PRK15064        328 GFDNGPLFKNLNLLLEAGERLAIIGENGVGKTTLLRTLVGELEPD  372 (530)
T ss_pred             eeCCceeecCcEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            45555567666   8889999999999999999999999876543

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=98.56  E-value=5.8e-08  Score=71.03  Aligned_cols=45  Identities=20%  Similarity=0.297  Sum_probs=36.4

Q ss_pred             CCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|.+ ..+++++   +++|..+.|+||+|||||||++.+++......++
T Consensus       343 ~Y~~~~~vL~~isl~i~~G~~vaIvG~SGsGKSTLl~lL~g~~~p~~G~  391 (529)
T TIGR02868       343 GYPGSPPVLDGVSLDLPPGERVAILGPSGSGKSTLLMLLTGLLDPLQGE  391 (529)
T ss_pred             ecCCCCceeecceEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            4543 3477777   8899999999999999999999999887655433

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.

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.55  E-value=5.1e-08  Score=71.29  Aligned_cols=39  Identities=31%  Similarity=0.381  Sum_probs=33.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++...
T Consensus         9 ~~~~~~~l~~is~~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   50 (520)
T TIGR03269         9 KFDGKEVLKNISFTIEEGEVLGILGRSGAGKSVLMHVLRGMD   50 (520)
T ss_pred             EECCeEeeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            46655677776   8889999999999999999999999975

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=98.55  E-value=4.7e-08  Score=68.32  Aligned_cols=38  Identities=18%  Similarity=0.276  Sum_probs=32.3

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..+++++   +.+|..+.|.||+|||||||+++++..+...
T Consensus        18 ~~il~~vsl~i~~Gei~~iiG~nGsGKSTLlk~L~Gl~~p~   58 (343)
T PRK11153         18 IHALNNVSLHIPAGEIFGVIGASGAGKSTLIRCINLLERPT   58 (343)
T ss_pred             eEEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            3466666   8899999999999999999999999877543

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.55  E-value=7.1e-08  Score=63.71  Aligned_cols=46  Identities=22%  Similarity=0.328  Sum_probs=38.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|+...+++.+   ++.+..+.|.||||+||||++++++.........+
T Consensus        12 ~YG~~~~L~gvsl~v~~Geiv~llG~NGaGKTTlLkti~Gl~~~~~G~I   60 (237)
T COG0410          12 GYGKIQALRGVSLEVERGEIVALLGRNGAGKTTLLKTIMGLVRPRSGRI   60 (237)
T ss_pred             cccceeEEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeeE
Confidence            46777777777   88899999999999999999999999887654443

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=98.55  E-value=9.8e-08  Score=61.48  Aligned_cols=43  Identities=23%  Similarity=0.318  Sum_probs=34.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++.++   +.+|.-+.+.||+|+|||||+|++|..+.....++..
T Consensus        16 ~lf~~L~f~l~~Ge~~~i~G~NG~GKTtLLRilaGLl~p~~G~v~~   61 (209)
T COG4133          16 TLFSDLSFTLNAGEALQITGPNGAGKTTLLRILAGLLRPDAGEVYW   61 (209)
T ss_pred             eeecceeEEEcCCCEEEEECCCCCcHHHHHHHHHcccCCCCCeEEe
Confidence            344444   7789999999999999999999999998876655443

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.55  E-value=3.1e-07  Score=68.19  Aligned_cols=27  Identities=33%  Similarity=0.546  Sum_probs=24.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..++|+||+|+||||+++++|+.+++.
T Consensus        39 hayLf~Gp~G~GKtt~A~~lak~l~c~   65 (576)
T PRK14965         39 HAFLFTGARGVGKTSTARILAKALNCE   65 (576)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhcCC
Confidence            357999999999999999999999864

>PRK00279 adk adenylate kinase; Reviewed

Probab=98.55  E-value=8.2e-08  Score=62.93  Aligned_cols=32  Identities=34%  Similarity=0.564  Sum_probs=28.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++++|||||||||+++.||..++.+++....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~~~~is~~d   33 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYGIPHISTGD   33 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEECCc
Confidence            48999999999999999999999998887643

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=98.55  E-value=5.7e-08  Score=65.54  Aligned_cols=39  Identities=26%  Similarity=0.284  Sum_probs=32.9

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++|+.......
T Consensus        24 ~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~   65 (265)
T TIGR02769        24 APVLTNVSLSIEEGETVGLLGRSGCGKSTLARLLLGLEKPAQ   65 (265)
T ss_pred             eEEeeCceeEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            3466666   88999999999999999999999998875443

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=98.55  E-value=6.8e-08  Score=63.58  Aligned_cols=39  Identities=21%  Similarity=0.308  Sum_probs=32.6

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++++........
T Consensus        28 ~~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   69 (226)
T cd03248          28 LVLQDVSFTLHPGEVTALVGPSGSGKSTVVALLENFYQPQGG   69 (226)
T ss_pred             ccccceEEEEcCCCEEEEECCCCCCHHHHHHHHhcCcCCCCc
Confidence            366666   888999999999999999999999988754433

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.55  E-value=5.8e-08  Score=65.94  Aligned_cols=44  Identities=25%  Similarity=0.377  Sum_probs=34.9

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|+ ...+.+++   +.+|..+.|.||+|+|||||+++|+..+.....
T Consensus        12 ~~~~~~~~l~~vsl~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G   59 (277)
T PRK13652         12 SYSGSKEALNNINFIAPRNSRIAVIGPNGAGKSTLFRHFNGILKPTSG   59 (277)
T ss_pred             EeCCCCceeeEeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            453 33466766   888999999999999999999999987764433

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=98.55  E-value=7.5e-08  Score=63.12  Aligned_cols=38  Identities=32%  Similarity=0.336  Sum_probs=32.1

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++++.......
T Consensus        18 ~~l~~i~~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~   58 (221)
T cd03244          18 PVLKNISFSIKPGEKVGIVGRTGSGKSSLLLALFRLVELSS   58 (221)
T ss_pred             ccccceEEEECCCCEEEEECCCCCCHHHHHHHHHcCCCCCC
Confidence            466666   88899999999999999999999998765433

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.

>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=98.55  E-value=5.7e-08  Score=63.32  Aligned_cols=33  Identities=21%  Similarity=0.367  Sum_probs=28.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +.+|..+.|.||+|||||||+++++......-.
T Consensus        21 i~~Ge~~~l~G~nGsGKSTLl~~l~gl~~~~~G   53 (211)
T cd03298          21 FAQGEITAIVGPSGSGKSTLLNLIAGFETPQSG   53 (211)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            788999999999999999999999988764433

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.

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=98.55  E-value=6.1e-08  Score=64.99  Aligned_cols=37  Identities=27%  Similarity=0.450  Sum_probs=31.5

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..+++++   +.+|..+.|.||+|+|||||++.++.....
T Consensus        16 ~~il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~   55 (254)
T PRK10418         16 QPLVHGVSLTLQRGRVLALVGGSGSGKSLTCAAALGILPA   55 (254)
T ss_pred             cceecceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            3456666   788999999999999999999999988754

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=98.54  E-value=1.3e-07  Score=57.92  Aligned_cols=31  Identities=42%  Similarity=0.701  Sum_probs=28.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.++..++|.|+.|+||||+++.+++.++..
T Consensus        19 l~~~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        19 LDFGTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            5678899999999999999999999999865

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=98.54  E-value=7.1e-07  Score=57.66  Aligned_cols=22  Identities=27%  Similarity=0.622  Sum_probs=20.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +.|.||+||||||++++++..+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999987

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.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=98.54  E-value=8.1e-08  Score=62.98  Aligned_cols=34  Identities=18%  Similarity=0.306  Sum_probs=29.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      ++.|..+.|.||+|||||||+++++........+
T Consensus        10 i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~~~sG~   43 (213)
T PRK15177         10 MGYHEHIGILAAPGSGKTTLTRLLCGLDAPDEGD   43 (213)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCccCCCCC
Confidence            7789999999999999999999999876544443

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

Probab=98.54  E-value=9.9e-07  Score=67.06  Aligned_cols=88  Identities=28%  Similarity=0.305  Sum_probs=63.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC---CCccccce--------------------------------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS---IRLQTPQA--------------------------------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~---~~~~~~~~--------------------------------------------   49 (105)
                      ..+++.||+|+|||-||++||..+-   ..++..+.                                            
T Consensus       522 gsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDE  601 (786)
T COG0542         522 GSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDE  601 (786)
T ss_pred             eEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEech
Confidence            3689999999999999999999987   33433332                                            


Q ss_pred             --------------------e-----eecccCCEEEEEeeCCCC----------------------------CCCHHhhc
Q psy4924          50 --------------------I-----FFKKYPNVLIFTTSNLTG----------------------------AIDLAFLD   76 (105)
Q Consensus        50 --------------------~-----~~~~~~~~~~~~~~n~~~----------------------------~~d~~~~~   76 (105)
                                          +     .-..+.+.++|+|||--.                            ...+.|+.
T Consensus       602 IEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLN  681 (786)
T COG0542         602 IEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLN  681 (786)
T ss_pred             hhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHh
Confidence                                0     112235677899988531                            12335677


Q ss_pred             ccceEEEeCCCCHHHHHHHHHHHHHHhh
Q psy4924          77 RADIKQYIGFPSAAAIFNIFSSCVEELK  104 (105)
Q Consensus        77 r~~~~~~~~~~~~~~~~~i~~~~~~~l~  104 (105)
                      |.|-++.+...+.+.+.+|+...+.++.
T Consensus       682 Rid~II~F~~L~~~~l~~Iv~~~L~~l~  709 (786)
T COG0542         682 RIDEIIPFNPLSKEVLERIVDLQLNRLA  709 (786)
T ss_pred             hcccEEeccCCCHHHHHHHHHHHHHHHH
Confidence            8887888888889999999988887653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.54  E-value=1.1e-06  Score=62.05  Aligned_cols=25  Identities=52%  Similarity=0.759  Sum_probs=22.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..++|+||||+|||++++.+++++
T Consensus        55 ~~~~lI~G~~GtGKT~l~~~v~~~l   79 (394)
T PRK00411         55 PLNVLIYGPPGTGKTTTVKKVFEEL   79 (394)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999998876

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.54  E-value=6.1e-08  Score=72.60  Aligned_cols=44  Identities=23%  Similarity=0.276  Sum_probs=35.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+.......+
T Consensus       321 ~y~~~~il~~isl~i~~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~G  367 (638)
T PRK10636        321 GYGDRIILDSIKLNLVPGSRIGLLGRNGAGKSTLIKLLAGELAPVSG  367 (638)
T ss_pred             EeCCeeeeccceEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            45655667776   888999999999999999999999987754433

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.54  E-value=6.3e-08  Score=65.69  Aligned_cols=38  Identities=24%  Similarity=0.296  Sum_probs=32.5

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..+.+++   +.+|..+.|.||+|||||||+++++..+...
T Consensus        18 ~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~   58 (274)
T PRK13647         18 TKALKGLSLSIPEGSKTALLGPNGAGKSTLLLHLNGIYLPQ   58 (274)
T ss_pred             CeeeeeEEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCC
Confidence            4566776   8899999999999999999999999877543

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=98.54  E-value=1.1e-07  Score=60.74  Aligned_cols=32  Identities=22%  Similarity=0.366  Sum_probs=27.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      |..+.+.|||||||||++++++..++..+++-
T Consensus         3 ge~i~l~G~sGsGKSTl~~~la~~l~~~~i~g   34 (176)
T PRK09825          3 GESYILMGVSGSGKSLIGSKIAALFSAKFIDG   34 (176)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCCEEECC
Confidence            67899999999999999999999987655443

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.53  E-value=6.4e-08  Score=65.17  Aligned_cols=41  Identities=22%  Similarity=0.459  Sum_probs=34.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|++..+++++   +.+|..+.|.||+|+|||||+++++.....
T Consensus        16 ~~~~~~il~~is~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~~   59 (261)
T PRK14258         16 YYDTQKILEGVSMEIYQSKVTAIIGPSGCGKSTFLKCLNRMNEL   59 (261)
T ss_pred             EeCCeeEeeceEEEEcCCcEEEEECCCCCCHHHHHHHHhcccCC
Confidence            35544566666   889999999999999999999999988763

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=98.53  E-value=5.6e-08  Score=68.17  Aligned_cols=42  Identities=21%  Similarity=0.344  Sum_probs=32.2

Q ss_pred             CCccccccccc-ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI-ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~-~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+.-++ +..|..+.|.||+|||||||+++|+......
T Consensus         9 ~~~~~~~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~iaGl~~p~   51 (352)
T PRK11144          9 QLGDLCLTVNLTLPAQGITAIFGRSGAGKTSLINAISGLTRPQ   51 (352)
T ss_pred             EeCCEEEEEEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            45543332233 7889999999999999999999999877543

>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=98.53  E-value=8e-07  Score=58.68  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=21.1

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.|.|||||||||+++.|+..+.
T Consensus         2 igI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHh
Confidence            57899999999999999999884

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.53  E-value=6.9e-08  Score=67.20  Aligned_cols=28  Identities=39%  Similarity=0.478  Sum_probs=25.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ....++|+||+|+|||||+.++|.++-.
T Consensus       182 ~~~~Lll~G~~GtGKThLa~aIa~~l~~  209 (329)
T PRK06835        182 NNENLLFYGNTGTGKTFLSNCIAKELLD  209 (329)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4578999999999999999999998853

>PRK08116 hypothetical protein; Validated

Probab=98.53  E-value=1e-07  Score=64.66  Aligned_cols=26  Identities=46%  Similarity=0.595  Sum_probs=23.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.+++|+|++|+||||||.++++++.
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~  139 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELI  139 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH
Confidence            45799999999999999999999874

>PLN02200 adenylate kinase family protein

Probab=98.53  E-value=1.1e-07  Score=63.39  Aligned_cols=33  Identities=18%  Similarity=0.515  Sum_probs=28.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +..+++.|||||||||+++.+|..++..++...
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~g~~his~g   75 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETFGFKHLSAG   75 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCeEEEcc
Confidence            457899999999999999999999998776653

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.53  E-value=7.4e-08  Score=70.98  Aligned_cols=42  Identities=17%  Similarity=0.139  Sum_probs=35.1

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|+ +..+++++   +..|..+.|.||+|||||||+++|+......
T Consensus        13 ~~~~~~~il~~is~~i~~Ge~~~liG~NGsGKSTLl~~i~G~~~p~   58 (552)
T TIGR03719        13 VVPPKKEILKDISLSFFPGAKIGVLGLNGAGKSTLLRIMAGVDKEF   58 (552)
T ss_pred             ecCCCCeeecCceEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            465 45577777   8899999999999999999999999876543

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.53  E-value=7.4e-08  Score=65.37  Aligned_cols=43  Identities=23%  Similarity=0.323  Sum_probs=34.2

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|+ ...+.+++   +.+|..+.|.||+|||||||+++++..+....
T Consensus        10 ~~~~~~~~l~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~~~~   56 (275)
T PRK13639         10 SYPDGTEALKGINFKAEKGEMVALLGPNGAGKSTLFLHFNGILKPTS   56 (275)
T ss_pred             EeCCCCeeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            453 23466666   88999999999999999999999998765433

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.53  E-value=5.6e-08  Score=70.65  Aligned_cols=44  Identities=23%  Similarity=0.287  Sum_probs=36.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus         7 ~~~~~~il~~vs~~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G   53 (491)
T PRK10982          7 SFPGVKALDNVNLKVRPHSIHALMGENGAGKSTLLKCLFGIYQKDSG   53 (491)
T ss_pred             EeCCEEeeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCce
Confidence            46665677777   788999999999999999999999987754433

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.53  E-value=7.5e-08  Score=65.73  Aligned_cols=39  Identities=28%  Similarity=0.303  Sum_probs=32.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++|+..+.....
T Consensus        21 ~~l~~vsl~i~~Ge~~~iiG~NGaGKSTLl~~l~Gl~~p~~G   62 (287)
T PRK13641         21 KGLDNISFELEEGSFVALVGHTGSGKSTLMQHFNALLKPSSG   62 (287)
T ss_pred             cceeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            467776   889999999999999999999999987764433

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

Probab=98.52  E-value=1e-07  Score=68.14  Aligned_cols=32  Identities=34%  Similarity=0.612  Sum_probs=28.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      ...++|+||||||||++|+++|..++.++...
T Consensus       116 ~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~  147 (413)
T TIGR00382       116 KSNILLIGPTGSGKTLLAQTLARILNVPFAIA  147 (413)
T ss_pred             CceEEEECCCCcCHHHHHHHHHHhcCCCeEEe
Confidence            45899999999999999999999998777543

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.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=98.52  E-value=1.1e-07  Score=61.92  Aligned_cols=37  Identities=24%  Similarity=0.329  Sum_probs=31.5

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++++......
T Consensus        22 ~~l~~isl~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~   61 (207)
T cd03369          22 PVLKNVSFKVKAGEKIGIVGRTGAGKSTLILALFRFLEAE   61 (207)
T ss_pred             ccccCceEEECCCCEEEEECCCCCCHHHHHHHHhcccCCC
Confidence            466666   7889999999999999999999999876543

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting 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.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=98.52  E-value=1e-07  Score=60.96  Aligned_cols=31  Identities=29%  Similarity=0.444  Sum_probs=26.5

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHH
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      +++++   +.+|..+.|.||||||||||++++..
T Consensus        10 ~l~~isl~i~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          10 NLQNLDVSIPLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             eecceEEEEcCCCEEEEECCCCCCHHHHHHHHhh
Confidence            44555   78899999999999999999999853

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK06762 hypothetical protein; Provisional

Probab=98.52  E-value=1.3e-07  Score=59.48  Aligned_cols=26  Identities=27%  Similarity=0.719  Sum_probs=23.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+++.|+|||||||+++.++..++
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l~   27 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERLG   27 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999999984

>PRK14264 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.52  E-value=7.2e-08  Score=66.37  Aligned_cols=40  Identities=20%  Similarity=0.397  Sum_probs=33.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+....
T Consensus        54 ~~~~~~iL~~is~~i~~Ge~~~IvG~nGsGKSTLl~~L~Gl~~   96 (305)
T PRK14264         54 YYGDDHALKGVSMDIPEKSVTALIGPSGCGKSTFLRCLNRMND   96 (305)
T ss_pred             EeCCeeeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            35555566666   78899999999999999999999998764

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.52  E-value=8.3e-08  Score=61.38  Aligned_cols=32  Identities=22%  Similarity=0.231  Sum_probs=28.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +.+|..+.|.||+|+|||||+++++.......
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~   54 (182)
T cd03215          23 VRAGEIVGIAGLVGNGQTELAEALFGLRPPAS   54 (182)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            77899999999999999999999998876443

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.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=98.51  E-value=7.9e-08  Score=63.57  Aligned_cols=33  Identities=27%  Similarity=0.412  Sum_probs=28.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +.+|..+.|.||+|||||||++.++........
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   54 (232)
T PRK10771         22 VERGERVAILGPSGAGKSTLLNLIAGFLTPASG   54 (232)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            778999999999999999999999988764433

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.51  E-value=8.9e-08  Score=65.14  Aligned_cols=39  Identities=21%  Similarity=0.235  Sum_probs=32.7

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +..|..+.|.||+|+|||||+++++..+.....
T Consensus        21 ~~l~~vsl~i~~Ge~~~i~G~nGaGKSTLl~~i~G~~~p~~G   62 (279)
T PRK13635         21 YALKDVSFSVYEGEWVAIVGHNGSGKSTLAKLLNGLLLPEAG   62 (279)
T ss_pred             cceeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            366666   888999999999999999999999988765433

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.51  E-value=6.3e-08  Score=70.49  Aligned_cols=40  Identities=28%  Similarity=0.359  Sum_probs=34.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++....
T Consensus        10 ~~~~~~il~~isl~i~~Ge~~~liG~nGsGKSTLl~~i~G~~~   52 (500)
T TIGR02633        10 TFGGVKALDGIDLEVRPGECVGLCGENGAGKSTLMKILSGVYP   52 (500)
T ss_pred             EeCCeEeecceEEEEeCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            46665677776   88899999999999999999999998764

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.51  E-value=9.4e-07  Score=66.13  Aligned_cols=27  Identities=41%  Similarity=0.598  Sum_probs=24.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..++|+||+|+|||++|+++|+.+.+.
T Consensus        39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c~   65 (620)
T PRK14948         39 PAYLFTGPRGTGKTSSARILAKSLNCL   65 (620)
T ss_pred             ceEEEECCCCCChHHHHHHHHHHhcCC
Confidence            458999999999999999999999874

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.51  E-value=7.6e-08  Score=72.04  Aligned_cols=43  Identities=23%  Similarity=0.389  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++|+..+....
T Consensus       328 ~~~~~~il~~vsl~i~~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~  373 (635)
T PRK11147        328 QIDGKQLVKDFSAQVQRGDKIALIGPNGCGKTTLLKLMLGQLQADS  373 (635)
T ss_pred             EECCeEEEcCcEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCC
Confidence            45555567766   88899999999999999999999998765433

>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=98.51  E-value=1.3e-07  Score=55.89  Aligned_cols=25  Identities=32%  Similarity=0.412  Sum_probs=22.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVA   37 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la   37 (105)
                      +..+..+.|.||||||||||++++.
T Consensus        12 i~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          12 VYGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EcCCEEEEEEcCCCCCHHHHHHHhh
Confidence            5668899999999999999999986

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

>PRK06921 hypothetical protein; Provisional

Probab=98.51  E-value=1.3e-07  Score=64.17  Aligned_cols=28  Identities=39%  Similarity=0.552  Sum_probs=25.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+..++|+||+|+|||||+.++|+++..
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~  143 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMR  143 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3678999999999999999999998753

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=98.50  E-value=7.5e-08  Score=67.56  Aligned_cols=43  Identities=19%  Similarity=0.318  Sum_probs=32.7

Q ss_pred             CCccccccccc-ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI-ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~-~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+.-++ +..|..+.|.||+|||||||+++|+.......
T Consensus         8 ~~~~~~~~isl~i~~Gei~~l~G~nGsGKSTLl~~iaGl~~p~~   51 (354)
T TIGR02142         8 RLGDFSLDADFTLPGQGVTAIFGRSGSGKTTLIRLIAGLTRPDE   51 (354)
T ss_pred             EECCEEEEEEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            45544342222 77899999999999999999999998876443

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.50  E-value=1.3e-07  Score=65.22  Aligned_cols=29  Identities=31%  Similarity=0.381  Sum_probs=25.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+++++|+||+|+|||||+.++|+++...
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~  183 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKK  183 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            46789999999999999999999998643

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.50  E-value=1.2e-06  Score=61.14  Aligned_cols=81  Identities=20%  Similarity=0.281  Sum_probs=58.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccc------------------------c------ce-----------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQT------------------------P------QA-----------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~------------------------~------~~-----------------   49 (105)
                      ..++++||+|+|||++|+.+|+.+.+....                        +      ..                 
T Consensus        23 ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~~  102 (328)
T PRK05707         23 HAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQTA  102 (328)
T ss_pred             eeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhcc
Confidence            358999999999999999999999874210                        0      00                 


Q ss_pred             -------------------------eeeccc-CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHH
Q psy4924          50 -------------------------IFFKKY-PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        50 -------------------------~~~~~~-~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                                               ..+++. ++..++.+|+.++.+.+.+.+|+.. +.+..|+.++....+.+
T Consensus       103 ~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~-~~~~~~~~~~~~~~L~~  176 (328)
T PRK05707        103 QLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQ-QACPLPSNEESLQWLQQ  176 (328)
T ss_pred             ccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhcee-eeCCCcCHHHHHHHHHH
Confidence                                     033433 4577788888888899999999976 56677777766655554

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=4.1e-07  Score=64.78  Aligned_cols=26  Identities=23%  Similarity=0.422  Sum_probs=23.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .++|+||+|+||||+|+++|+.+.+.
T Consensus        40 a~lf~Gp~G~GKtt~A~~~a~~l~c~   65 (397)
T PRK14955         40 GYIFSGLRGVGKTTAARVFAKAVNCQ   65 (397)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            48899999999999999999999873

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.50  E-value=9.5e-08  Score=65.10  Aligned_cols=43  Identities=23%  Similarity=0.326  Sum_probs=34.7

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|+ +..+.+++   +..|..+.|.||+|+|||||+++++..+....
T Consensus        14 ~~~~~~~~l~~vs~~i~~Ge~~~i~G~nGaGKSTLl~~i~Gl~~p~~   60 (283)
T PRK13636         14 NYSDGTHALKGININIKKGEVTAILGGNGAGKSTLFQNLNGILKPSS   60 (283)
T ss_pred             EeCCCCeeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCc
Confidence            453 34577776   88999999999999999999999998875433

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

Probab=98.50  E-value=1.3e-07  Score=63.77  Aligned_cols=28  Identities=39%  Similarity=0.662  Sum_probs=25.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.+.+++|+||||+||||||.+++.++.
T Consensus       103 ~~~~nl~l~G~~G~GKThLa~Ai~~~l~  130 (254)
T COG1484         103 ERGENLVLLGPPGVGKTHLAIAIGNELL  130 (254)
T ss_pred             ccCCcEEEECCCCCcHHHHHHHHHHHHH
Confidence            3678999999999999999999999986

>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=98.50  E-value=6.5e-08  Score=58.83  Aligned_cols=30  Identities=40%  Similarity=0.569  Sum_probs=27.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.++..+.|+||+|||||||+++++.....
T Consensus         8 i~~g~~~~i~G~nGsGKStLl~~l~g~~~~   37 (137)
T PF00005_consen    8 IKPGEIVAIVGPNGSGKSTLLKALAGLLPP   37 (137)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHTTSSHE
T ss_pred             EcCCCEEEEEccCCCccccceeeecccccc
Confidence            667999999999999999999999987754

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 ....

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.49  E-value=8e-08  Score=70.02  Aligned_cols=42  Identities=26%  Similarity=0.343  Sum_probs=34.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++......
T Consensus        13 ~~~~~~il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~   57 (501)
T PRK11288         13 TFPGVKALDDISFDCRAGQVHALMGENGAGKSTLLKILSGNYQPD   57 (501)
T ss_pred             EECCEEEEeeeeEEEeCCcEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            45555677777   8889999999999999999999999876543

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=98.49  E-value=1e-06  Score=60.49  Aligned_cols=27  Identities=19%  Similarity=0.331  Sum_probs=23.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+..+.|.||+||||||+++.++..+.
T Consensus        61 ~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        61 IPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345788999999999999999987775

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.

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=98.49  E-value=9.6e-08  Score=67.71  Aligned_cols=43  Identities=26%  Similarity=0.267  Sum_probs=35.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|+...+.+++   +..|..+.|.||||||||||+++|+..+....
T Consensus        33 ~~g~~~~l~~vsf~i~~Gei~~I~G~nGsGKSTLlr~L~Gl~~p~~   78 (382)
T TIGR03415        33 ETGLVVGVANASLDIEEGEICVLMGLSGSGKSSLLRAVNGLNPVSR   78 (382)
T ss_pred             hhCCEEEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCC
Confidence            45666666666   88899999999999999999999998776443

Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=98.49  E-value=1.4e-07  Score=60.74  Aligned_cols=47  Identities=19%  Similarity=0.344  Sum_probs=38.5

Q ss_pred             CCccccccccc-ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924           2 KFSHSKVKSNI-ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus         2 ~~~~~~~~~~~-~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +|+...+.-++ ++.+..+.+.||+|+|||||+..+|.-.......+.
T Consensus        10 ~y~~~~~~fdl~v~~ge~vAi~GpSGaGKSTLLnLIAGF~~P~~G~i~   57 (231)
T COG3840          10 SYGHLPMRFDLTVPAGEIVAILGPSGAGKSTLLNLIAGFETPASGEIL   57 (231)
T ss_pred             eeCcceEEEEEeecCCcEEEEECCCCccHHHHHHHHHhccCCCCceEE
Confidence            56777766666 889999999999999999999999987766554443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.49  E-value=1.1e-06  Score=65.16  Aligned_cols=83  Identities=18%  Similarity=0.244  Sum_probs=56.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCc------------------------cccce-----------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL------------------------QTPQA-----------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~------------------------~~~~~-----------------------   49 (105)
                      ..++|+||+|+|||++|+++|+.+.+..                        ...+.                       
T Consensus        39 hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~  118 (563)
T PRK06647         39 NAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASS  118 (563)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcC
Confidence            3589999999999999999999998641                        10110                       


Q ss_pred             ----------------------eeec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 ----------------------IFFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 ----------------------~~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                            ..++ ..+.+.++.+++.+..+...+.+|+.. +.+..++.+++.+.+.+..
T Consensus       119 ~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~-~~f~~l~~~el~~~L~~i~  191 (563)
T PRK06647        119 RYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQH-FNFRLLSLEKIYNMLKKVC  191 (563)
T ss_pred             CCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceE-EEecCCCHHHHHHHHHHHH
Confidence                                  0222 224466667766667777778888874 4566677777776666544

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

Probab=98.49  E-value=1.1e-07  Score=61.81  Aligned_cols=36  Identities=28%  Similarity=0.488  Sum_probs=31.3

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+.+++   +.+|..+.|.||+|||||||++.++....
T Consensus        20 ~~il~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          20 IPILKDFSGVVKPGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             ceeeeeEEEEECCCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            3466666   88899999999999999999999998865

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.

>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=98.49  E-value=1.3e-07  Score=56.55  Aligned_cols=22  Identities=41%  Similarity=0.816  Sum_probs=20.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      |+|.|++||||||+++.|+..+
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            6899999999999999999997

...

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.49  E-value=9.6e-08  Score=65.32  Aligned_cols=37  Identities=22%  Similarity=0.331  Sum_probs=32.2

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+++++   +..|..+.|.||+|||||||+++++......
T Consensus        21 ~~L~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~   60 (290)
T PRK13634         21 RALYDVNVSIPSGSYVAIIGHTGSGKSTLLQHLNGLLQPT   60 (290)
T ss_pred             cceeeEEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCC
Confidence            467777   8899999999999999999999999877543

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.49  E-value=1.2e-07  Score=64.57  Aligned_cols=38  Identities=13%  Similarity=0.258  Sum_probs=32.1

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +++++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus        22 ~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   62 (279)
T PRK13650         22 TLNDVSFHVKQGEWLSIIGHNGSGKSTTVRLIDGLLEAESG   62 (279)
T ss_pred             eeeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            66666   889999999999999999999999988754433

>TIGR03263 guanyl_kin guanylate kinase

Probab=98.49  E-value=1.3e-07  Score=60.03  Aligned_cols=27  Identities=30%  Similarity=0.596  Sum_probs=23.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      |+.++|.||+||||||+++.|+.....
T Consensus         1 g~ii~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         1 GLLIVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHccCcc
Confidence            467999999999999999999997643

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=98.49  E-value=1.7e-07  Score=60.69  Aligned_cols=28  Identities=32%  Similarity=0.625  Sum_probs=25.7

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++..++|+||+||||||+++.++..++
T Consensus         3 ~~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          3 RRGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            4688999999999999999999999875

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.48  E-value=1.5e-07  Score=69.04  Aligned_cols=31  Identities=42%  Similarity=0.771  Sum_probs=27.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .+.++|+||+||||||+++++|++++..+.+
T Consensus        45 ~~iLlLtGP~G~GKtttv~~La~elg~~v~E   75 (519)
T PF03215_consen   45 KRILLLTGPSGCGKTTTVKVLAKELGFEVQE   75 (519)
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhCCeeEE
Confidence            5679999999999999999999999986654

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=98.48  E-value=1.2e-07  Score=61.91  Aligned_cols=33  Identities=24%  Similarity=0.417  Sum_probs=29.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +.+|..+.|.||+|||||||+++++........
T Consensus        21 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (213)
T TIGR01277        21 VADGEIVAIMGPSGAGKSTLLNLIAGFIEPASG   53 (213)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            778999999999999999999999988765433

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.

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.48  E-value=1.2e-07  Score=63.16  Aligned_cols=44  Identities=27%  Similarity=0.386  Sum_probs=35.0

Q ss_pred             Cccc-cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           3 FSHS-KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         3 ~~~~-~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.+. .+++++   +..+..++|+||+|||||||++.++..+......
T Consensus        13 y~~~~~~l~~v~~~i~~Ge~~~i~G~nGsGKSTL~~~l~GLl~p~~G~   60 (235)
T COG1122          13 YPGRKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLLNGLLKPTSGE   60 (235)
T ss_pred             cCCCceeeeeeEEEECCCCEEEEECCCCCCHHHHHHHHcCcCcCCCCE
Confidence            4443 555555   7889999999999999999999999888765544

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.48  E-value=9.4e-08  Score=70.52  Aligned_cols=43  Identities=21%  Similarity=0.363  Sum_probs=34.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++.......
T Consensus       333 ~~~~~~~l~~isl~i~~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~  378 (556)
T PRK11819        333 SFGDRLLIDDLSFSLPPGGIVGIIGPNGAGKSTLFKMITGQEQPDS  378 (556)
T ss_pred             EECCeeeecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            35555566666   88899999999999999999999998765433

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.48  E-value=1.3e-06  Score=63.29  Aligned_cols=44  Identities=14%  Similarity=0.110  Sum_probs=30.8

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      +.+.++.+++....+...+.+|+.. +.+..++.+++...+.+..
T Consensus       150 ~~~~~Il~t~~~~kl~~tI~sRc~~-v~f~~l~~~el~~~L~~~~  193 (451)
T PRK06305        150 QHVKFFLATTEIHKIPGTILSRCQK-MHLKRIPEETIIDKLALIA  193 (451)
T ss_pred             CCceEEEEeCChHhcchHHHHhceE-EeCCCCCHHHHHHHHHHHH
Confidence            4556666777777787878888864 5677777887776666543

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

Probab=98.48  E-value=2.8e-07  Score=49.28  Aligned_cols=26  Identities=38%  Similarity=0.678  Sum_probs=22.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +...+|+||+||||||++.++...+-
T Consensus        23 g~~tli~G~nGsGKSTllDAi~~~L~   48 (62)
T PF13555_consen   23 GDVTLITGPNGSGKSTLLDAIQTVLY   48 (62)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHc
Confidence            35799999999999999999987663

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.48  E-value=9.4e-08  Score=69.43  Aligned_cols=39  Identities=18%  Similarity=0.373  Sum_probs=32.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +.+|..+.|.||+|||||||+++++...
T Consensus       269 ~~~~~~il~~vsl~i~~Ge~~~i~G~NGsGKSTLl~~l~G~~  310 (490)
T PRK10938        269 SYNDRPILHNLSWQVNPGEHWQIVGPNGAGKSTLLSLITGDH  310 (490)
T ss_pred             EECCeeEEeeceEEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45555566666   8889999999999999999999999854

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=98.48  E-value=1.2e-07  Score=62.82  Aligned_cols=38  Identities=21%  Similarity=0.368  Sum_probs=31.6

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +.+++   +.+|..+.|.||+|+|||||+++++..+.....
T Consensus        14 ~l~~is~~i~~Ge~~~i~G~nG~GKStLl~~l~G~~~p~~G   54 (235)
T cd03299          14 KLKNVSLEVERGDYFVILGPTGSGKSVLLETIAGFIKPDSG   54 (235)
T ss_pred             eeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            45555   788999999999999999999999987665443

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. 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.

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.47  E-value=8.9e-08  Score=70.57  Aligned_cols=42  Identities=19%  Similarity=0.370  Sum_probs=34.0

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++......
T Consensus       331 ~~~~~~~l~~isl~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~  375 (552)
T TIGR03719       331 GFGDKLLIDDLSFKLPPGGIVGVIGPNGAGKSTLFRMITGQEQPD  375 (552)
T ss_pred             EECCeeeeccceEEEcCCCEEEEECCCCCCHHHHHHHHcCCCCCC
Confidence            35544566666   8889999999999999999999999876543

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>PHA00729 NTP-binding motif containing protein

Probab=98.47  E-value=1.5e-07  Score=62.29  Aligned_cols=24  Identities=29%  Similarity=0.502  Sum_probs=22.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++|+|+||+||||+|.+++..++
T Consensus        19 nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         19 SAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            699999999999999999999875

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.47  E-value=1.6e-07  Score=69.38  Aligned_cols=41  Identities=24%  Similarity=0.350  Sum_probs=35.0

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      ..+++++   +++|..+.|+||+|||||||++.+++......++
T Consensus       356 ~~il~~i~l~i~~G~~~aIvG~sGsGKSTLl~ll~gl~~p~~G~  399 (582)
T PRK11176        356 VPALRNINFKIPAGKTVALVGRSGSGKSTIANLLTRFYDIDEGE  399 (582)
T ss_pred             CccccCceEEeCCCCEEEEECCCCCCHHHHHHHHHhccCCCCce
Confidence            3477777   8899999999999999999999999988765544

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.47  E-value=1.3e-07  Score=68.06  Aligned_cols=27  Identities=44%  Similarity=0.640  Sum_probs=22.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+.+++++||||||||.+++.+...+.
T Consensus       197 GgHnLl~~GpPGtGKTmla~Rl~~lLP  223 (490)
T COG0606         197 GGHNLLLVGPPGTGKTMLASRLPGLLP  223 (490)
T ss_pred             cCCcEEEecCCCCchHHhhhhhcccCC
Confidence            377899999999999999997765554

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.47  E-value=2.2e-07  Score=60.51  Aligned_cols=33  Identities=18%  Similarity=0.426  Sum_probs=26.8

Q ss_pred             ccccc-ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           8 VKSNI-ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         8 ~~~~~-~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..++ +..++.++|.||||+||||+++.++...
T Consensus        16 v~n~i~l~~g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          16 VANDIDMEKKNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             ecceEEEcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            44444 5667899999999999999999998543

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.47  E-value=1.8e-07  Score=60.98  Aligned_cols=44  Identities=23%  Similarity=0.403  Sum_probs=34.9

Q ss_pred             Ccccc--ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           3 FSHSK--VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         3 ~~~~~--~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |...+  +.+++   +.++..+.+.||+|||||||++.+|.-....-..
T Consensus        13 y~g~~~~~le~vsL~ia~ge~vv~lGpSGcGKTTLLnl~AGf~~P~~G~   61 (259)
T COG4525          13 YEGKPRSALEDVSLTIASGELVVVLGPSGCGKTTLLNLIAGFVTPSRGS   61 (259)
T ss_pred             cCCcchhhhhccceeecCCCEEEEEcCCCccHHHHHHHHhcCcCcccce
Confidence            44444  55665   8889999999999999999999999877655443

>cd03272 ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=98.47  E-value=2.5e-07  Score=61.44  Aligned_cols=39  Identities=21%  Similarity=0.299  Sum_probs=29.2

Q ss_pred             CCCcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           1 MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++|++..+..++  .+....|.||+|+|||||+++|+..++
T Consensus        10 ksy~~~~~~~~~--~~~~~~i~GpNGsGKStll~ai~~~l~   48 (243)
T cd03272          10 KSYKDQTVIEPF--SPKHNVVVGRNGSGKSNFFAAIRFVLS   48 (243)
T ss_pred             cCcccCcccccC--CCCcEEEECCCCCCHHHHHHHHHHHHc
Confidence            346555554443  367899999999999999999986553

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=98.47  E-value=1.5e-07  Score=63.21  Aligned_cols=38  Identities=29%  Similarity=0.297  Sum_probs=32.0

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+++++   +.+|..+.|.||+|+|||||+++++.......
T Consensus        35 ~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~   75 (257)
T cd03288          35 PVLKHVKAYIKPGQKVGICGRTGSGKSSLSLAFFRMVDIFD   75 (257)
T ss_pred             cceeEEEEEEcCCCEEEEECCCCCCHHHHHHHHHcccCCCC
Confidence            466666   78899999999999999999999998765433

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=98.47  E-value=1.2e-07  Score=67.55  Aligned_cols=43  Identities=14%  Similarity=0.218  Sum_probs=33.6

Q ss_pred             Cccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           3 FSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         3 ~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      |+.....+++   +..|..+.|.||+|||||||+++|+..+.....
T Consensus        38 ~~~~~~L~~isl~i~~Gei~~LvG~NGsGKSTLLr~I~Gl~~p~sG   83 (400)
T PRK10070         38 TGLSLGVKDASLAIEEGEIFVIMGLSGSGKSTMVRLLNRLIEPTRG   83 (400)
T ss_pred             cCCeEEEEeEEEEEcCCCEEEEECCCCchHHHHHHHHHcCCCCCCC
Confidence            3333345555   788999999999999999999999988765433

>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=98.47  E-value=1.7e-07  Score=61.79  Aligned_cols=35  Identities=23%  Similarity=0.563  Sum_probs=30.6

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+.+++   +.++..+.|.||+|||||||++.++..+.
T Consensus        21 ~~l~~vsl~i~~Ge~~~l~G~nGsGKSTLlk~l~G~~~   58 (226)
T cd03234          21 RILNDVSLHVESGQVMAILGSSGSGKTTLLDAISGRVE   58 (226)
T ss_pred             ccccCceEEEcCCeEEEEECCCCCCHHHHHHHHhCccC
Confidence            456665   78899999999999999999999998875

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

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=98.47  E-value=1.3e-07  Score=65.27  Aligned_cols=37  Identities=22%  Similarity=0.340  Sum_probs=31.7

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +++++   +.+|..+.|.||+|||||||+++|+..+....
T Consensus        22 ~l~~vsl~i~~Ge~v~iiG~nGsGKSTLl~~L~Gl~~p~~   61 (305)
T PRK13651         22 ALDNVSVEINQGEFIAIIGQTGSGKTTFIEHLNALLLPDT   61 (305)
T ss_pred             ceeeeEEEEeCCCEEEEECCCCCcHHHHHHHHhCCCCCCC
Confidence            66666   88899999999999999999999998775433

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.47  E-value=1.3e-07  Score=64.48  Aligned_cols=39  Identities=15%  Similarity=0.297  Sum_probs=32.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +..|..+.|.||+|||||||+++|+........
T Consensus        21 ~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~L~Gl~~p~~G   62 (286)
T PRK13646         21 QAIHDVNTEFEQGKYYAIVGQTGSGKSTLIQNINALLKPTTG   62 (286)
T ss_pred             CceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            367777   888999999999999999999999987764433

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=98.47  E-value=1.8e-07  Score=58.74  Aligned_cols=31  Identities=42%  Similarity=0.856  Sum_probs=28.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+.|.|++||||||+++.+++.++.++++.+
T Consensus         2 iI~i~G~~GSGKstia~~la~~lg~~~~~~~   32 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKLSLKLISAG   32 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCceecHH
Confidence            4889999999999999999999999887753

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.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=98.47  E-value=1.6e-07  Score=62.09  Aligned_cols=30  Identities=30%  Similarity=0.479  Sum_probs=27.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.+|..+.|.||+|||||||+++++.....
T Consensus         9 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   38 (230)
T TIGR02770         9 LKRGEVLALVGESGSGKSLTCLAILGLLPP   38 (230)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            678999999999999999999999988764

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=98.47  E-value=1.6e-07  Score=64.16  Aligned_cols=33  Identities=24%  Similarity=0.395  Sum_probs=27.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh-CCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL-SIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~-~~~~~~~~   48 (105)
                      ...+++.|+|||||||+++.++..+ +..+++.+
T Consensus         2 ~~liil~G~pGSGKSTla~~L~~~~~~~~~l~~D   35 (300)
T PHA02530          2 MKIILTVGVPGSGKSTWAREFAAKNPKAVNVNRD   35 (300)
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHHHCCCCEEEecc
Confidence            3578999999999999999999998 65555443

>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=98.47  E-value=1e-07  Score=59.20  Aligned_cols=29  Identities=28%  Similarity=0.538  Sum_probs=25.6

Q ss_pred             EEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          21 LHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        21 l~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      |.|||||||||+++.||...+..++....
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~is~~~   29 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVHISVGD   29 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEEEEHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcCcceechHH
Confidence            68999999999999999999988776544

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 ....

>KOG3347|consensus

Probab=98.46  E-value=1.6e-07  Score=58.48  Aligned_cols=34  Identities=29%  Similarity=0.528  Sum_probs=31.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ...+++.|-||+||||++..+|...+.+++.++.
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~~~i~isd   40 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGLEYIEISD   40 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCCceEehhh
Confidence            4579999999999999999999999999998776

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.46  E-value=1.4e-07  Score=65.15  Aligned_cols=25  Identities=44%  Similarity=0.780  Sum_probs=23.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .++|+||||+||||+|+++++++..
T Consensus        38 ~lll~Gp~GtGKT~la~~~~~~l~~   62 (337)
T PRK12402         38 HLLVQGPPGSGKTAAVRALARELYG   62 (337)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC
Confidence            7999999999999999999998753

>PRK13409 putative ATPase RIL; Provisional

Probab=98.46  E-value=1.5e-07  Score=70.02  Aligned_cols=47  Identities=21%  Similarity=0.239  Sum_probs=37.1

Q ss_pred             CCCccc-cccccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           1 MKFSHS-KVKSNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         1 ~~~~~~-~~~~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      ++|+.+ .+++++  +.+|..+.|.||+|+|||||+++|+..+......+
T Consensus        81 ~~yg~~~~~L~~l~~i~~Gev~gLvG~NGaGKSTLlkiL~G~l~p~~G~i  130 (590)
T PRK13409         81 HRYGVNGFKLYGLPIPKEGKVTGILGPNGIGKTTAVKILSGELIPNLGDY  130 (590)
T ss_pred             EEecCCceeEecCCcCCCCCEEEEECCCCCCHHHHHHHHhCCccCCCccc
Confidence            357654 355666  77888999999999999999999999877655554

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.46  E-value=1.2e-07  Score=64.50  Aligned_cols=36  Identities=25%  Similarity=0.325  Sum_probs=31.1

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.+++   +.+|..+.|.||+|+|||||+++|+..+..
T Consensus        21 ~~l~~v~l~i~~Ge~~~I~G~nGaGKSTLl~~l~G~~~p   59 (282)
T PRK13640         21 PALNDISFSIPRGSWTALIGHNGSGKSTISKLINGLLLP   59 (282)
T ss_pred             cceeeEEEEEcCCCEEEEECCCCCcHHHHHHHHhcccCC
Confidence            366666   788999999999999999999999988754

>PRK04182 cytidylate kinase; Provisional

Probab=98.46  E-value=2.1e-07  Score=58.86  Aligned_cols=30  Identities=33%  Similarity=0.804  Sum_probs=27.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|+|.|++||||||+++.+|..++.++++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id~   31 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVSA   31 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEecH
Confidence            589999999999999999999999998874

>PRK05541 adenylylsulfate kinase; Provisional

Probab=98.46  E-value=2.3e-07  Score=58.90  Aligned_cols=29  Identities=31%  Similarity=0.519  Sum_probs=26.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+..+++.|++||||||+++.++..+.
T Consensus         4 ~~~~~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          4 KPNGYVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34678899999999999999999999886

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.46  E-value=1.8e-07  Score=61.58  Aligned_cols=44  Identities=25%  Similarity=0.387  Sum_probs=35.3

Q ss_pred             cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924           5 HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus         5 ~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+.+.+++   +.+|..+.|.||+|+|||||+++++.++........
T Consensus        13 Gr~ll~~vsl~~~pGev~ailGPNGAGKSTlLk~LsGel~p~~G~v~   59 (259)
T COG4559          13 GRRLLDGVSLDLRPGEVLAILGPNGAGKSTLLKALSGELSPDSGEVT   59 (259)
T ss_pred             cceeccCcceeccCCcEEEEECCCCccHHHHHHHhhCccCCCCCeEe
Confidence            34455555   778999999999999999999999999986554433

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.46  E-value=1.5e-07  Score=64.25  Aligned_cols=38  Identities=29%  Similarity=0.326  Sum_probs=32.3

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+++++   +..|..+.|.||+|+|||||+++++..+...-
T Consensus        21 ~~l~~vs~~i~~Ge~~~i~G~nGaGKSTLl~~l~Gl~~p~~   61 (287)
T PRK13637         21 KALDNVNIEIEDGEFVGLIGHTGSGKSTLIQHLNGLLKPTS   61 (287)
T ss_pred             ceeeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCc
Confidence            366666   88899999999999999999999998775443

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

Probab=98.46  E-value=8.6e-07  Score=64.81  Aligned_cols=83  Identities=17%  Similarity=0.211  Sum_probs=60.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------------------   49 (105)
                      .+++.||.|+||||+||.+|+.++|.-.....                                                
T Consensus        40 AYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~r  119 (515)
T COG2812          40 AYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGR  119 (515)
T ss_pred             hhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCcccc
Confidence            48999999999999999999999997531111                                                


Q ss_pred             ---------------------eee-cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFF-KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ---------------------~~~-~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                           .++ +..+.|.++.+|..++.++.-+++|+... .+...+.+.+...++..+.
T Consensus       120 yKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRcq~f-~fkri~~~~I~~~L~~i~~  192 (515)
T COG2812         120 YKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRF-DFKRLDLEEIAKHLAAILD  192 (515)
T ss_pred             ceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhccccc-cccCCCHHHHHHHHHHHHH
Confidence                                 133 44456788888888899999999987644 3445556666666665543

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=98.46  E-value=1.5e-07  Score=63.99  Aligned_cols=39  Identities=15%  Similarity=0.282  Sum_probs=32.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus        24 ~vl~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   65 (280)
T PRK13633         24 LALDDVNLEVKKGEFLVILGRNGSGKSTIAKHMNALLIPSEG   65 (280)
T ss_pred             ceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            477777   788999999999999999999999988764433

>PLN03073 ABC transporter F family; Provisional

Probab=98.46  E-value=1.2e-07  Score=71.92  Aligned_cols=39  Identities=23%  Similarity=0.356  Sum_probs=33.7

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      +.|++..+++++   +..|..+.|+||+|||||||+++|+..
T Consensus       185 ~~y~~~~ll~~isl~i~~Ge~~gLvG~NGsGKSTLLr~l~g~  226 (718)
T PLN03073        185 ISVGGRDLIVDASVTLAFGRHYGLVGRNGTGKTTFLRYMAMH  226 (718)
T ss_pred             EEeCCCEEEECCEEEECCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            356666677777   889999999999999999999999975

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=98.45  E-value=2e-07  Score=64.35  Aligned_cols=37  Identities=24%  Similarity=0.400  Sum_probs=33.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.++..+.|+|++||||||+++.+|..++.++++.+.
T Consensus       130 ~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D~  166 (309)
T PRK08154        130 AARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELNR  166 (309)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHHH
Confidence            5568899999999999999999999999999987765

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.45  E-value=1.5e-07  Score=65.23  Aligned_cols=39  Identities=21%  Similarity=0.374  Sum_probs=33.1

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +.+|..+.|.||+|||||||+++++..+.....
T Consensus        40 ~~L~~vsl~i~~Ge~~~I~G~nGsGKSTLl~~L~Gl~~p~~G   81 (320)
T PRK13631         40 VALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLIKSKYG   81 (320)
T ss_pred             cceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            367777   889999999999999999999999988765443

>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=98.45  E-value=2.5e-07  Score=50.41  Aligned_cols=22  Identities=32%  Similarity=0.715  Sum_probs=20.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +.+.|++||||||+++.++..+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999997

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.

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

Probab=98.45  E-value=1.7e-07  Score=55.22  Aligned_cols=26  Identities=38%  Similarity=0.778  Sum_probs=22.3

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |.|+||||+|||++++.|+..+....
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~   26 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHI   26 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            57999999999999999998886433

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

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=98.45  E-value=1.2e-07  Score=65.90  Aligned_cols=35  Identities=23%  Similarity=0.358  Sum_probs=30.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+.+++   +..|..+.|.|+||||||||+++|+....
T Consensus        21 ~~l~~vsl~i~~Ge~~~ivG~sGsGKSTLl~~i~Gl~~   58 (330)
T PRK15093         21 KAVDRVSMTLTEGEIRGLVGESGSGKSLIAKAICGVTK   58 (330)
T ss_pred             EEEeeeEEEECCCCEEEEECCCCCCHHHHHHHHHccCC
Confidence            466666   88899999999999999999999998775

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.45  E-value=1.5e-07  Score=64.36  Aligned_cols=38  Identities=21%  Similarity=0.234  Sum_probs=32.6

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +++++   +..|..+.|.||+|||||||+++++..+.....
T Consensus        21 ~l~~vsl~i~~Ge~v~i~G~nGsGKSTLl~~l~Gl~~p~~G   61 (288)
T PRK13643         21 ALFDIDLEVKKGSYTALIGHTGSGKSTLLQHLNGLLQPTEG   61 (288)
T ss_pred             ceeeeEEEEcCCCEEEEECCCCChHHHHHHHHhcCCCCCCc
Confidence            66666   889999999999999999999999987765443

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

Probab=98.45  E-value=1.4e-07  Score=60.65  Aligned_cols=34  Identities=24%  Similarity=0.309  Sum_probs=28.8

Q ss_pred             ccccccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           9 KSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         9 ~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +...+..+..+++.||+||||||++++++..+..
T Consensus        18 l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i~~   51 (186)
T cd01130          18 LWLAVEARKNILISGGTGSGKTTLLNALLAFIPP   51 (186)
T ss_pred             HHHHHhCCCEEEEECCCCCCHHHHHHHHHhhcCC
Confidence            3334677899999999999999999999988763

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.

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=98.44  E-value=1.6e-07  Score=61.62  Aligned_cols=36  Identities=36%  Similarity=0.569  Sum_probs=30.6

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.+++   +..|..+.|.||+|+|||||+++|+..+..
T Consensus        19 ~il~~vs~~i~~G~~~~I~G~nGsGKStLl~~l~G~~~~   57 (220)
T TIGR02982        19 QVLFDINLEINPGEIVILTGPSGSGKTTLLTLIGGLRSV   57 (220)
T ss_pred             eEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            356666   788999999999999999999999987643

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>PLN03211 ABC transporter G-25; Provisional

Probab=98.44  E-value=1.7e-07  Score=70.56  Aligned_cols=40  Identities=23%  Similarity=0.495  Sum_probs=34.8

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|++..+++++   +.+|..+.|.||||+|||||+++|+....
T Consensus        77 ~~~~~~iL~~vs~~i~~Ge~~aI~GpnGaGKSTLL~iLaG~~~  119 (659)
T PLN03211         77 QIQERTILNGVTGMASPGEILAVLGPSGSGKSTLLNALAGRIQ  119 (659)
T ss_pred             cCCCCeeeeCCEEEEECCEEEEEECCCCCCHHHHHHHHhCCCC
Confidence            46666678877   88999999999999999999999998764

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

Probab=98.44  E-value=6.2e-07  Score=59.42  Aligned_cols=71  Identities=15%  Similarity=0.238  Sum_probs=44.7

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCCEEEEEeeCCCCCCCHHhhcccceEEE
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQY   83 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~   83 (105)
                      .+++.+   +..|..-.|.||+|||||||+.+|+...+...   ..      ..+  +.......++++.-.-|..+.+-
T Consensus        18 eILkgvnL~v~~GEvhaiMGPNGsGKSTLa~~i~G~p~Y~V---t~------G~I--~~~GedI~~l~~~ERAr~GifLa   86 (251)
T COG0396          18 EILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEV---TE------GEI--LFDGEDILELSPDERARAGIFLA   86 (251)
T ss_pred             hhhcCcceeEcCCcEEEEECCCCCCHHHHHHHHhCCCCceE---ec------ceE--EECCcccccCCHhHHHhcCCEEe
Confidence            566655   78899999999999999999999997654322   11      112  22222223444433445566666


Q ss_pred             eCCCC
Q psy4924          84 IGFPS   88 (105)
Q Consensus        84 ~~~~~   88 (105)
                      +.+|.
T Consensus        87 fQ~P~   91 (251)
T COG0396          87 FQYPV   91 (251)
T ss_pred             ecCCc
Confidence            66664

>PLN02165 adenylate isopentenyltransferase

Probab=98.44  E-value=2.8e-07  Score=64.13  Aligned_cols=35  Identities=23%  Similarity=0.477  Sum_probs=30.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+..++|+||+|||||+|+..||..++..+++.+.
T Consensus        42 ~g~iivIiGPTGSGKStLA~~LA~~l~~eIIsaDs   76 (334)
T PLN02165         42 KDKVVVIMGATGSGKSRLSVDLATRFPSEIINSDK   76 (334)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHcCCceecCCh
Confidence            46689999999999999999999999877666554

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=98.43  E-value=2.1e-07  Score=70.41  Aligned_cols=45  Identities=20%  Similarity=0.299  Sum_probs=36.5

Q ss_pred             CCccc--cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHS--KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~--~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|+..  .+.+++   +++|..+.|+|++|||||||+|.+.+......++
T Consensus       480 ~y~~~~~~vL~~isL~I~~Ge~vaIvG~SGsGKSTL~KLL~gly~p~~G~  529 (709)
T COG2274         480 RYGPDDPPVLEDLSLEIPPGEKVAIVGRSGSGKSTLLKLLLGLYKPQQGR  529 (709)
T ss_pred             EeCCCCcchhhceeEEeCCCCEEEEECCCCCCHHHHHHHHhcCCCCCCce
Confidence            45444  467777   8999999999999999999999999888765444

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=98.43  E-value=2.2e-07  Score=62.21  Aligned_cols=34  Identities=35%  Similarity=0.409  Sum_probs=28.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +..|..+.|.||+|||||||+++|+.........
T Consensus        22 i~~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~   55 (246)
T cd03237          22 ISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGD   55 (246)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCcCCCCe
Confidence            4578899999999999999999999887654443

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.

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=98.43  E-value=2.1e-07  Score=63.29  Aligned_cols=36  Identities=39%  Similarity=0.435  Sum_probs=31.9

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+++++   +.+|..+.|+||+|+|||||+++|++.+.
T Consensus        17 ~~~l~~isl~I~~Ge~~~IvG~nGsGKSTLl~~L~gl~~   55 (275)
T cd03289          17 NAVLENISFSISPGQRVGLLGRTGSGKSTLLSAFLRLLN   55 (275)
T ss_pred             CcceeceEEEEcCCCEEEEECCCCCCHHHHHHHHhhhcC
Confidence            3466776   88999999999999999999999999885

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>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=98.43  E-value=2.1e-07  Score=65.49  Aligned_cols=35  Identities=40%  Similarity=0.718  Sum_probs=27.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC--CCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS--IRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~--~~~~~~~~   49 (105)
                      .|+.++|.||||||||.||.++|++++  .||..++.
T Consensus        49 aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isg   85 (398)
T PF06068_consen   49 AGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISG   85 (398)
T ss_dssp             TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEG
T ss_pred             cCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEccc
Confidence            378999999999999999999999999  45555443

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	105
2c9o_A	456	3d Structure Of The Human Ruvb-Like Helicase Ruvbl1		5e-04
2xsz_A	367	The Dodecameric Human Ruvbl1:ruvbl2 Complex With Tr		5e-04

>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1 Length = 456

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 17/28 (60%), Positives = 22/28 (78%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL 44
          R VLL GPPGTGKT+L  A+AQ+L  ++
Sbjct: 64 RAVLLAGPPGTGKTALALAIAQELGSKV 91

>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated Domains Ii Length = 367

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 17/28 (60%), Positives = 22/28 (78%)
Query: 17  RVVLLHGPPGTGKTSLCKAVAQKLSIRL 44
           R VLL GPPGTGKT+L  A+AQ+L  ++
Sbjct: 78  RAVLLAGPPGTGKTALALAIAQELGSKV 105

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	105
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-11
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-09
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	4e-07
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	7e-08
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	1e-07
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	4e-07
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-07
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	7e-07
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	7e-07
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	7e-07
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	9e-07
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	1e-06
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	1e-06
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	1e-06
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	1e-06
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	3e-06
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	3e-06
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	4e-06
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	8e-06
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	9e-06
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	1e-05
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	2e-05
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	2e-05
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	2e-05
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	3e-05
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	3e-05
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	3e-05
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	6e-05
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	6e-05
2chg_A	226	Replication factor C small subunit; DNA-binding pr	8e-05
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	8e-05
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	9e-05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-04
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	1e-04
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	1e-04
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	1e-04
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-04
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	2e-04
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	3e-04
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	3e-04
2qgz_A	308	Helicase loader, putative primosome component; str	3e-04
3pvs_A	447	Replication-associated recombination protein A; ma	3e-04
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	4e-04
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	4e-04
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	5e-04
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	5e-04
2vli_A	183	Antibiotic resistance protein; transferase, tunica	6e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	8e-04
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	8e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.8 bits (136), Expect = 5e-11
 Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 13/95 (13%)

Query: 16  NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIF---FKKY--PNVLIFTTSNLTGAI 70
            + VL+ G  G+GKT +   V     ++ +    IF    K    P  ++     L   I
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209

Query: 71  DLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELKR 105
           D  +  R+D    I             S   EL+R
Sbjct: 210 DPNWTSRSDHSSNIKLR--------IHSIQAELRR 236

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 47.6 bits (114), Expect = 7e-08
 Identities = 19/40 (47%), Positives = 26/40 (65%), Gaps = 5/40 (12%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLS---IRLQTPQAIFFKKY 55
          +LL+GPPGTGKT L KAVA + +   IR+   +    KK+
Sbjct: 54 ILLYGPPGTGKTLLAKAVATETNATFIRVVGSE--LVKKF 91

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 46.7 bits (111), Expect = 1e-07
 Identities = 8/24 (33%), Positives = 14/24 (58%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSI 42
          + + G  G GK+  C+ V +K+ I
Sbjct: 39 LGIWGGKGQGKSFQCELVFRKMGI 62

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score = 45.6 bits (108), Expect = 4e-07
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 19  VLLHGPPGTGKTSLCKAVAQKLSIRL 44
           +LL+GPPGTGKT + +AVA +     
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFF 266

>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} Length = 301

 Score = 44.9 bits (107), Expect = 5e-07
 Identities = 13/19 (68%), Positives = 15/19 (78%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          VL +GPPG GKT L KA+A
Sbjct: 52 VLFYGPPGCGKTLLAKAIA 70

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 44.5 bits (106), Expect = 7e-07
 Identities = 15/19 (78%), Positives = 15/19 (78%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          VLL GPPG GKT L KAVA
Sbjct: 47 VLLAGPPGCGKTLLAKAVA 65

>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 Length = 516

 Score = 44.9 bits (106), Expect = 7e-07
 Identities = 13/24 (54%), Positives = 17/24 (70%)

Query: 17  RVVLLHGPPGTGKTSLCKAVAQKL 40
           R  +L+GPPG GKT+    VAQ+L
Sbjct: 78  RAAMLYGPPGIGKTTAAHLVAQEL 101

>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* Length = 272

 Score = 44.7 bits (106), Expect = 7e-07
 Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 3/32 (9%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLS---IRLQTP 47
          VLL GPP +GKT+L   +A++ +   I++ +P
Sbjct: 67 VLLEGPPHSGKTALAAKIAEESNFPFIKICSP 98

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 44.2 bits (105), Expect = 9e-07
 Identities = 13/21 (61%), Positives = 16/21 (76%)

Query: 17 RVVLLHGPPGTGKTSLCKAVA 37
          + +LL GPPG GKT L +AVA
Sbjct: 55 KGLLLFGPPGNGKTLLARAVA 75

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 44.4 bits (105), Expect = 1e-06
 Identities = 15/21 (71%), Positives = 16/21 (76%)

Query: 17  RVVLLHGPPGTGKTSLCKAVA 37
           R +LL GPPG GKT L KAVA
Sbjct: 149 RGLLLFGPPGNGKTMLAKAVA 169

>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 Length = 322

 Score = 43.9 bits (104), Expect = 1e-06
 Identities = 14/21 (66%), Positives = 17/21 (80%)

Query: 17 RVVLLHGPPGTGKTSLCKAVA 37
            +LL+GPPGTGK+ L KAVA
Sbjct: 52 SGILLYGPPGTGKSYLAKAVA 72

>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} Length = 357

 Score = 44.0 bits (104), Expect = 1e-06
 Identities = 12/21 (57%), Positives = 16/21 (76%)

Query: 17  RVVLLHGPPGTGKTSLCKAVA 37
           + +LL GPPGTGKT + K +A
Sbjct: 118 KGILLFGPPGTGKTLIGKCIA 138

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 43.9 bits (104), Expect = 1e-06
 Identities = 15/21 (71%), Positives = 17/21 (80%)

Query: 17 RVVLLHGPPGTGKTSLCKAVA 37
          R +LL GPPGTGK+ L KAVA
Sbjct: 46 RGILLFGPPGTGKSYLAKAVA 66

>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* Length = 476

 Score = 43.3 bits (103), Expect = 3e-06
 Identities = 14/19 (73%), Positives = 16/19 (84%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          +LL GPPGTGKT L +AVA
Sbjct: 52 ILLVGPPGTGKTLLARAVA 70

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score = 43.0 bits (102), Expect = 3e-06
 Identities = 14/19 (73%), Positives = 15/19 (78%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          VLL GPPG GKT L +AVA
Sbjct: 67 VLLVGPPGVGKTHLARAVA 85

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25 Length = 191

 Score = 42.0 bits (98), Expect = 4e-06
 Identities = 9/27 (33%), Positives = 18/27 (66%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIR 43
           ++LL G PG+GK+++ +A+A    + 
Sbjct: 10 NILLLSGHPGSGKSTIAEALANLPGVP 36

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus} Length = 193

 Score = 41.5 bits (97), Expect = 8e-06
 Identities = 11/28 (39%), Positives = 19/28 (67%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL 44
           ++++ G P TGKT+L +A+A  L + L
Sbjct: 6  ALIIVTGHPATGKTTLSQALATGLRLPL 33

>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* Length = 268

 Score = 41.5 bits (98), Expect = 9e-06
 Identities = 16/19 (84%), Positives = 16/19 (84%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          VLL GPPGTGKT L KAVA
Sbjct: 47 VLLVGPPGTGKTLLAKAVA 65

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25 Length = 189

 Score = 40.7 bits (95), Expect = 1e-05
 Identities = 9/27 (33%), Positives = 17/27 (62%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSI 42
           ++ ++ GP G GK++ CK +A +L  
Sbjct: 2  KKLYIITGPAGVGKSTTCKRLAAQLDN 28

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score = 40.3 bits (95), Expect = 2e-05
 Identities = 14/19 (73%), Positives = 14/19 (73%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
           LL GPPG GKT L KAVA
Sbjct: 42 ALLLGPPGCGKTLLAKAVA 60

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score = 40.4 bits (95), Expect = 2e-05
 Identities = 14/19 (73%), Positives = 16/19 (84%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          VL+ GPPGTGKT L KA+A
Sbjct: 48 VLMVGPPGTGKTLLAKAIA 66

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score = 40.4 bits (95), Expect = 2e-05
 Identities = 14/19 (73%), Positives = 15/19 (78%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          VLL GPPG GKT L +AVA
Sbjct: 52 VLLVGPPGVGKTHLARAVA 70

>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* Length = 456

 Score = 40.4 bits (94), Expect = 3e-05
 Identities = 17/25 (68%), Positives = 20/25 (80%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKL 40
           R VLL GPPGTGKT+L  A+AQ+L
Sbjct: 63 GRAVLLAGPPGTGKTALALAIAQEL 87

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score = 40.0 bits (94), Expect = 3e-05
 Identities = 14/19 (73%), Positives = 15/19 (78%)

Query: 19 VLLHGPPGTGKTSLCKAVA 37
          VLL GPPG GKT L +AVA
Sbjct: 76 VLLVGPPGVGKTHLARAVA 94

>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* Length = 178

 Score = 39.7 bits (92), Expect = 3e-05
 Identities = 9/80 (11%), Positives = 23/80 (28%), Gaps = 2/80 (2%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR-LQTPQAIFFKKYPNVLIFTTSNLTGAIDLAF 74
           R+++L+G    GK+ + + +   L    L        +  P  +      +    D   
Sbjct: 3  TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDADGGV 62

Query: 75 LDRADIKQ-YIGFPSAAAIF 93
              + +     +       
Sbjct: 63 SIGPEFRALEGAWAEGVVAM 82

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 38.9 bits (91), Expect = 6e-05
 Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 11/59 (18%)

Query: 19  VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDR 77
           + LHG  G GKT L  A+A +L+           K+  + LI     L   +  +  D+
Sbjct: 57  LYLHGSFGVGKTYLLAAIANELA-----------KRNVSSLIVYVPELFRELKHSLQDQ 104

>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* Length = 355

 Score = 39.0 bits (91), Expect = 6e-05
 Identities = 32/150 (21%), Positives = 45/150 (30%), Gaps = 62/150 (41%)

Query: 17  RVVLLHGPPGTGKTSLCKAVAQK-----LSI------------------------RLQTP 47
             +LL+GPPGTGK+ L KAVA +      S+                        R   P
Sbjct: 85  SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKP 144

Query: 48  QAIFF---------------------------------KKYPNVLIFTTSNLTGAIDLAF 74
             IF                                       VL+   +N+   +D A 
Sbjct: 145 SIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAI 204

Query: 75  LDRADIKQYIGFPSAAAIFNIFSSCVEELK 104
             R + + YI  P  AA   +F   V +  
Sbjct: 205 RRRFERRIYIPLPDLAARTTMFEINVGDTP 234

>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} Length = 226

 Score = 38.7 bits (91), Expect = 8e-05
 Identities = 12/21 (57%), Positives = 15/21 (71%)

Query: 20 LLHGPPGTGKTSLCKAVAQKL 40
          L  GPPGTGKT+   A+A+ L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62

>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* Length = 324

 Score = 38.7 bits (91), Expect = 8e-05
 Identities = 13/28 (46%), Positives = 19/28 (67%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
          +LL GPPG GKT+L   +A +L + L+ 
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNLRV 68

>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 Length = 184

 Score = 38.6 bits (89), Expect = 9e-05
 Identities = 11/23 (47%), Positives = 17/23 (73%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLS 41
          +L+ G PGTGKTS+ + +A +L 
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELD 35

>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 Length = 319

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 12/21 (57%), Positives = 15/21 (71%)

Query: 20 LLHGPPGTGKTSLCKAVAQKL 40
          L  GPPGTGKT+   A+A+ L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62

>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* Length = 334

 Score = 38.7 bits (91), Expect = 1e-04
 Identities = 13/28 (46%), Positives = 17/28 (60%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
          VLL GPPG GKT+L   +A +L   +  
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHV 81

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A Length = 180

 Score = 38.1 bits (88), Expect = 1e-04
 Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 7/54 (12%)

Query: 1  MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKK 54
          +      +  NI+       L G PG GKT+L K +A K  ++      +  ++
Sbjct: 3  LGSPEFMLLPNIL-------LTGTPGVGKTTLGKELASKSGLKYINVGDLAREE 49

>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 Length = 444

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 32/151 (21%), Positives = 45/151 (29%), Gaps = 63/151 (41%)

Query: 17  RVVLLHGPPGTGKTSLCKAVAQK------LSI------------------------RLQT 46
           R +LL GPPGTGK+ L KAVA +       SI                        R   
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENK 227

Query: 47  PQAIFF---------------------------------KKYPNVLIFTTSNLTGAIDLA 73
           P  IF                                       +L+   +N+   +D A
Sbjct: 228 PSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSA 287

Query: 74  FLDRADIKQYIGFPSAAAIFNIFSSCVEELK 104
              R + + YI  P A A   +F   +   +
Sbjct: 288 IRRRFEKRIYIPLPEAHARAAMFRLHLGSTQ 318

>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 Length = 327

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 11/21 (52%), Positives = 15/21 (71%)

Query: 20 LLHGPPGTGKTSLCKAVAQKL 40
          L  GPPG GKT+   A+A++L
Sbjct: 50 LFAGPPGVGKTTAALALAREL 70

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp} Length = 338

 Score = 37.9 bits (89), Expect = 2e-04
 Identities = 10/28 (35%), Positives = 18/28 (64%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQT 46
          +L  GP G GKT+L   ++ ++S  ++T
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSANIKT 85

>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} Length = 384

 Score = 37.4 bits (86), Expect = 3e-04
 Identities = 8/23 (34%), Positives = 12/23 (52%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLS 41
           L  G  GTGKT + K +  ++ 
Sbjct: 48 NLFLGLTGTGKTFVSKYIFNEIE 70

>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 Length = 178

 Score = 36.9 bits (85), Expect = 3e-04
 Identities = 10/27 (37%), Positives = 17/27 (62%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQ 45
          +++ G PG GKT+L K + ++L  R  
Sbjct: 3  IIITGEPGVGKTTLVKKIVERLGKRAI 29

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 37.1 bits (86), Expect = 3e-04
 Identities = 14/81 (17%), Positives = 25/81 (30%), Gaps = 20/81 (24%)

Query: 19  VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRA 78
           + L+G  G GK+ L  A+A +LS +                +    +             
Sbjct: 155 LYLYGDMGIGKSYLLAAMAHELSEKKGVS----------TTLLHFPSFA----------I 194

Query: 79  DIKQYIGFPSAAAIFNIFSSC 99
           D+K  I   S     +   + 
Sbjct: 195 DVKNAISNGSVKEEIDAVKNV 215

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 37.1 bits (87), Expect = 3e-04
 Identities = 12/33 (36%), Positives = 22/33 (66%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIF 51
          ++L GPPGTGKT+L + +A+  +  ++   A+ 
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERISAVT 85

>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} Length = 386

 Score = 37.0 bits (85), Expect = 4e-04
 Identities = 10/23 (43%), Positives = 15/23 (65%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLS 41
          + ++G  GTGKT++ K V  KL 
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLH 70

>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 Length = 389

 Score = 37.1 bits (85), Expect = 4e-04
 Identities = 8/22 (36%), Positives = 11/22 (50%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
            L G PGTGKT   + + +  
Sbjct: 47 ATLLGRPGTGKTVTLRKLWELY 68

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli} Length = 500

 Score = 36.6 bits (85), Expect = 5e-04
 Identities = 7/23 (30%), Positives = 11/23 (47%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLS 41
          V L GPPG  K+ + + +     
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQ 66

>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 Length = 543

 Score = 36.7 bits (86), Expect = 5e-04
 Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 6/31 (19%)

Query: 7   KVKSNIISWNRVVLLHGPPGTGKTSLCKAVA 37
            +K  I+       L GPPG GKTSL K++A
Sbjct: 105 SLKGPIL------CLAGPPGVGKTSLAKSIA 129

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans} Length = 183

 Score = 36.1 bits (83), Expect = 6e-04
 Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 8/62 (12%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLD 76
           ++ ++GP G GKT     + ++L      P +  F+  P  +      LT        +
Sbjct: 6  PIIWINGPFGVGKTHTAHTLHERL------PGSFVFE--PEEMGQALRKLTPGFSGDPQE 57

Query: 77 RA 78
            
Sbjct: 58 HP 59

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 36.3 bits (84), Expect = 8e-04
 Identities = 7/37 (18%), Positives = 14/37 (37%), Gaps = 1/37 (2%)

Query: 17  RVVLLHGPPGTGKTSLCKAVAQKLS-IRLQTPQAIFF 52
             V ++G  G GK+ L     +  S +       + +
Sbjct: 148 GWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHW 184

>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 Length = 158

 Score = 35.7 bits (83), Expect = 8e-04
 Identities = 9/26 (34%), Positives = 16/26 (61%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIR 43
          +V L+G  G GKT+L + + Q +  +
Sbjct: 35 MVYLNGDLGAGKTTLTRGMLQGIGHQ 60

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	105
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.88
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.88
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.87
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.87
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.87
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.86
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.76
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.75
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.72
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.72
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.71
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.71
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.68
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.68
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.67
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.67
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.66
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.65
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.65
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.64
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.64
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.63
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.6
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.59
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.57
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.57
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.55
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.54
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.5
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.49
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.47
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.45
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.35
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.34
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.34
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.33
3pvs_A	447	Replication-associated recombination protein A; ma	99.33
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.32
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.32
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.31
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.29
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.29
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.27
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.26
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.25
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.24
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.24
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.22
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.21
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.21
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.2
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.19
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.18
3bos_A	242	Putative DNA replication factor; P-loop containing	99.16
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.14
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.1
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.1
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.07
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.06
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.05
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.04
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.04
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.04
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.03
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.03
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.03
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.02
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.98
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.97
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.97
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.96
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	98.95
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.91
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.9
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.88
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.87
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.87
1b0u_A	262	Histidine permease; ABC transporter, transport pro	98.86
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.86
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	98.86
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	98.86
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	98.86
1g6h_A	257	High-affinity branched-chain amino acid transport	98.85
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.85
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	98.84
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.84
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.84
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.83
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.83
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	98.83
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.83
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.82
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	98.82
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	98.82
1sgw_A	214	Putative ABC transporter; structural genomics, P p	98.82
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	98.8
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	98.8
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	98.8
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	98.79
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	98.79
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	98.79
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	98.79
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	98.79
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.79
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	98.79
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	98.78
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	98.78
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	98.78
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	98.77
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.77
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	98.77
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	98.77
1via_A	175	Shikimate kinase; structural genomics, transferase	98.77
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	98.76
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	98.76
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	98.76
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	98.76
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	98.76
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	98.76
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	98.75
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	98.75
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.74
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	98.74
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.73
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	98.73
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	98.73
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	98.73
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	98.73
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	98.71
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	98.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	98.71
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	98.7
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	98.69
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	98.69
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	98.69
2ghi_A	260	Transport protein; multidrug resistance protein, M	98.69
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	98.68
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	98.68
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	98.68
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	98.66
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	98.66
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.66
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	98.66
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.66
3co5_A	143	Putative two-component system transcriptional RES	98.66
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	98.66
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	98.66
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	98.65
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.65
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	98.65
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	98.65
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	98.64
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	98.64
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	98.64
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	98.63
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	98.63
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	98.63
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	98.62
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	98.62
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	98.61
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	98.61
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	98.61
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	98.61
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	98.61
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	98.6
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	98.6
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	98.6
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	98.6
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	98.6
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	98.59
2vli_A	183	Antibiotic resistance protein; transferase, tunica	98.59
2qgz_A	308	Helicase loader, putative primosome component; str	98.58
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	98.58
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	98.58
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	98.58
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	98.57
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	98.57
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	98.57
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	98.57
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	98.56
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	98.55
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	98.55
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.55
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	98.54
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	98.54
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	98.54
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	98.54
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	98.53
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	98.53
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	98.53
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	98.52
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	98.52
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	98.52
4a74_A	231	DNA repair and recombination protein RADA; hydrola	98.52
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	98.52
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.51
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	98.51
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	98.51
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	98.51
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.51
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	98.5
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	98.49
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	98.49
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	98.49
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	98.48
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.48
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.48
2eyu_A	261	Twitching motility protein PILT; pilus retraction	98.48
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	98.48
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	98.48
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.48
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	98.47
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	98.46
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	98.46
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	98.45
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	98.45
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	98.45
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	98.45
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	98.45
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	98.44
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.44
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.44
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	98.44
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	98.44
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	98.43
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	98.42
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	98.41
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	98.41
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	98.4
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	98.4
1p9r_A	418	General secretion pathway protein E; bacterial typ	98.4
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	98.4
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	98.39
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	98.39
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	98.39
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	98.38
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.38
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	98.37
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	98.37
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.37
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	98.37
2cvh_A	220	DNA repair and recombination protein RADB; filamen	98.36
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	98.36
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	98.35
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	98.35
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	98.34
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	98.34
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	98.34
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	98.34
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.34
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	98.33
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	98.33
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	98.32
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	98.32
2og2_A	359	Putative signal recognition particle receptor; nuc	98.32
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.32
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	98.31
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	98.3
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	98.3
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	98.3
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	98.3
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.29
2ewv_A	372	Twitching motility protein PILT; pilus retraction	98.29
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	98.28
3kta_A	182	Chromosome segregation protein SMC; structural mai	98.28
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	98.28
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	98.28
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.28
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.27
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	98.27
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.24
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	98.24
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	98.24
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.23
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	98.23
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	98.23
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	98.21
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.2
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	98.2
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	98.18
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	98.17
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	98.16
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	98.15
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	98.15
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	98.15
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.14
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	98.14
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.14
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	98.13
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	98.13
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	98.12
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.12
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.11
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.11
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	98.1
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	98.08
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	98.08
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.06
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	98.06
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	98.05
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	98.05
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	98.04
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	98.04
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	98.04
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	98.03
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	98.03
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	98.02
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	98.02
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	98.02
2z43_A	324	DNA repair and recombination protein RADA; archaea	98.02
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.01
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.01
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	98.01
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	98.0
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	98.0
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.0
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.0
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.99
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.99
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	97.99
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	97.99
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	97.98
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.98
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	97.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	97.97
2fna_A	357	Conserved hypothetical protein; structural genomic	97.96
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	97.96
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	97.95
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	97.95
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	97.95
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.95
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.94
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	97.93
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.93
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	97.93
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	97.93
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.92
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	97.91
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	97.91
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.89
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.89
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	97.88
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.88
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.87
3ice_A	422	Transcription termination factor RHO; transcriptio	97.87
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	97.87
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	97.86
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.86
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	97.86
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	97.86
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.85
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.84
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	97.83
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	97.83
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	97.82
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	97.82
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.82
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.81
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.81
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	97.81
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	97.8
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.8
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	97.8
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	97.8
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	97.8
3f8t_A	506	Predicted ATPase involved in replication control,	97.8
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	97.79
2wji_A	165	Ferrous iron transport protein B homolog; membrane	97.78
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.78
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	97.78
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.78
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	97.78
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	97.78
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	97.77
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.77
3io5_A	333	Recombination and repair protein; storage dimer, i	97.76
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.76
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.76
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	97.75
2ged_A	193	SR-beta, signal recognition particle receptor beta	97.75
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.74
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	97.74
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.74
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.73
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.72
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.72
1e69_A	322	Chromosome segregation SMC protein; structural mai	97.72
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.71
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	97.7
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.68
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	97.68
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	97.68
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	97.68
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.67
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	97.67
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	97.67
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	97.67
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.67
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.67
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	97.67
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	97.65
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	97.65
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	97.65
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	97.64
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	97.63
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	97.63
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	97.63
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.63
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	97.62
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.62
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	97.61
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	97.61
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	97.61
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	97.61
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.6
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	97.6
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	97.6
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	97.6
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	97.59
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	97.59
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	97.59
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	97.59
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	97.59
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	97.59
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	97.58
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	97.58
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	97.58
2hf9_A	226	Probable hydrogenase nickel incorporation protein	97.58
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	97.58
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	97.57
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	97.57
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	97.57
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	97.56
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	97.56
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	97.55
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	97.55
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.55
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	97.55
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	97.55
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	97.55
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.54
3auy_A	371	DNA double-strand break repair RAD50 ATPase; DNA r	97.54
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	97.54
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.53
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	97.53
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	97.53
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.53
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	97.53
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	97.53
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	97.53
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	97.52
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	97.52
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	97.52
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	97.51
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.51
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	97.51
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	97.5
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	97.5
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	97.5
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	97.5
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	97.5
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	97.49
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	97.49
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	97.49
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	97.49
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	97.49
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	97.48
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	97.48
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	97.48
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	97.48
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	97.47
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	97.47
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	97.47
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	97.46
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	97.46
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	97.46
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	97.45
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.45
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	97.45
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	97.45
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	97.45
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	97.44
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.44
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	97.44
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	97.44
2fh5_B	214	SR-beta, signal recognition particle receptor beta	97.43
2xxa_A	433	Signal recognition particle protein; protein trans	97.42
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	97.42
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	97.42
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	97.4
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	97.4
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.39
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	97.39
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.38
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	97.38
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	97.38
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	97.38
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	97.38
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	97.38

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.88  E-value=1.1e-22  Score=142.48  Aligned_cols=90  Identities=33%  Similarity=0.380  Sum_probs=80.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||||||++|+++|++++.+++.++.                                           
T Consensus       179 i~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~  258 (405)
T 4b4t_J          179 IAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRV  258 (405)
T ss_dssp             CCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCS
T ss_pred             CCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCC
Confidence            6678999999999999999999999999999987765                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           -.+....++++++|||+++.+|+|++|  |||..++++.|+.+++.+||+.++++
T Consensus       259 ~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~  334 (405)
T 4b4t_J          259 EGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRK  334 (405)
T ss_dssp             CSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcC
Confidence                                 022445678999999999999999998  99999999999999999999888754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.88  E-value=1e-22  Score=143.89  Aligned_cols=91  Identities=29%  Similarity=0.349  Sum_probs=80.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      ++++++++||||||||||++|+++|++++.+++.++.                                           
T Consensus       212 ~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~  291 (434)
T 4b4t_M          212 IRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRF  291 (434)
T ss_dssp             CCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCS
T ss_pred             CCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhcccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccC
Confidence            6778999999999999999999999999999987765                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                           -.+....++++++|||+++.+|+|+++  |||..++++.|+.+++.+||+.+++++
T Consensus       292 ~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~  368 (434)
T 4b4t_M          292 DSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKM  368 (434)
T ss_dssp             SGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHS
T ss_pred             CCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCC
Confidence                                 022344678999999999999999998  999999999999999999999887653

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.87  E-value=3.3e-22  Score=141.79  Aligned_cols=90  Identities=30%  Similarity=0.369  Sum_probs=80.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||||||++|+++|++++.+++.++.                                           
T Consensus       240 i~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~  319 (467)
T 4b4t_H          240 IDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARF  319 (467)
T ss_dssp             CCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCS
T ss_pred             CCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhcccCCHHHHHHHHHHHHHHhcCCceEeeccccccccccc
Confidence            6779999999999999999999999999999987765                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           .......++++++|||+++.+|+|++|  |||..++++.|+.+++.+||+.++++
T Consensus       320 ~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~  395 (467)
T 4b4t_H          320 DDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKS  395 (467)
T ss_dssp             SSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTT
T ss_pred             CcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcC
Confidence                                 023445678999999999999999998  99999999999999999999988764

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.87  E-value=2.4e-22  Score=141.46  Aligned_cols=90  Identities=29%  Similarity=0.316  Sum_probs=80.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||||||++|+++|.+++.+++.++.                                           
T Consensus       213 i~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~  292 (437)
T 4b4t_I          213 IKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRY  292 (437)
T ss_dssp             CCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCS
T ss_pred             CCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCC
Confidence            6778999999999999999999999999999987764                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           -.+....++++++|||+++.+|+|++|  |||..++++.|+.+++.+||+.++++
T Consensus       293 ~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~  368 (437)
T 4b4t_I          293 DSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSK  368 (437)
T ss_dssp             CSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTT
T ss_pred             CCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcC
Confidence                                 023445678999999999999999998  99999999999999999999988764

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.87  E-value=3.8e-22  Score=141.13  Aligned_cols=91  Identities=35%  Similarity=0.431  Sum_probs=79.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||||||++|+++|++++.+++.++.                                           
T Consensus       212 ~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~  291 (437)
T 4b4t_L          212 IKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRF  291 (437)
T ss_dssp             CCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCS
T ss_pred             CCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchHHHHHHHHHHHHHHhcCCceeeeecccccccccc
Confidence            6678999999999999999999999999999987764                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                                           -.+....++++++|||+++.+|+|++|  |||..++++.|+.+++..||+.++.++
T Consensus       292 ~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~  368 (437)
T 4b4t_L          292 SEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKV  368 (437)
T ss_dssp             SSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTS
T ss_pred             cCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCC
Confidence                                 013344668999999999999999998  599999999999999999999887653

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=1.6e-21  Score=137.69  Aligned_cols=90  Identities=33%  Similarity=0.364  Sum_probs=79.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||||||++|+++|++++.+++.++.                                           
T Consensus       203 ~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~  282 (428)
T 4b4t_K          203 IDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRF  282 (428)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCCSSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCS
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhccccchhHHHHHHHHHHHHHcCCCeeechhhhhhhcccc
Confidence            6778999999999999999999999999999987765                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeC-CCCHHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIG-FPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~-~~~~~~~~~i~~~~~~~  102 (105)
                                           ..+....++++++|||+++.+|+|++|  |||..++++ .|+.+++..||+.++++
T Consensus       283 ~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~  359 (428)
T 4b4t_K          283 DAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASK  359 (428)
T ss_dssp             SSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHS
T ss_pred             CCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcC
Confidence                                 022445679999999999999999998  999999995 89999999999988764

>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=99.76  E-value=7.5e-19  Score=131.57  Aligned_cols=89  Identities=30%  Similarity=0.408  Sum_probs=78.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++|+||||||||++|+++|++++.+++.++.                                           
T Consensus       235 ~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~  314 (806)
T 3cf2_A          235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE  314 (806)
T ss_dssp             CCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTT
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccC
Confidence            5678999999999999999999999999999987764                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                        ..+....+++++++||+++.+|+++++  ||+..+.++.|+.+++.+|++.+++
T Consensus       315 ~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~  386 (806)
T 3cf2_A          315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTK  386 (806)
T ss_dssp             TCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCS
T ss_pred             CCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhc
Confidence                              022344679999999999999999998  9999999999999999999987754

>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=99.75  E-value=2.6e-19  Score=134.05  Aligned_cols=89  Identities=30%  Similarity=0.411  Sum_probs=72.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++||||||||||.+|+++|.+++.+++.++.                                           
T Consensus       508 ~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~  587 (806)
T 3cf2_A          508 MTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG  587 (806)
T ss_dssp             CCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC----
T ss_pred             CCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccC
Confidence            5668899999999999999999999999999987664                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                           ..+....+++++++||+++.+|+|++|  ||+..++++.|+.+++.+||+.+++
T Consensus       588 ~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~  662 (806)
T 3cf2_A          588 GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR  662 (806)
T ss_dssp             ----------CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSS
T ss_pred             CCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhc
Confidence                                 023445678999999999999999999  9999999999999999999887654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.72  E-value=4e-17  Score=111.53  Aligned_cols=90  Identities=29%  Similarity=0.385  Sum_probs=74.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh-CCCccccce-----------------------------e------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL-SIRLQTPQA-----------------------------I------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~-~~~~~~~~~-----------------------------~------------   50 (105)
                      ..++++++|+||||||||++|+++|+++ +.+++.+..                             +            
T Consensus        42 ~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~  121 (322)
T 1xwi_A           42 RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR  121 (322)
T ss_dssp             CCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCS
T ss_pred             CCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhcccc
Confidence            3456899999999999999999999998 666654332                             0            


Q ss_pred             --------------------ee-cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 --------------------FF-KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 --------------------~~-~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                          .+ ....+++++++||+++.+|+++++||+..++++.|+.+++..+++.++.+
T Consensus       122 ~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~  194 (322)
T 1xwi_A          122 SENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGT  194 (322)
T ss_dssp             SSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             ccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhc
Confidence                                00 12467899999999999999999999999999999999999999887643

>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=99.72  E-value=2.8e-17  Score=112.04  Aligned_cols=89  Identities=31%  Similarity=0.421  Sum_probs=75.8

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e--------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I--------------   50 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~--------------   50 (105)
                      .++++++|+||||||||++|+++|++++.+++.+..                             +              
T Consensus        49 ~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~  128 (322)
T 3eie_A           49 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGE  128 (322)
T ss_dssp             CCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC---
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCC
Confidence            346789999999999999999999999988876553                             0              


Q ss_pred             ------------------ee-cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ------------------FF-KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ------------------~~-~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                        .+ .....++++++||.++.+|+++.+||+..++++.|+.+++..+++.++.+
T Consensus       129 ~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~  199 (322)
T 3eie_A          129 GESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGD  199 (322)
T ss_dssp             ---CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhcc
Confidence                              00 23467899999999999999999999999999999999999999987653

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.71  E-value=1.9e-17  Score=110.98  Aligned_cols=89  Identities=31%  Similarity=0.490  Sum_probs=72.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------e--------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------I--------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------~--------   50 (105)
                      +..+++++|+||||||||||++++|..++..++.++.                                  +        
T Consensus        41 l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~  120 (274)
T 2x8a_A           41 LVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRS  120 (274)
T ss_dssp             CCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSSTTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---
T ss_pred             CCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhhhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccC
Confidence            4456679999999999999999999998875543321                                  0        


Q ss_pred             ----------------ee---cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ----------------FF---KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ----------------~~---~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                      .+   .....+++++++|.++.+|+++++  ||+..++++.|+.+++.+|++.+++
T Consensus       121 ~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~  192 (274)
T 2x8a_A          121 DRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITK  192 (274)
T ss_dssp             ------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTT
T ss_pred             CCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHh
Confidence                            01   122357889999999999999998  9999999999999999999998764

>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=99.71  E-value=4.7e-17  Score=110.08  Aligned_cols=90  Identities=30%  Similarity=0.435  Sum_probs=75.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      +.++++++|+||||||||++|+++|.+++.+++.++.                             +             
T Consensus        46 ~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~  125 (301)
T 3cf0_A           46 MTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG  125 (301)
T ss_dssp             CCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHT
T ss_pred             CCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccC
Confidence            4567899999999999999999999999988765542                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....+++++++||+++.+|+++++  ||+..++++.|+.+++..+++.++++
T Consensus       126 ~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~  201 (301)
T 3cf0_A          126 GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK  201 (301)
T ss_dssp             TTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHcc
Confidence                                  01123468999999999999999998  99999999999999999999887753

>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=99.68  E-value=1.5e-16  Score=109.97  Aligned_cols=89  Identities=31%  Similarity=0.436  Sum_probs=74.3

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e--------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I--------------   50 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~--------------   50 (105)
                      .++++++|+||||||||++|+++|.+++.+++.+..                             +              
T Consensus        82 ~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~  161 (355)
T 2qp9_X           82 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGE  161 (355)
T ss_dssp             CCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC----
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCC
Confidence            346789999999999999999999999988876543                             0              


Q ss_pred             ---------------ee----cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ---------------FF----KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ---------------~~----~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                     .+    .....++++++||.++.+|+++++||+..++++.|+.+++..+++.++..
T Consensus       162 ~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~  232 (355)
T 2qp9_X          162 GESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGD  232 (355)
T ss_dssp             --CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhh
Confidence                           00    12457899999999999999999999999999999999999999887643

>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=99.68  E-value=2.4e-16  Score=103.84  Aligned_cols=89  Identities=27%  Similarity=0.431  Sum_probs=74.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e------ee------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I------FF------   52 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~------~~------   52 (105)
                      ..+++++|+||||+|||++|+++|++++.+++.+..                             +      .+      
T Consensus        37 ~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~  116 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRST  116 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTHHHHHHHHHHHHHHHTCSEEEEEECC---------
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccc
Confidence            457789999999999999999999999988765432                             0      00      


Q ss_pred             ------------------------cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          53 ------------------------KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        53 ------------------------~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                              .....+++++++|.++.+|+++++  ||+..+.++.|+.+++..+++.++.+
T Consensus       117 ~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~  192 (262)
T 2qz4_A          117 TMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKS  192 (262)
T ss_dssp             ----------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHH
T ss_pred             cccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHh
Confidence                                    112467899999999999999998  99999999999999999999988765

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.67  E-value=2.5e-16  Score=105.13  Aligned_cols=89  Identities=30%  Similarity=0.347  Sum_probs=75.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e--------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I--------------   50 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~--------------   50 (105)
                      ..+++++|+||||+|||++++++|+.++.++..+..                             +              
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~  128 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTD  128 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCCSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSS
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHhccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCcc
Confidence            567889999999999999999999999988765443                             0              


Q ss_pred             ---------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ---------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ---------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           ......++.++++||.++.+++++++  ||+..+.++.|+.+++..+++.....
T Consensus       129 ~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~  203 (285)
T 3h4m_A          129 ALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRK  203 (285)
T ss_dssp             SCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             ccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhc
Confidence                                 01223578899999999999999998  99999999999999999999887653

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.67  E-value=5.7e-16  Score=102.26  Aligned_cols=88  Identities=31%  Similarity=0.499  Sum_probs=72.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------ee--------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------IF--------------   51 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~~--------------   51 (105)
                      .+++++|+|||||||||+++++++.++.+++.++.                             +.              
T Consensus        44 ~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~  123 (257)
T 1lv7_A           44 IPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAG  123 (257)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTT
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCC
Confidence            46789999999999999999999999877765442                             00              


Q ss_pred             ---------------------ecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          52 ---------------------FKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        52 ---------------------~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           +....+++++++||.++.+|+++.+  ||+..+.++.|+.+++.++++.+++.
T Consensus       124 ~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~  197 (257)
T 1lv7_A          124 LGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR  197 (257)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             cCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhc
Confidence                                 0123468899999999999999988  99999999999999999999887643

>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=99.66  E-value=3.6e-16  Score=110.83  Aligned_cols=88  Identities=31%  Similarity=0.426  Sum_probs=73.3

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh-CCCccccce-----------------------------e-------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL-SIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~-~~~~~~~~~-----------------------------~-------------   50 (105)
                      .++++++|+||||||||++|+++|.++ +.+++.+..                             +             
T Consensus       165 ~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~  244 (444)
T 2zan_A          165 TPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS  244 (444)
T ss_dssp             CCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC---------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSS
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCC
Confidence            356889999999999999999999999 666654432                             0             


Q ss_pred             ----------------ee----cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ----------------FF----KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ----------------~~----~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                      .+    ....+++++++||.++.+|+++++||+..++++.|+.+++..+++.++.
T Consensus       245 ~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~  315 (444)
T 2zan_A          245 ENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLG  315 (444)
T ss_dssp             CCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHT
T ss_pred             CccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHh
Confidence                            00    0245689999999999999999999999999999999999999988764

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.65  E-value=8.7e-16  Score=103.08  Aligned_cols=88  Identities=27%  Similarity=0.430  Sum_probs=72.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------eee-------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------IFF-------------   52 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~~~-------------   52 (105)
                      ++++++|+||||||||++|++++++++.++..+..                             +.+             
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~  132 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSS  132 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC---
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhcccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccC
Confidence            56899999999999999999999999987765442                             000             


Q ss_pred             ----------------c------ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          53 ----------------K------KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        53 ----------------~------~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                      .      ....++++++||.++.+++++.+||+..++++.|+.+++..++.+++.+
T Consensus       133 ~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~  204 (297)
T 3b9p_A          133 EHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQK  204 (297)
T ss_dssp             --CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGG
T ss_pred             cchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHh
Confidence                            0      1145889999999999999999999999999999999999999887653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.65  E-value=8.3e-16  Score=107.07  Aligned_cols=88  Identities=31%  Similarity=0.429  Sum_probs=73.2

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------eee------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------IFF------------   52 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~~~------------   52 (105)
                      ..+++++|+||||+|||++|+++|.+.+.+++.+..                             +.+            
T Consensus       146 ~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~  225 (389)
T 3vfd_A          146 APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERRE  225 (389)
T ss_dssp             CCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-------CHHHHHHHHHHHHHSSSEEEEEETGGGGC-----
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhccccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCC
Confidence            346799999999999999999999999998876553                             000            


Q ss_pred             ----------------------cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          53 ----------------------KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        53 ----------------------~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                            .....++++++||.++.++.++++||+..++++.|+.+++..++..++.
T Consensus       226 ~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~  296 (389)
T 3vfd_A          226 GEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLC  296 (389)
T ss_dssp             ---CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHT
T ss_pred             ccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHH
Confidence                                  0134688999999999999999999999999999999999999987764

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.64  E-value=4.7e-16  Score=104.97  Aligned_cols=87  Identities=20%  Similarity=0.277  Sum_probs=68.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------ee--------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------IF--------   51 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------~~--------   51 (105)
                      ...+++++|+||||||||++|+++|++++.+++.++.                                 +.        
T Consensus        33 ~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~  112 (293)
T 3t15_A           33 IKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGA  112 (293)
T ss_dssp             CCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC---
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhhhc
Confidence            3456789999999999999999999999998876653                                 00        


Q ss_pred             -----------------------e--------------cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHH
Q psy4924          52 -----------------------F--------------KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAI   92 (105)
Q Consensus        52 -----------------------~--------------~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~   92 (105)
                                             +              ....++++++|||.++.+|+++++  ||+..++  .|+.+++
T Consensus       113 ~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~--~P~~~~r  190 (293)
T 3t15_A          113 GRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW--APTREDR  190 (293)
T ss_dssp             -----------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE--CCCHHHH
T ss_pred             CCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe--CcCHHHH
Confidence                                   0              022468899999999999999986  8887776  5799999


Q ss_pred             HHHHHHHHH
Q psy4924          93 FNIFSSCVE  101 (105)
Q Consensus        93 ~~i~~~~~~  101 (105)
                      .+|++.++.
T Consensus       191 ~~Il~~~~~  199 (293)
T 3t15_A          191 IGVCTGIFR  199 (293)
T ss_dssp             HHHHHHHHG
T ss_pred             HHHHHHhcc
Confidence            999987764

>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=99.64  E-value=1.8e-15  Score=104.52  Aligned_cols=88  Identities=31%  Similarity=0.401  Sum_probs=74.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------ee-------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------IF-------------   51 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~~-------------   51 (105)
                      ..+++++|+||||||||++|+++|.+++.+++.+..                             +.             
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~  194 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGD  194 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSSTTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC---
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCC
Confidence            457789999999999999999999999988765543                             00             


Q ss_pred             ----------------e-----cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          52 ----------------F-----KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        52 ----------------~-----~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                      +     .....++++++||.++.+++++.+||+..++++.|+.+++..++...+.
T Consensus       195 ~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~  265 (357)
T 3d8b_A          195 GEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMS  265 (357)
T ss_dssp             ---CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHh
Confidence                            0     1235788999999999999999999999999999999999999887764

>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=99.63  E-value=1.1e-15  Score=109.24  Aligned_cols=89  Identities=28%  Similarity=0.436  Sum_probs=74.3

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------ee-------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------IF-------------   51 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~~-------------   51 (105)
                      ..+++++|+||||||||++++++|.+.+.+++.++.                             +.             
T Consensus        47 ~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~  126 (476)
T 2ce7_A           47 RMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGA  126 (476)
T ss_dssp             CCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhccc
Confidence            346789999999999999999999999998876543                             00             


Q ss_pred             ----------------------ecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          52 ----------------------FKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        52 ----------------------~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            +....+++++++||+++.+|+++++  ||+..+.++.|+.+++..|++.++++
T Consensus       127 ~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~  201 (476)
T 2ce7_A          127 GLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRN  201 (476)
T ss_dssp             ------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             ccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHh
Confidence                                  0123568999999999999999987  99999999999999999999877653

>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=99.60  E-value=2.7e-15  Score=98.87  Aligned_cols=88  Identities=30%  Similarity=0.403  Sum_probs=70.1

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------e-ee------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------I-FF------   52 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------~-~~------   52 (105)
                      ..+++++|+|||||||||++++++..++.+++.++.                                  + .+      
T Consensus        47 ~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~  126 (254)
T 1ixz_A           47 RIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS  126 (254)
T ss_dssp             CCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC----
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHHhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCc
Confidence            345669999999999999999999998766554332                                  0 00      


Q ss_pred             -----------------------cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          53 -----------------------KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        53 -----------------------~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                             .....+++++++|.++.+|+++++  ||+..+.++.|+.+++.++++.+.+
T Consensus       127 ~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~  200 (254)
T 1ixz_A          127 GVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR  200 (254)
T ss_dssp             -----CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHT
T ss_pred             cccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHc
Confidence                                   112346888999999999999998  8999999999999999999987654

>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=99.59  E-value=3.1e-15  Score=107.26  Aligned_cols=90  Identities=31%  Similarity=0.436  Sum_probs=75.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      ...+.+++|+||||||||++|++++++.+.+++.+..                             +             
T Consensus       235 ~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~  314 (489)
T 3hu3_A          235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE  314 (489)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTT
T ss_pred             CCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhcchhHHHHHHHHHHHHhcCCcEEEecchhhhccccc
Confidence            3557789999999999999999999999988876653                             0             


Q ss_pred             -------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 -------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 -------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                         .......++++++||+++.+|+++.+  ||+..+.++.|+.+++..++..+.++
T Consensus       315 ~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~  387 (489)
T 3hu3_A          315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN  387 (489)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTT
T ss_pred             cccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhc
Confidence                               11233578999999999999999988  89999999999999999999887653

>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=99.57  E-value=1.2e-15  Score=101.01  Aligned_cols=89  Identities=29%  Similarity=0.438  Sum_probs=72.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------eee------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------IFF------------   52 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~~~------------   52 (105)
                      ..+++++|+||||||||++|+++|++++.+++.+..                             +.+            
T Consensus        42 ~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~  121 (268)
T 2r62_A           42 KIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAA  121 (268)
T ss_dssp             CCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccc
Confidence            346679999999999999999999999988766542                             000            


Q ss_pred             ---------------------c----ccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          53 ---------------------K----KYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        53 ---------------------~----~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           .    ....++++++||.++.+|+++++  ||+..+.++.|+.+++..+++.++++
T Consensus       122 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~  198 (268)
T 2r62_A          122 GGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKG  198 (268)
T ss_dssp             ------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSS
T ss_pred             cccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhc
Confidence                                 0    11237899999999999999998  89999999999999999999877643

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.57  E-value=1.2e-14  Score=97.10  Aligned_cols=87  Identities=30%  Similarity=0.408  Sum_probs=69.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------e-ee-------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------I-FF-------   52 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------~-~~-------   52 (105)
                      .+++++|+|||||||||++++++..++.+++.++.                                  + .+       
T Consensus        72 ~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~  151 (278)
T 1iy2_A           72 IPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSG  151 (278)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC----
T ss_pred             CCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccc
Confidence            35569999999999999999999998766554331                                  0 00       


Q ss_pred             ----------------------cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          53 ----------------------KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        53 ----------------------~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                            .....+++++++|.++.+|+++++  ||+..+.++.|+.+++.++++.+.+
T Consensus       152 ~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~  224 (278)
T 1iy2_A          152 VGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR  224 (278)
T ss_dssp             ----CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT
T ss_pred             cCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHc
Confidence                                  111236888999999999999987  8999999999999999999987654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.55  E-value=7.8e-15  Score=105.37  Aligned_cols=88  Identities=30%  Similarity=0.403  Sum_probs=71.2

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------e-ee------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------I-FF------   52 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------~-~~------   52 (105)
                      ..+++++|+||||||||||++++|.+.+.+++.++.                                  + .+      
T Consensus        62 ~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~  141 (499)
T 2dhr_A           62 RIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS  141 (499)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSS
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhcc
Confidence            346679999999999999999999999877765442                                  0 00      


Q ss_pred             -----------------------cccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          53 -----------------------KKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        53 -----------------------~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                             .....+++++++|.++.+|+++++  ||+..+.++.|+.+++.+|++.+.+
T Consensus       142 ~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~  215 (499)
T 2dhr_A          142 GVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR  215 (499)
T ss_dssp             STTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS
T ss_pred             CcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh
Confidence                                   112346889999999999999988  8999999999999999999987653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.50  E-value=1.7e-13  Score=93.32  Aligned_cols=87  Identities=20%  Similarity=0.371  Sum_probs=71.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------e------------------eecc--
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------I------------------FFKK--   54 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------~------------------~~~~--   54 (105)
                      ...++|+||||+|||++|++++...+.++..+..                     +                  .++.  
T Consensus        55 ~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~  134 (338)
T 3pfi_A           55 LDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSGDLAAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYR  134 (338)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSHHHHHHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSC
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccchhHHHHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhcc
Confidence            4579999999999999999999999988765543                     0                  0111  


Q ss_pred             -----------------cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          55 -----------------YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        55 -----------------~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                       .+++.++++||....+++++.+||+..+.++.|+.+++..++.+...+
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~  199 (338)
T 3pfi_A          135 LDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALK  199 (338)
T ss_dssp             C---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             chhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHh
Confidence                             124788999999999999999999999999999999999998877653

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.49  E-value=1.6e-13  Score=93.36  Aligned_cols=87  Identities=20%  Similarity=0.265  Sum_probs=67.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------e-----------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------I-----------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------~-----------   50 (105)
                      .+.+++|+||||+|||++++++++.++.++..+..                                 +           
T Consensus        45 ~~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~g~~~~~~~~~~~~~~~g~l~~~vl~iDEi~~~~~~  124 (331)
T 2r44_A           45 TGGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLIGTMIYNQHKGNFEVKKGPVFSNFILADEVNRSPAK  124 (331)
T ss_dssp             HTCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHHEEEEEETTTTEEEEEECTTCSSEEEEETGGGSCHH
T ss_pred             cCCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcCCceeecCCCCceEeccCcccccEEEEEccccCCHH
Confidence            46789999999999999999999998876543221                                 0           


Q ss_pred             -------------------eecccCCEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 -------------------FFKKYPNVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 -------------------~~~~~~~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                         .......+.+++++|...     .+++++++||++.+.++.|+.+++..++++...
T Consensus       125 ~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~  199 (331)
T 2r44_A          125 VQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEGTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSN  199 (331)
T ss_dssp             HHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSCCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccCcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccc
Confidence                               111234567788888543     389999999999999999999999999887653

>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=99.47  E-value=2.4e-13  Score=98.46  Aligned_cols=85  Identities=26%  Similarity=0.351  Sum_probs=68.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------e-------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------I-------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------~-------   50 (105)
                      ++..++|+|||||||||++++++..++.+++.+..                                     +       
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~~~ig~~~~~~~~~~~~a~~~~~vl~lDEid~  186 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKAGKLNPVFLLDEIDK  186 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC--------------------CHHHHHHTTCSSSEEEEEEESSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHHHHhccCchHHHHHHHHhhccCCEEEEhhhhh
Confidence            47789999999999999999999999876654322                                     0       


Q ss_pred             ---------------eecc----------------cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          51 ---------------FFKK----------------YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        51 ---------------~~~~----------------~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                                     .++.                ...+++++|+|.++.+++++++|++ .+.++.|+.+++..++.++
T Consensus       187 l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~~l~~aL~~R~~-vi~~~~~~~~e~~~Il~~~  265 (543)
T 3m6a_A          187 MSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLATIPGPLRDRME-IINIAGYTEIEKLEIVKDH  265 (543)
T ss_dssp             CC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTTTSCHHHHHHEE-EEECCCCCHHHHHHHHHHT
T ss_pred             hhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccccCCHHHHhhcc-eeeeCCCCHHHHHHHHHHH
Confidence                           0000                1457899999999999999999997 5789999999999998887


Q ss_pred             H
Q psy4924         100 V  100 (105)
Q Consensus       100 ~  100 (105)
                      +
T Consensus       266 l  266 (543)
T 3m6a_A          266 L  266 (543)
T ss_dssp             H
T ss_pred             H
Confidence            6

>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=99.35  E-value=4.2e-12  Score=85.76  Aligned_cols=87  Identities=22%  Similarity=0.385  Sum_probs=69.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------e------------------eec-
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------I------------------FFK-   53 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------~------------------~~~-   53 (105)
                      .+..++|+||+|+|||++|++++..++.++.....                      +                  .++ 
T Consensus        37 ~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~  116 (324)
T 1hqc_A           37 PLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMED  116 (324)
T ss_dssp             CCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSHHHHHHHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCChHHHHHHHHHhccCCCEEEEECCcccccchHHHHHHHHHh
Confidence            34689999999999999999999999887643321                      0                  000 


Q ss_pred             ------------------ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          54 ------------------KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        54 ------------------~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                        ..+++.++++||....++.++.+|++..+.++.|+.+++..++.+...
T Consensus       117 ~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~  182 (324)
T 1hqc_A          117 FVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDAR  182 (324)
T ss_dssp             SEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHH
T ss_pred             hhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHH
Confidence                              113567899999999999999999988899999999999888887764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.34  E-value=1.2e-12  Score=88.03  Aligned_cols=88  Identities=18%  Similarity=0.241  Sum_probs=64.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC-------Cccccce--------------------------ee----------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI-------RLQTPQA--------------------------IF----------   51 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~-------~~~~~~~--------------------------~~----------   51 (105)
                      .+.+++|+||||+|||++|+++|+.++.       ++..++.                          +.          
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~  145 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRP  145 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhcCCCEEEEEChhhhccC
Confidence            3457999999999999999999998843       3322211                          00          


Q ss_pred             -----------------e-cccCCEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          52 -----------------F-KKYPNVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        52 -----------------~-~~~~~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                       + ....++.+++++|...     .+++++.+||+..+.++.|+.+++..++..++.+
T Consensus       146 ~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          146 DNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             C---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             CCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHH
Confidence                             0 1123567788877542     2457788999999999999999999999888764

>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=99.34  E-value=5.3e-12  Score=84.55  Aligned_cols=84  Identities=20%  Similarity=0.290  Sum_probs=64.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------e--------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------I--------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------~--------   50 (105)
                      .+..++|+||||+|||++|+++++.++.+++.++.                                    +        
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l  128 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKI  128 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCccHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhc
Confidence            36789999999999999999999999876543211                                    0        


Q ss_pred             e----------------------ec-----------ccCCEEEEEee----CCCCCCCHHhhcccceEEEeCCCCHHHHH
Q psy4924          51 F----------------------FK-----------KYPNVLIFTTS----NLTGAIDLAFLDRADIKQYIGFPSAAAIF   93 (105)
Q Consensus        51 ~----------------------~~-----------~~~~~~~~~~~----n~~~~~d~~~~~r~~~~~~~~~~~~~~~~   93 (105)
                      .                      ++           ....+.+++++    +.+..+++++.+||+..+.++.|+.+++.
T Consensus       129 ~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~  208 (310)
T 1ofh_A          129 CKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFE  208 (310)
T ss_dssp             SCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHH
T ss_pred             CccccccccchhHHHHHHHHHHHhcCCeEecccccccCCcEEEEEcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHH
Confidence            0                      00           11256677774    45678899999999988999999999998


Q ss_pred             HHHHH
Q psy4924          94 NIFSS   98 (105)
Q Consensus        94 ~i~~~   98 (105)
                      .++++
T Consensus       209 ~il~~  213 (310)
T 1ofh_A          209 RILTE  213 (310)
T ss_dssp             HHHHS
T ss_pred             HHHHh
Confidence            88873

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.33  E-value=6e-12  Score=89.71  Aligned_cols=86  Identities=22%  Similarity=0.303  Sum_probs=65.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh----------CCCccccce--------------------------eee------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL----------SIRLQTPQA--------------------------IFF------   52 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~----------~~~~~~~~~--------------------------~~~------   52 (105)
                      ...+++|+||||+|||++++++|..+          +.+++.++.                          +.+      
T Consensus       200 ~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~g~~e~~~~~~~~~~~~~~~~iLfiD~~~~a  279 (468)
T 3pxg_A          200 TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKKVMDEIRQAGNIILFIDAAIDA  279 (468)
T ss_dssp             SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTTHHHHHHHHHTCCCCEEEECC----
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCccccchHHHHHHHHHHHHHhcCCeEEEEeCchhH
Confidence            45689999999999999999999997          444433321                          011      


Q ss_pred             -------cccCCEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          53 -------KKYPNVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        53 -------~~~~~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                             -....+.+|++||...     .+|+++.+||.. +.++.|+.+++..++.....
T Consensus       280 ~~~L~~~L~~g~v~vI~at~~~e~~~~~~~~~al~~Rf~~-i~v~~p~~e~~~~iL~~~~~  339 (468)
T 3pxg_A          280 SNILKPSLARGELQCIGATTLDEYRKYIEKDAALERRFQP-IQVDQPSVDESIQILQGLRD  339 (468)
T ss_dssp             ----CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHHSEEE-EECCCCCHHHHHHHHHHTTT
T ss_pred             HHHHHHhhcCCCEEEEecCCHHHHHHHhhcCHHHHHhCcc-ceeCCCCHHHHHHHHHHHHH
Confidence                   1224577889998876     689999999985 89999999999999987654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.33  E-value=3.7e-12  Score=90.47  Aligned_cols=84  Identities=24%  Similarity=0.405  Sum_probs=65.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce--------------------------e------------------ee
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA--------------------------I------------------FF   52 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~--------------------------~------------------~~   52 (105)
                      ..++|+||||+||||+|+++++.++.++..+..                          +                  .+
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~l  130 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYANADVERISAVTSGVKEIREAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHI  130 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTCCHHHHHHHHHHHHHHHHTTCCEEEEEETTTCC------CCHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHH
Confidence            469999999999999999999999988776554                          0                  12


Q ss_pred             cccCCEEEEEee--CCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          53 KKYPNVLIFTTS--NLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        53 ~~~~~~~~~~~~--n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      +. ..+.++++|  |....++.++.+|+. .+.+..++.+++..++.+.+.+
T Consensus       131 e~-~~v~lI~att~n~~~~l~~aL~sR~~-v~~l~~l~~edi~~il~~~l~~  180 (447)
T 3pvs_A          131 ED-GTITFIGATTENPSFELNSALLSRAR-VYLLKSLSTEDIEQVLTQAMED  180 (447)
T ss_dssp             HT-TSCEEEEEESSCGGGSSCHHHHTTEE-EEECCCCCHHHHHHHHHHHHHC
T ss_pred             hc-CceEEEecCCCCcccccCHHHhCcee-EEeeCCcCHHHHHHHHHHHHHH
Confidence            22 345566665  444688999999997 4557888899999999988764

>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=99.32  E-value=7.2e-13  Score=94.00  Aligned_cols=80  Identities=19%  Similarity=0.203  Sum_probs=31.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeee------------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFF------------------------------------------   52 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~------------------------------------------   52 (105)
                      ++++++|+||||+|||++++++|..++.+++.++.-.+                                          
T Consensus        49 ~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~d~e~~lr~lf~~a~~~~~~De~d~~~~~~~~~~e  128 (444)
T 1g41_A           49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAMKLVRQQEIAKNRARAEDVAE  128 (444)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCCCTHHHHHHHHHHHHHHHHHHHHHSCC--------
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeeccHHHHHHHHHHHHHhcchhhhhhhhhccchhhHH
Confidence            45789999999999999999999999999876553100                                          


Q ss_pred             --------------cccCCEEEEEe-eCCCCCCCHHhhc--ccceEEEeCCCCHH-HHHHHH
Q psy4924          53 --------------KKYPNVLIFTT-SNLTGAIDLAFLD--RADIKQYIGFPSAA-AIFNIF   96 (105)
Q Consensus        53 --------------~~~~~~~~~~~-~n~~~~~d~~~~~--r~~~~~~~~~~~~~-~~~~i~   96 (105)
                                    .....  +.++ ||+++.+|+++.+  |||..++++.|+.. .+++++
T Consensus       129 ~rvl~~LL~~~dg~~~~~~--v~a~~TN~~~~ld~aL~rggr~D~~i~i~lP~~~~~~~ei~  188 (444)
T 1g41_A          129 ERILDALLPPAKNQWGEVE--NHDSHSSTRQAFRKKLREGQLDDKEIEIDVSAGVSMGVEIM  188 (444)
T ss_dssp             --------------------------------------------------------------
T ss_pred             HHHHHHHHHHhhccccccc--cccccccCHHHHHHHHHcCCCcceEEEEcCCCCccchhhhh
Confidence                          00011  1333 8999999999987  99999999999776 455554

>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=99.32  E-value=1e-11  Score=85.03  Aligned_cols=85  Identities=22%  Similarity=0.399  Sum_probs=65.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------e----------------eeccc--
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------I----------------FFKKY--   55 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------~----------------~~~~~--   55 (105)
                      ..++|+||||+|||||++++|+.+++++.....                       +                .+...  
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~~~~l~~~~~~~~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~  131 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQI  131 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcCHHHHHHHHHHccCCCEEEEcchhhcCHHHHHHHHHHHHhccc
Confidence            679999999999999999999999665431110                       0                00000  


Q ss_pred             -----------------CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 -----------------PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 -----------------~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                       +.+.++.+++.+..++..+.+|+.+...++.++.+++..++++..+
T Consensus       132 ~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~  194 (334)
T 1in4_A          132 DIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAAS  194 (334)
T ss_dssp             CC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ceeeccCcccccccccCCCeEEEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHH
Confidence                             1345667888889999999999999999999999999999988764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.31  E-value=4.4e-12  Score=85.21  Aligned_cols=47  Identities=28%  Similarity=0.233  Sum_probs=39.1

Q ss_pred             CEEEEEeeCC--------------------------CCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          57 NVLIFTTSNL--------------------------TGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        57 ~~~~~~~~n~--------------------------~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      +.++++++|.                          ...+++++++|++..+.+..|+.+++..++..++.++
T Consensus       160 ~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~  232 (311)
T 4fcw_A          160 NTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYL  232 (311)
T ss_dssp             TEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHH
T ss_pred             CcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHH
Confidence            6678999998                          3467888899999998888899999999998877654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.29  E-value=1.2e-11  Score=92.29  Aligned_cols=87  Identities=22%  Similarity=0.292  Sum_probs=66.3

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh----------CCCccccce--------------------------ee------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL----------SIRLQTPQA--------------------------IF------   51 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~----------~~~~~~~~~--------------------------~~------   51 (105)
                      ....+++|+||||+|||++|+++|..+          +.+++.++.                          +.      
T Consensus       199 ~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD~~~~  278 (758)
T 3pxi_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKKVMDEIRQAGNIILFIDAAID  278 (758)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTTHHHHHHHHHTCCCCEEEECC---
T ss_pred             CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccchHHHHHHHHHHHHHhcCCEEEEEcCchh
Confidence            345689999999999999999999997          554443221                          01      


Q ss_pred             -------ecccCCEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          52 -------FKKYPNVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        52 -------~~~~~~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                             .-....+.++++||...     .+|+++.+||. .+.++.|+.+++..++.....
T Consensus       279 ~~~~L~~~l~~~~v~~I~at~~~~~~~~~~~d~al~rRf~-~i~v~~p~~~~~~~il~~~~~  339 (758)
T 3pxi_A          279 ASNILKPSLARGELQCIGATTLDEYRKYIEKDAALERRFQ-PIQVDQPSVDESIQILQGLRD  339 (758)
T ss_dssp             -----CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHHSEE-EEECCCCCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhcCCEEEEeCCChHHHHHHhhccHHHHhhCc-EEEeCCCCHHHHHHHHHHHHH
Confidence                   11224577889998877     78999999995 589999999999999986554

>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=99.29  E-value=2e-12  Score=85.92  Aligned_cols=84  Identities=19%  Similarity=0.271  Sum_probs=61.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------e--------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------I--------------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------~--------------   50 (105)
                      .+..++|+||||+|||++|++++...+.+++.+..                              +              
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~  142 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPI  142 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCC
Confidence            45689999999999999999999999988765421                              0              


Q ss_pred             --------------eec----ccCCEEEEEeeCCCCCCCH-HhhcccceEEEeCCCCH-HHHHHHHHH
Q psy4924          51 --------------FFK----KYPNVLIFTTSNLTGAIDL-AFLDRADIKQYIGFPSA-AAIFNIFSS   98 (105)
Q Consensus        51 --------------~~~----~~~~~~~~~~~n~~~~~d~-~~~~r~~~~~~~~~~~~-~~~~~i~~~   98 (105)
                                    .+.    ....++++++||.++.++. .+.+||...+.++.+.. +++..++.+
T Consensus       143 ~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~  210 (272)
T 1d2n_A          143 GPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALEL  210 (272)
T ss_dssp             TTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHh
Confidence                          001    2235778999999877776 56679988887765544 566665543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.27  E-value=2.6e-12  Score=80.04  Aligned_cols=81  Identities=22%  Similarity=0.307  Sum_probs=57.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh----------CCCccccce--------------------------------e--
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL----------SIRLQTPQA--------------------------------I--   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~----------~~~~~~~~~--------------------------------~--   50 (105)
                      .+..++|+||+|+|||++++.+++.+          +.++...+.                                +  
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~i  121 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFI  121 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEE
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEE
Confidence            35789999999999999999999987          232222110                                0  


Q ss_pred             ----e-------------------ecccCCEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHH
Q psy4924          51 ----F-------------------FKKYPNVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIF   96 (105)
Q Consensus        51 ----~-------------------~~~~~~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~   96 (105)
                          .                   +....++.++++++.+.     .+++++.+||+ .+.++.|+.+++.+++
T Consensus       122 De~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          122 DELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQYIEKDAALERRFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             ETGGGGTT------CCCCHHHHHHHHHTTSCCEEEEECHHHHHHHTTTCHHHHTTEE-EEECCCCCHHHHHTTC
T ss_pred             eCHHHHhccCcccchHHHHHHHHHhhccCCeEEEEeCCHHHHHHHHhcCHHHHHHhc-eeecCCCCHHHHHHHh
Confidence                0                   01123456777777664     68899999998 5789999988877654

>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=99.26  E-value=1.9e-11  Score=82.91  Aligned_cols=85  Identities=19%  Similarity=0.294  Sum_probs=61.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh---CCCccccce----------------------------e--------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL---SIRLQTPQA----------------------------I--------------   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~---~~~~~~~~~----------------------------~--------------   50 (105)
                      +.+++|+||||+||||+++++++.+   +.++..++.                            +              
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~iDEi~~l~~~~~~  116 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSGKERT  116 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTTCHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHcCcHHHHHHHhcCCCEEEEcCcccccCChHH
Confidence            4689999999999999999999988   555544332                            0              


Q ss_pred             ------e---ecccCCEEEEEeeCCCC---CCCHHhhcccc--eEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ------F---FKKYPNVLIFTTSNLTG---AIDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ------~---~~~~~~~~~~~~~n~~~---~~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                            .   .......+++++++.+.   .+++++.+|+.  ..+.++. +.+++..++.+.+.
T Consensus       117 ~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~  180 (324)
T 1l8q_A          117 QIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLK  180 (324)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHHHHHH
Confidence                  0   11223455566665554   68899999986  6677777 88999998888765

>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=99.25  E-value=3.4e-11  Score=82.00  Aligned_cols=42  Identities=12%  Similarity=0.201  Sum_probs=34.6

Q ss_pred             CEEEEEeeCCCC-CCCHHhhcccceEEEeCCC-CHHHHHHHHHH
Q psy4924          57 NVLIFTTSNLTG-AIDLAFLDRADIKQYIGFP-SAAAIFNIFSS   98 (105)
Q Consensus        57 ~~~~~~~~n~~~-~~d~~~~~r~~~~~~~~~~-~~~~~~~i~~~   98 (105)
                      ++.+++++|... .+++++++||+..+.++.| +.+.+..++++
T Consensus       187 ~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~  230 (350)
T 1g8p_A          187 RFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRR  230 (350)
T ss_dssp             CEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHH
Confidence            688899999744 8999999999998999999 56666677765

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.24  E-value=5.7e-11  Score=75.43  Aligned_cols=84  Identities=23%  Similarity=0.192  Sum_probs=61.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC-----ccccce-----------------------------e------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR-----LQTPQA-----------------------------I------------   50 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~-----~~~~~~-----------------------------~------------   50 (105)
                      ..++|+||+|+|||++++.+++.+...     +..+..                             +            
T Consensus        39 ~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~  118 (226)
T 2chg_A           39 PHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADA  118 (226)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHhcccCCCccCceEEEEeChhhcCHHH
Confidence            359999999999999999999876322     111110                             0            


Q ss_pred             ------ee-cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ------FF-KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ------~~-~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                            .+ .......++.++|.+..++.++.+|+. .+.++.++.++...++.+...
T Consensus       119 ~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~  175 (226)
T 2chg_A          119 QAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA-VFRFKPVPKEAMKKRLLEICE  175 (226)
T ss_dssp             HHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCc-eeecCCCCHHHHHHHHHHHHH
Confidence                  11 123457788888988889999999988 778888888888888877654

>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=99.24  E-value=8e-11  Score=87.81  Aligned_cols=86  Identities=24%  Similarity=0.388  Sum_probs=67.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------------e--------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------------I--------   50 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------------~--------   50 (105)
                      .++|+||||+|||++|++++..++.+++.++.                                       +        
T Consensus       490 ~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~  569 (758)
T 1r6b_X          490 SFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCCCCCcCccccchHHHHHHhCCCcEEEEeCcccc
Confidence            69999999999999999999999866543221                                       0        


Q ss_pred             ----------eec------------ccCCEEEEEeeCCCC-------------------------CCCHHhhcccceEEE
Q psy4924          51 ----------FFK------------KYPNVLIFTTSNLTG-------------------------AIDLAFLDRADIKQY   83 (105)
Q Consensus        51 ----------~~~------------~~~~~~~~~~~n~~~-------------------------~~d~~~~~r~~~~~~   83 (105)
                                .++            ...++++++|+|...                         .+++++++|++..+.
T Consensus       570 ~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~  649 (758)
T 1r6b_X          570 HPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIW  649 (758)
T ss_dssp             CHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEE
T ss_pred             CHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCccee
Confidence                      011            124677999999743                         567888999998999


Q ss_pred             eCCCCHHHHHHHHHHHHHHh
Q psy4924          84 IGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        84 ~~~~~~~~~~~i~~~~~~~l  103 (105)
                      ++.++.+++..|+...+.++
T Consensus       650 ~~~l~~~~~~~i~~~~l~~~  669 (758)
T 1r6b_X          650 FDHLSTDVIHQVVDKFIVEL  669 (758)
T ss_dssp             CCCCCHHHHHHHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHHHHH
Confidence            99999999999998887654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.22  E-value=5.4e-11  Score=81.62  Aligned_cols=36  Identities=25%  Similarity=0.117  Sum_probs=29.8

Q ss_pred             CCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          66 LTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        66 ~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      .+..+++++.+|+.. +.++.|+.+++..++.+.+..
T Consensus       239 ~~~~l~~~l~sR~~~-i~~~~~~~~e~~~il~~~~~~  274 (368)
T 3uk6_A          239 SPHGIPIDLLDRLLI-VSTTPYSEKDTKQILRIRCEE  274 (368)
T ss_dssp             EETTCCHHHHTTEEE-EEECCCCHHHHHHHHHHHHHH
T ss_pred             CcccCCHHHHhhccE-EEecCCCHHHHHHHHHHHHHH
Confidence            467889999999987 688999999999998876643

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.21  E-value=1.2e-10  Score=86.92  Aligned_cols=86  Identities=22%  Similarity=0.380  Sum_probs=63.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh---CCCccccce-------------------------e------------------e
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL---SIRLQTPQA-------------------------I------------------F   51 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~---~~~~~~~~~-------------------------~------------------~   51 (105)
                      .++|+||||+|||++|++++..+   +.+++.++.                         +                  .
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~  602 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTSGGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQV  602 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC---CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccccchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHH
Confidence            69999999999999999999997   333432221                         0                  0


Q ss_pred             ec------------ccCCEEEEEeeCCCCC------------CCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          52 FK------------KYPNVLIFTTSNLTGA------------IDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        52 ~~------------~~~~~~~~~~~n~~~~------------~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      ++            ...++.+++|||....            +.+.++.|++..+.++.++.+++..++...+.++
T Consensus       603 le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~~~  678 (758)
T 3pxi_A          603 LEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSDQL  678 (758)
T ss_dssp             HHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHHHHH
T ss_pred             hccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHHHHH
Confidence            11            2245688999997544            6788999999999999999999999998887654

>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=99.21  E-value=2.1e-11  Score=82.66  Aligned_cols=85  Identities=21%  Similarity=0.304  Sum_probs=63.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------e--------e---------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------I--------F---------   51 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------~--------~---------   51 (105)
                      +..++++||||+|||++++++++.++.++..++.                           +        .         
T Consensus        48 ~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~  127 (324)
T 3u61_B           48 PHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGLAESQRHLR  127 (324)
T ss_dssp             CSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCCHHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHH
T ss_pred             CeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccCHHHHHHHHHHHHhhcccCCCCeEEEEECCcccCcHHHHHHHH
Confidence            3467888889999999999999999877765442                           0        0         


Q ss_pred             --ec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          52 --FK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        52 --~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                        ++ ....+.++.++|.+..+++++.+|+. .+.++.|+.+++..++.....
T Consensus       128 ~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~-~i~~~~~~~~e~~~il~~~~~  179 (324)
T 3u61_B          128 SFMEAYSSNCSIIITANNIDGIIKPLQSRCR-VITFGQPTDEDKIEMMKQMIR  179 (324)
T ss_dssp             HHHHHHGGGCEEEEEESSGGGSCTTHHHHSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCcEEEEEeCCccccCHHHHhhCc-EEEeCCCCHHHHHHHHHHHHH
Confidence              11 11356788899999999999999996 578889988887666555443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.20  E-value=1.5e-11  Score=90.05  Aligned_cols=82  Identities=16%  Similarity=0.175  Sum_probs=59.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------------------   49 (105)
                      +++|+||||+|||++|+++++.++...+....                                                
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A~~gil~IDEid~l~~~~q  408 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAVIDEIDKMRDEDR  408 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSGGGTSSCSEEECHHHHHSSSEECCTTTTCCCSHHH
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeeccccccccccCCeeEecCCCcEEeehhhhCCHhHh
Confidence            79999999999999999999988644332110                                                


Q ss_pred             -----------ee-------ecccCCEEEEEeeCCCC-------------CCCHHhhcccce-EEEeCCCCHHHHHHHHH
Q psy4924          50 -----------IF-------FKKYPNVLIFTTSNLTG-------------AIDLAFLDRADI-KQYIGFPSAAAIFNIFS   97 (105)
Q Consensus        50 -----------~~-------~~~~~~~~~~~~~n~~~-------------~~d~~~~~r~~~-~~~~~~~~~~~~~~i~~   97 (105)
                                 +.       .....++.+++|+|+..             .+++++++|||+ .+..++|+.+ ...+.+
T Consensus       409 ~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~RFDl~~~~~~~~~~e-~~~i~~  487 (595)
T 3f9v_A          409 VAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGEQ-DRELAN  487 (595)
T ss_dssp             HHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSSSGGGCSCCEEECCTTHHH-HHHHHH
T ss_pred             hhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCHHHHhhCeEEEEeCCCCCHH-HHHHHH
Confidence                       01       12234677999999876             889999999985 5556677666 666665


Q ss_pred             HHH
Q psy4924          98 SCV  100 (105)
Q Consensus        98 ~~~  100 (105)
                      +.+
T Consensus       488 ~il  490 (595)
T 3f9v_A          488 YIL  490 (595)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=99.19  E-value=2.8e-12  Score=91.08  Aligned_cols=32  Identities=53%  Similarity=0.802  Sum_probs=27.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC--CCccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS--IRLQT   46 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~--~~~~~   46 (105)
                      ++++++|+||||||||++|+++|++++  .+++.
T Consensus        62 ~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~   95 (456)
T 2c9o_A           62 AGRAVLLAGPPGTGKTALALAIAQELGSKVPFCP   95 (456)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEE
T ss_pred             CCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEE
Confidence            457899999999999999999999998  55443

>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=99.18  E-value=1.6e-10  Score=79.67  Aligned_cols=34  Identities=32%  Similarity=0.541  Sum_probs=30.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ++.+++|+||||||||++|+++|..++.+++.++
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~   83 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLLDVPFTMAD   83 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEec
Confidence            4678999999999999999999999998887654

>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=99.16  E-value=9.2e-11  Score=75.63  Aligned_cols=87  Identities=10%  Similarity=0.041  Sum_probs=58.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC---ccccce-------------------e----------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR---LQTPQA-------------------I----------------------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~---~~~~~~-------------------~----------------------   50 (105)
                      .+..++|+||||+||||++++++..+...   +..+..                   +                      
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~~~~~~~~~~~l~~~l  130 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASISTALLEGLEQFDLICIDDVDAVAGHPLWEEAIFDLY  130 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGSCGGGGTTGGGSSEEEEETGGGGTTCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHHhccCCCEEEEeccccccCCHHHHHHHHHHH
Confidence            47789999999999999999999887632   111110                   0                      


Q ss_pred             -eecccCCEEEEEeeC-CCC---CCCHHhhcccc--eEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 -FFKKYPNVLIFTTSN-LTG---AIDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 -~~~~~~~~~~~~~~n-~~~---~~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                       .........++.+++ .+.   ..+..+.+|+.  ..+.++.|+.+++..++...+.
T Consensus       131 ~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~  188 (242)
T 3bos_A          131 NRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAA  188 (242)
T ss_dssp             HHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHH
T ss_pred             HHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHH
Confidence             001112222344444 332   45577888885  7889999999999888887764

>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=99.14  E-value=7.2e-11  Score=83.63  Aligned_cols=86  Identities=13%  Similarity=0.199  Sum_probs=60.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh-----CCCccccce-----------------------------e-----------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL-----SIRLQTPQA-----------------------------I-----------   50 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~-----~~~~~~~~~-----------------------------~-----------   50 (105)
                      +..++|+||||+|||||++++++.+     +.++..++.                             +           
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~  209 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGK  209 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCC
Confidence            4689999999999999999999988     444432221                             0           


Q ss_pred             ------------eecccCCEEEEEeeCCCCC---CCHHhhcccc--eEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ------------FFKKYPNVLIFTTSNLTGA---IDLAFLDRAD--IKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ------------~~~~~~~~~~~~~~n~~~~---~d~~~~~r~~--~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                  .+......+++.+.+.+..   +++.+.+|+.  ..+.++.|+.+++..++.+...
T Consensus       210 ~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~  277 (440)
T 2z4s_A          210 TGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLE  277 (440)
T ss_dssp             HHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHH
Confidence                        0012223444554444443   7888899886  7778899999999999988764

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.10  E-value=9.8e-10  Score=70.30  Aligned_cols=45  Identities=9%  Similarity=0.127  Sum_probs=36.1

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ..+.++.+++.+..++..+.+|+ ..+.++.++.++...++.+.+.
T Consensus       155 ~~~~~i~~t~~~~~~~~~l~~r~-~~i~l~~l~~~e~~~~l~~~~~  199 (250)
T 1njg_A          155 EHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQIRHQLEHILN  199 (250)
T ss_dssp             TTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             CceEEEEEeCChHhCCHHHHHHh-hhccCCCCCHHHHHHHHHHHHH
Confidence            46778888888888888888886 5677888889998888887664

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.10  E-value=1.4e-10  Score=83.35  Aligned_cols=29  Identities=24%  Similarity=0.438  Sum_probs=25.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+.+++|+||||+|||++|++++..++
T Consensus        38 l~~~~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           38 ALSGESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             HHHTCEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             HhcCCeeEeecCchHHHHHHHHHHHHHHh
Confidence            34578999999999999999999998774

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.07  E-value=2.1e-10  Score=94.28  Aligned_cols=46  Identities=20%  Similarity=0.388  Sum_probs=39.7

Q ss_pred             CEEEEEeeCCCC-----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          57 NVLIFTTSNLTG-----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        57 ~~~~~~~~n~~~-----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      ++.+++++|++.     .+++++++|| ..+.++.|+.+++..|+...+...
T Consensus      1384 ~i~lIaA~Npp~~gGR~~l~~rllRrf-~vi~i~~P~~~~l~~I~~~il~~~ 1434 (2695)
T 4akg_A         1384 RIHIVGACNPPTDPGRIPMSERFTRHA-AILYLGYPSGKSLSQIYEIYYKAI 1434 (2695)
T ss_dssp             SEEEEEEECCTTSTTCCCCCHHHHTTE-EEEECCCCTTTHHHHHHHHHHHHH
T ss_pred             CEEEEEecCCCccCCCccCChhhhhee-eEEEeCCCCHHHHHHHHHHHHHHH
Confidence            478899999984     8999999999 678999999999999998887543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.06  E-value=4.7e-10  Score=76.83  Aligned_cols=48  Identities=13%  Similarity=0.022  Sum_probs=36.9

Q ss_pred             cCCEEEEEeeCCC---CCCCHHhhcccce-EEEeCCCCHHHHHHHHHHHHHH
Q psy4924          55 YPNVLIFTTSNLT---GAIDLAFLDRADI-KQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        55 ~~~~~~~~~~n~~---~~~d~~~~~r~~~-~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      ..++.+++++|.+   ..++..+.+|+.. .+.++.++.+++..++.+.+..
T Consensus       165 ~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~  216 (387)
T 2v1u_A          165 RVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEE  216 (387)
T ss_dssp             ---CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHH
T ss_pred             CceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHh
Confidence            3466788888877   6788888899875 7788888999999999887653

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.05  E-value=6.8e-11  Score=73.45  Aligned_cols=26  Identities=35%  Similarity=0.575  Sum_probs=23.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ....++|+||+|+|||++++.+++.+
T Consensus        42 ~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            36689999999999999999999987

>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=99.04  E-value=5.4e-10  Score=77.29  Aligned_cols=33  Identities=33%  Similarity=0.589  Sum_probs=28.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+..++|+||||+|||++|+++|+.++.+++.+
T Consensus        71 ~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~  103 (376)
T 1um8_A           71 SKSNILLIGPTGSGKTLMAQTLAKHLDIPIAIS  103 (376)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEe
Confidence            356799999999999999999999998776543

>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=99.04  E-value=8.2e-10  Score=74.03  Aligned_cols=83  Identities=23%  Similarity=0.208  Sum_probs=60.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC-----ccccce-----------------------------e-------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR-----LQTPQA-----------------------------I-------------   50 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~-----~~~~~~-----------------------------~-------------   50 (105)
                      .++|+||+|+|||++++++++.+..+     +...+.                             +             
T Consensus        40 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~  119 (319)
T 2chq_A           40 HLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQ  119 (319)
T ss_dssp             CEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHH
T ss_pred             eEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHH
Confidence            59999999999999999999986221     111110                             0             


Q ss_pred             -----eec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 -----FFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 -----~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                           .++ ....+.++.++|.+..+.+++.+|+. .+.+..++.+++..++.+...
T Consensus       120 ~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~  175 (319)
T 2chq_A          120 AALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA-VFRFKPVPKEAMKKRLLEICE  175 (319)
T ss_dssp             HTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCe-EEEecCCCHHHHHHHHHHHHH
Confidence                 112 22457788888988889999999987 677888888888888876654

>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=99.04  E-value=4.9e-10  Score=76.58  Aligned_cols=87  Identities=22%  Similarity=0.273  Sum_probs=57.6

Q ss_pred             ccCCce--EEEEcCCCCCHHHHHHHHHHHhCCCccccc---------------------------------e-eee----
Q psy4924          13 ISWNRV--VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ---------------------------------A-IFF----   52 (105)
Q Consensus        13 ~~~~~~--ill~Gp~GsGKT~l~~~la~~~~~~~~~~~---------------------------------~-~~~----   52 (105)
                      +..++.  ++|+||||+||||+++++|+.+.+......                                 . +.+    
T Consensus        41 i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~  120 (340)
T 1sxj_C           41 VDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEAD  120 (340)
T ss_dssp             HHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCSSSCSCEEEEETTGG
T ss_pred             HhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHHHHHHHHhhcccCCCCceEEEEeCCC
Confidence            344444  999999999999999999998743211000                                 0 000    


Q ss_pred             --------------c-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          53 --------------K-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        53 --------------~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                    + ......++.++|.+..+.+++.+|+. .+.+..++.++....+.+.+
T Consensus       121 ~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~-~~~~~~l~~~~~~~~l~~~~  182 (340)
T 1sxj_C          121 AMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT-RFRFQPLPQEAIERRIANVL  182 (340)
T ss_dssp             GSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhce-eEeccCCCHHHHHHHHHHHH
Confidence                          0 11334566778888889999999987 45566666777766666554

>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=99.03  E-value=6e-10  Score=83.12  Aligned_cols=87  Identities=18%  Similarity=0.208  Sum_probs=62.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC----------CCccccce-------------------------------e---
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS----------IRLQTPQA-------------------------------I---   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~----------~~~~~~~~-------------------------------~---   50 (105)
                      .+.+++|+||||+|||+++++++..+.          ..++..+.                               +   
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~ID  285 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFID  285 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEET
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchHHHHHHHHHHHHHhcCCeEEEEe
Confidence            467899999999999999999999872          22211100                               0   


Q ss_pred             -----------------------eecccCCEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 -----------------------FFKKYPNVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 -----------------------~~~~~~~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                             .+-....+.++++++.+     ...|+++.+||+ .+.++.|+.+++..++......
T Consensus       286 Ei~~l~~~~~~~~~~~~~~~~L~~~l~~~~~~~I~at~~~~~~~~~~~d~aL~~Rf~-~i~v~~p~~~e~~~il~~l~~~  364 (758)
T 1r6b_X          286 EIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRALARRFQ-KIDITEPSIEETVQIINGLKPK  364 (758)
T ss_dssp             TTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCCCCCTTSSGGGEE-EEECCCCCHHHHHHHHHHHHHH
T ss_pred             chHHHhhcCCCCcchHHHHHHHHHHHhCCCeEEEEEeCchHHhhhhhcCHHHHhCce-EEEcCCCCHHHHHHHHHHHHHH
Confidence                                   11122346677887753     356788899998 5899999999999888876643

>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=99.03  E-value=6.2e-10  Score=75.74  Aligned_cols=43  Identities=9%  Similarity=-0.066  Sum_probs=33.5

Q ss_pred             CEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          57 NVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        57 ~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                      ...++.++|.+..+++++.+|+. .+.+..++.+++..++.+..
T Consensus       163 ~~~~il~~~~~~~l~~~l~sR~~-~i~~~~~~~~~~~~~l~~~~  205 (353)
T 1sxj_D          163 VTRFCLICNYVTRIIDPLASQCS-KFRFKALDASNAIDRLRFIS  205 (353)
T ss_dssp             TEEEEEEESCGGGSCHHHHHHSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             CceEEEEeCchhhCcchhhccCc-eEEeCCCCHHHHHHHHHHHH
Confidence            45566778888889999999987 66778888888887777654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.03  E-value=8.9e-10  Score=75.29  Aligned_cols=49  Identities=8%  Similarity=0.007  Sum_probs=36.1

Q ss_pred             cCCEEEEEeeCCCCCCCHH----hhcccc-eEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          55 YPNVLIFTTSNLTGAIDLA----FLDRAD-IKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        55 ~~~~~~~~~~n~~~~~d~~----~~~r~~-~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      ..++.+++.+|..+..+..    +.+|+. ..+.++..+.+++..|+++.++.+
T Consensus       161 ~s~~~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~  214 (318)
T 3te6_A          161 NSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSL  214 (318)
T ss_dssp             SCCEEEEEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEEecCcccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhh
Confidence            3467888888887644432    345886 467778889999999999988764

>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=99.02  E-value=2.6e-10  Score=86.21  Aligned_cols=85  Identities=24%  Similarity=0.373  Sum_probs=61.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh----------CCCccccce--------------------------------ee--
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL----------SIRLQTPQA--------------------------------IF--   51 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~----------~~~~~~~~~--------------------------------~~--   51 (105)
                      ..+++|+||||+|||++++.+|..+          +.+++.++.                                +.  
T Consensus       191 ~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~ID  270 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFID  270 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHHHHHHHHHTTCSSEEEEEC
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence            4579999999999999999999987          444433221                                00  


Q ss_pred             ----e-------------------cccCCEEEEEeeCCCC----CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          52 ----F-------------------KKYPNVLIFTTSNLTG----AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        52 ----~-------------------~~~~~~~~~~~~n~~~----~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                          +                   .....+.++++++.+.    ..|+++.+||+. +.++.|+.+++..++.....
T Consensus       271 Ei~~l~~~~~~~g~~~~~~~L~~~l~~~~i~~I~at~~~~~~~~~~d~aL~rRf~~-i~l~~p~~~e~~~iL~~~~~  346 (854)
T 1qvr_A          271 ELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYREIEKDPALERRFQP-VYVDEPTVEETISILRGLKE  346 (854)
T ss_dssp             CC-------------------HHHHHTTCCCEEEEECHHHHHHHTTCTTTCSCCCC-EEECCCCHHHHHHHHHHHHH
T ss_pred             cHHHHhccCCccchHHHHHHHHHHHhCCCeEEEEecCchHHhhhccCHHHHhCCce-EEeCCCCHHHHHHHHHhhhh
Confidence                0                   0113445677777653    468889999996 78999999999888876654

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.98  E-value=1.9e-09  Score=77.64  Aligned_cols=32  Identities=41%  Similarity=0.608  Sum_probs=28.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      ..+.++|+||||+|||++|+++|++++.+++.
T Consensus        76 ~~~~lLL~GppGtGKTtla~~la~~l~~~~i~  107 (516)
T 1sxj_A           76 VFRAAMLYGPPGIGKTTAAHLVAQELGYDILE  107 (516)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcCCCEEE
Confidence            35789999999999999999999999876654

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.97  E-value=2.2e-09  Score=72.18  Aligned_cols=83  Identities=24%  Similarity=0.207  Sum_probs=59.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc-----cccce-----------------------------e-------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRL-----QTPQA-----------------------------I-------------   50 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~-----~~~~~-----------------------------~-------------   50 (105)
                      .++|+||+|+|||++++++++.+..+.     ..+..                             +             
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~  127 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQ  127 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHH
Confidence            699999999999999999999864321     11110                             0             


Q ss_pred             -----eec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 -----FFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 -----~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                           .++ ....+.++.+++.+..+.+.+.+|+. .+.++.++.+++..++.+...
T Consensus       128 ~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~-~~~~~~l~~~~~~~~l~~~~~  183 (327)
T 1iqp_A          128 QALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA-IFRFRPLRDEDIAKRLRYIAE  183 (327)
T ss_dssp             HHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCc-EEEecCCCHHHHHHHHHHHHH
Confidence                 112 23456778888888888898888987 567777888888887776543

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.97  E-value=5.4e-09  Score=71.81  Aligned_cols=46  Identities=17%  Similarity=0.088  Sum_probs=38.6

Q ss_pred             CCEEEEEeeCCC---CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLT---GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~---~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      .++.+++++|..   ..+++.+.+|+...+.++.++.+++..++.+.+.
T Consensus       163 ~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~  211 (384)
T 2qby_B          163 ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAE  211 (384)
T ss_dssp             SCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHH
T ss_pred             cceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHH
Confidence            467888888876   6788888889877999999999999999988765

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.96  E-value=5.7e-09  Score=71.43  Aligned_cols=45  Identities=9%  Similarity=0.127  Sum_probs=35.3

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ..+.++.+++.+..+...+.+|+ ..+.+..++.+++..++.+.++
T Consensus       148 ~~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~l~~~~~~~~l~~~~~  192 (373)
T 1jr3_A          148 EHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQIRHQLEHILN  192 (373)
T ss_dssp             SSEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             CceEEEEEeCChHhCcHHHHhhe-eEeeCCCCCHHHHHHHHHHHHH
Confidence            46777888888788888888887 5677888888888888877654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=98.95  E-value=5.6e-10  Score=71.05  Aligned_cols=37  Identities=32%  Similarity=0.337  Sum_probs=32.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.+++.++|.|||||||||+++.++..++.++++.+.
T Consensus        22 ~~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d~   58 (199)
T 3vaa_A           22 SNAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLDW   58 (199)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHHH
T ss_pred             cCCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcchH
Confidence            5567899999999999999999999999999887654

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.91  E-value=2.4e-09  Score=81.00  Aligned_cols=48  Identities=27%  Similarity=0.211  Sum_probs=36.9

Q ss_pred             CCEEEEEeeCCC--------------------------CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          56 PNVLIFTTSNLT--------------------------GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        56 ~~~~~~~~~n~~--------------------------~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      .+.++|+|||..                          ..+.+.++.|++..+.+..++.+++..|+..++.++
T Consensus       700 ~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~  773 (854)
T 1qvr_A          700 RNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYL  773 (854)
T ss_dssp             TTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHH
Confidence            367789999972                          345677888998877777788999999988887654

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.90  E-value=5.9e-09  Score=71.26  Aligned_cols=47  Identities=9%  Similarity=0.022  Sum_probs=34.1

Q ss_pred             cCCEEEEEeeCCC---CCCCHHhhcccc-eEEEeCCCCHHHHHHHHHHHHH
Q psy4924          55 YPNVLIFTTSNLT---GAIDLAFLDRAD-IKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        55 ~~~~~~~~~~n~~---~~~d~~~~~r~~-~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ..++.++++++..   ..++..+.+|+. ..+.++.++.++...++.+.+.
T Consensus       161 ~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~  211 (386)
T 2qby_A          161 KSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQ  211 (386)
T ss_dssp             C--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHH
T ss_pred             CCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHH
Confidence            3467788888865   356667777875 4788888899999999887654

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.88  E-value=4.4e-10  Score=73.19  Aligned_cols=42  Identities=17%  Similarity=0.206  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   ++.|..+.|.||||||||||+++++......
T Consensus        13 ~y~~~~~l~~vsl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~   57 (224)
T 2pcj_A           13 VIRGYEILKGISLSVKKGEFVSIIGASGSGKSTLLYILGLLDAPT   57 (224)
T ss_dssp             EETTEEEEEEEEEEEETTCEEEEEECTTSCHHHHHHHHTTSSCCS
T ss_pred             EECCEeeEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            46666677777   8889999999999999999999999877543

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.87  E-value=9.1e-09  Score=69.02  Aligned_cols=83  Identities=14%  Similarity=0.153  Sum_probs=59.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC-----ccccc----------------------------e--e------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR-----LQTPQ----------------------------A--I------------   50 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~-----~~~~~----------------------------~--~------------   50 (105)
                      .++|+||+|+|||++++.+++.+..+     +...+                            .  +            
T Consensus        44 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~  123 (323)
T 1sxj_B           44 HMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGA  123 (323)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHH
Confidence            49999999999999999999886321     11100                            0  0            


Q ss_pred             ------eec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 ------FFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 ------~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                            .++ ......++.+++.+..+.+.+.+|+. .+.++.++.+++..++.+...
T Consensus       124 ~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~  180 (323)
T 1sxj_B          124 QQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCA-ILRYSKLSDEDVLKRLLQIIK  180 (323)
T ss_dssp             HHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCceEEEEeCChhhchhHHHhhce-EEeecCCCHHHHHHHHHHHHH
Confidence                  111 12456677788888888888888887 677888889988888877553

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=98.87  E-value=1e-08  Score=67.66  Aligned_cols=28  Identities=29%  Similarity=0.392  Sum_probs=25.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+..++|+||||+|||++|++++....
T Consensus        27 ~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A           27 PLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             TSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             CCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            4567899999999999999999998765

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=98.86  E-value=6.3e-10  Score=74.06  Aligned_cols=43  Identities=14%  Similarity=0.273  Sum_probs=35.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +..|..+.|.||||||||||+++++..+....
T Consensus        15 ~y~~~~vl~~vsl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~   60 (262)
T 1b0u_A           15 RYGGHEVLKGVSLQARAGDVISIIGSSGSGKSTFLRCINFLEKPSE   60 (262)
T ss_dssp             EETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSSCCSE
T ss_pred             EECCEEEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCC
Confidence            46666677777   88999999999999999999999998776443

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.86  E-value=1.1e-08  Score=70.16  Aligned_cols=47  Identities=9%  Similarity=0.022  Sum_probs=35.7

Q ss_pred             CCEEEEEeeCCC---CCCCHHhhcccce-EEEeCCCCHHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLT---GAIDLAFLDRADI-KQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        56 ~~~~~~~~~n~~---~~~d~~~~~r~~~-~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      .++.++++++.+   ..++..+.+|+.. .+.++.++.++...++...+..
T Consensus       158 ~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~  208 (389)
T 1fnn_A          158 FRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKA  208 (389)
T ss_dssp             CCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHh
Confidence            467788888876   5677777788775 6778888888888888776653

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=98.86  E-value=6.2e-10  Score=73.74  Aligned_cols=48  Identities=23%  Similarity=0.329  Sum_probs=36.7

Q ss_pred             CC-ccccccccc---ccC---CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924           2 KF-SHSKVKSNI---ISW---NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus         2 ~~-~~~~~~~~~---~~~---~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .| ++..+++++   +..   +..+.|.|++||||||+++.++..++.++++.+.
T Consensus        27 ~~~~~~~~l~~~~~~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~d~   81 (250)
T 3nwj_A           27 PFDEEQQILKKKAEEVKPYLNGRSMYLVGMMGSGKTTVGKIMARSLGYTFFDCDT   81 (250)
T ss_dssp             -----CHHHHHHHHTTHHHHTTCCEEEECSTTSCHHHHHHHHHHHHTCEEEEHHH
T ss_pred             EecCcchhhhhhhhhhhhhcCCCEEEEECCCCCCHHHHHHHHHHhcCCcEEeCcH
Confidence            45 444455555   556   8899999999999999999999999998877553

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=98.86  E-value=1.7e-09  Score=67.70  Aligned_cols=34  Identities=26%  Similarity=0.233  Sum_probs=31.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ++.++|+||+||||||+++.++..++.++++.+.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d~   38 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSDK   38 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEEChH
Confidence            5689999999999999999999999999987665

>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=98.86  E-value=1.3e-09  Score=71.68  Aligned_cols=45  Identities=16%  Similarity=0.348  Sum_probs=36.6

Q ss_pred             CC-ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KF-SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~-~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .| ++..+++++   +++|..+.|.||+|||||||+++++.........
T Consensus        10 ~y~~~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~   58 (243)
T 1mv5_A           10 AYDDSEQILRDISFEAQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAGE   58 (243)
T ss_dssp             CSSSSSCSEEEEEEEECTTEEEEEECCTTSSHHHHHHHHTTSSCCSBSC
T ss_pred             EeCCCCceEEEeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            56 445677776   8899999999999999999999999887654443

>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=98.85  E-value=6.1e-10  Score=73.87  Aligned_cols=44  Identities=25%  Similarity=0.405  Sum_probs=36.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   ++.|..+.|.||+|||||||+++++..+.....
T Consensus        16 ~y~~~~vl~~vsl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G   62 (257)
T 1g6h_A           16 YFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEG   62 (257)
T ss_dssp             EETTEEEEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EECCEeeEeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            46666677777   889999999999999999999999988765433

>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=98.85  E-value=7.8e-10  Score=73.73  Aligned_cols=42  Identities=26%  Similarity=0.446  Sum_probs=35.4

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|++..+++++   ++.|..+.|.||+|||||||+++++..+...
T Consensus        33 ~y~~~~vL~~vsl~i~~Gei~~liG~NGsGKSTLlk~l~Gl~~p~   77 (263)
T 2olj_A           33 SFGSLEVLKGINVHIREGEVVVVIGPSGSGKSTFLRCLNLLEDFD   77 (263)
T ss_dssp             EETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EECCEEEEEeeEEEEcCCCEEEEEcCCCCcHHHHHHHHHcCCCCC
Confidence            46665677777   8899999999999999999999999877644

>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=98.84  E-value=7.9e-10  Score=73.77  Aligned_cols=44  Identities=23%  Similarity=0.394  Sum_probs=36.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +..|..+.|.||||||||||+++++........
T Consensus        20 ~~~~~~vL~~vsl~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G   66 (266)
T 4g1u_C           20 HVQQQALINDVSLHIASGEMVAIIGPNGAGKSTLLRLLTGYLSPSHG   66 (266)
T ss_dssp             EETTEEEEEEEEEEEETTCEEEEECCTTSCHHHHHHHHTSSSCCSSC
T ss_pred             EeCCeeEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            46666777777   889999999999999999999999988765443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.84  E-value=1.8e-09  Score=67.49  Aligned_cols=29  Identities=28%  Similarity=0.380  Sum_probs=26.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..++.++|+||||+|||||+++++..+.
T Consensus        35 ~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           35 PEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             GGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45688999999999999999999999883

>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=98.84  E-value=7.6e-10  Score=72.77  Aligned_cols=45  Identities=22%  Similarity=0.321  Sum_probs=36.5

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|++..+++++   ++.|..+.|.||+|||||||+++++..+......
T Consensus        15 ~y~~~~vl~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~   62 (240)
T 1ji0_A           15 YYGAIHAIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGK   62 (240)
T ss_dssp             EETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EECCeeEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            46665677766   8889999999999999999999999887654433

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.83  E-value=4.5e-08  Score=59.93  Aligned_cols=27  Identities=22%  Similarity=0.385  Sum_probs=25.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+..++|+||+|+|||||+++++....
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~   61 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL   61 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            678899999999999999999999885

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.83  E-value=3e-08  Score=67.63  Aligned_cols=45  Identities=18%  Similarity=0.184  Sum_probs=35.9

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      .+..++.+++.+..+.+.+.+|+ ..+.++.|+.+++..++.+..+
T Consensus       163 ~~~~~Il~t~~~~~l~~~l~sR~-~~~~~~~~~~~~~~~~l~~~~~  207 (354)
T 1sxj_E          163 KNIRLIMVCDSMSPIIAPIKSQC-LLIRCPAPSDSEISTILSDVVT  207 (354)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHhhc-eEEecCCcCHHHHHHHHHHHHH
Confidence            34667788888888999899999 6778888889988888877653

>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=98.83  E-value=1.1e-09  Score=76.02  Aligned_cols=46  Identities=22%  Similarity=0.343  Sum_probs=38.4

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|++..+.+++   ++.|..+.|.||||||||||+++|+.........
T Consensus        12 ~~y~~~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~   60 (359)
T 3fvq_A           12 KSFQNTPVLNDISLSLDPGEILFIIGASGCGKTTLLRCLAGFEQPDSGE   60 (359)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             EEECCEEEEEeeEEEEcCCCEEEEECCCCchHHHHHHHHhcCCCCCCcE
Confidence            357777777777   8899999999999999999999999987665443

>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=98.83  E-value=1e-09  Score=72.94  Aligned_cols=43  Identities=21%  Similarity=0.360  Sum_probs=35.6

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++.......
T Consensus        24 ~y~~~~vl~~vsl~i~~Gei~~l~G~NGsGKSTLlk~l~Gl~~p~~   69 (256)
T 1vpl_A           24 RIGKKEILKGISFEIEEGEIFGLIGPNGAGKTTTLRIISTLIKPSS   69 (256)
T ss_dssp             EETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSSCCSE
T ss_pred             EECCEEEEEeeEEEEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCc
Confidence            46666677776   88999999999999999999999998775443

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.82  E-value=9.1e-10  Score=73.94  Aligned_cols=44  Identities=20%  Similarity=0.167  Sum_probs=36.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++..+.....
T Consensus        30 ~y~~~~vL~~isl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~~G   76 (279)
T 2ihy_A           30 MKQGKTILKKISWQIAKGDKWILYGLNGAGKTTLLNILNAYEPATSG   76 (279)
T ss_dssp             EETTEEEEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EECCEEEEEeeeEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCe
Confidence            46666677777   888999999999999999999999988765433

>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=98.82  E-value=3e-09  Score=66.14  Aligned_cols=31  Identities=19%  Similarity=0.444  Sum_probs=27.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +..++|.|+|||||||+++.++..++.+++.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~~~~~   33 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLA   33 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCCeEE
Confidence            4679999999999999999999999877654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=98.82  E-value=2.1e-09  Score=66.52  Aligned_cols=33  Identities=30%  Similarity=0.640  Sum_probs=28.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +..+.|.|||||||||+++.++..++.++++.+
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l~~~~id~d   36 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   36 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEEEHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCEEecc
Confidence            567999999999999999999999998776543

>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=98.82  E-value=1.1e-09  Score=71.09  Aligned_cols=43  Identities=35%  Similarity=0.475  Sum_probs=35.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++ .+++++   +..|..+.|.||+|||||||+++++........
T Consensus        19 ~y~~-~il~~vsl~i~~Ge~~~iiG~NGsGKSTLlk~l~Gl~~p~~G   64 (214)
T 1sgw_A           19 GYDK-PVLERITMTIEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKG   64 (214)
T ss_dssp             ESSS-EEEEEEEEEEETTCCEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EeCC-eEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            4655 666666   788999999999999999999999987764433

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=98.80  E-value=2.2e-09  Score=74.35  Aligned_cols=44  Identities=23%  Similarity=0.318  Sum_probs=36.4

Q ss_pred             CCC-ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKF-SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~-~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |.| ++..+.+++   ++.|..+.|.||||||||||+++|+.......
T Consensus        22 ~~y~g~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~   69 (355)
T 1z47_A           22 KIYPGGARSVRGVSFQIREGEMVGLLGPSGSGKTTILRLIAGLERPTK   69 (355)
T ss_dssp             ECCTTSTTCEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEcCCCEEEeeeEEEECCCCEEEEECCCCCcHHHHHHHHhCCCCCCc
Confidence            357 666677766   88899999999999999999999998876543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=98.80  E-value=5.2e-08  Score=62.30  Aligned_cols=28  Identities=39%  Similarity=0.672  Sum_probs=25.6

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+..+.|.||||||||||+++|+..+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4678899999999999999999999876

>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=98.80  E-value=1.8e-09  Score=75.43  Aligned_cols=46  Identities=26%  Similarity=0.401  Sum_probs=38.2

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|++..+++++   +..|..+.|.||||||||||+++|+.........
T Consensus        11 ~~yg~~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~   59 (381)
T 3rlf_A           11 KAWGEVVVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGD   59 (381)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             EEECCEEEEeeeEEEECCCCEEEEEcCCCchHHHHHHHHHcCCCCCCeE
Confidence            357777777777   8889999999999999999999999887654433

>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=98.79  E-value=2.1e-09  Score=71.69  Aligned_cols=39  Identities=21%  Similarity=0.399  Sum_probs=33.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++...
T Consensus        29 ~y~~~~vl~~vsl~i~~Ge~~~l~G~NGsGKSTLlk~l~Gl~   70 (267)
T 2zu0_C           29 SVEDKAILRGLSLDVHPGEVHAIMGPNGSGKSTLSATLAGRE   70 (267)
T ss_dssp             EETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTCT
T ss_pred             EECCEEEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            46655677776   8899999999999999999999999863

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=98.79  E-value=2.2e-09  Score=71.75  Aligned_cols=44  Identities=18%  Similarity=0.318  Sum_probs=35.8

Q ss_pred             CCcc---ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSH---SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~---~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++   ..+++++   ++.|..+.|.||+|||||||+++|+..+.....
T Consensus        25 ~y~~~~~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~~p~~G   74 (271)
T 2ixe_A           25 AYPNHPNVQVLQGLTFTLYPGKVTALVGPNGSGKSTVAALLQNLYQPTGG   74 (271)
T ss_dssp             CCTTCTTSCCEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EeCCCCCceeeEeeEEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            4654   4567766   889999999999999999999999988765433

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=98.79  E-value=2.3e-09  Score=74.37  Aligned_cols=44  Identities=30%  Similarity=0.386  Sum_probs=36.5

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |.|++..+.+++   ++.|..+.|.||||||||||+++|+.......
T Consensus        11 ~~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~   57 (362)
T 2it1_A           11 KKFGNFTALNNINLKIKDGEFMALLGPSGSGKSTLLYTIAGIYKPTS   57 (362)
T ss_dssp             EESSSSEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEECCEEEEEeeEEEECCCCEEEEECCCCchHHHHHHHHhcCCCCCc
Confidence            357666677777   88899999999999999999999998876543

>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=98.79  E-value=2e-09  Score=71.13  Aligned_cols=38  Identities=26%  Similarity=0.441  Sum_probs=32.9

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++++..
T Consensus        12 ~y~~~~vl~~vsl~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           12 SIDGETILKGVNLVVPKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             EECCEEEEeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            46666677776   889999999999999999999999985

>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=98.79  E-value=1.7e-09  Score=71.37  Aligned_cols=41  Identities=24%  Similarity=0.315  Sum_probs=34.3

Q ss_pred             cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           5 HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         5 ~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +..+++++   +++|..+.|.||+|||||||+++++..+.....
T Consensus        21 ~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   64 (247)
T 2ff7_A           21 SPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENG   64 (247)
T ss_dssp             SCEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CcceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            45577776   889999999999999999999999988765433

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.79  E-value=4.4e-08  Score=66.29  Aligned_cols=27  Identities=33%  Similarity=0.509  Sum_probs=24.2

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+..++|+||||+|||++|++++...
T Consensus        23 ~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A           23 PSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             STTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            456789999999999999999999865

>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=98.79  E-value=2.3e-09  Score=70.04  Aligned_cols=44  Identities=25%  Similarity=0.342  Sum_probs=35.4

Q ss_pred             CCc--cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFS--HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~--~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|+  +..+++++   ++.|..+.|.||+|||||||+++++..+.....
T Consensus        15 ~y~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   63 (229)
T 2pze_A           15 FWEEGGTPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGELEPSEG   63 (229)
T ss_dssp             CSSTTSCCSEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EeCCCCceeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCcCCcc
Confidence            453  34577766   889999999999999999999999988765433

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=98.78  E-value=1.6e-09  Score=71.77  Aligned_cols=46  Identities=11%  Similarity=0.138  Sum_probs=36.8

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|+ +..+++++   ++.|..+.|.||+|||||||+++++..+......+
T Consensus        13 ~y~~~~~vl~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I   62 (253)
T 2nq2_C           13 YYQAENFLFQQLNFDLNKGDILAVLGQNGCGKSTLLDLLLGIHRPIQGKI   62 (253)
T ss_dssp             EETTTTEEEEEEEEEEETTCEEEEECCSSSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EeCCCCeEEEEEEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            455 55667766   88899999999999999999999998876544443

>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=98.78  E-value=2e-09  Score=72.21  Aligned_cols=43  Identities=23%  Similarity=0.337  Sum_probs=35.1

Q ss_pred             CCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++ ..+++++   +..|..+.|.||||||||||+++++..+....
T Consensus        16 ~y~~~~~~L~~isl~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~~p~~   62 (275)
T 3gfo_A           16 NYSDGTHALKGINMNIKRGEVTAILGGNGVGKSTLFQNFNGILKPSS   62 (275)
T ss_dssp             ECTTSCEEEEEEEEEEETTSEEEEECCTTSSHHHHHHHHTTSSCCSE
T ss_pred             EECCCCeEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCC
Confidence            4654 3477777   88899999999999999999999998776543

>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=98.78  E-value=2.2e-09  Score=74.43  Aligned_cols=44  Identities=25%  Similarity=0.289  Sum_probs=36.3

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   ++.|..+.|.||||||||||+++|+........
T Consensus        12 ~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   58 (359)
T 2yyz_A           12 YFGKVKAVDGVSFEVKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSG   58 (359)
T ss_dssp             EETTEEEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEEcCCCchHHHHHHHHHCCCCCCcc
Confidence            56666667766   888999999999999999999999988765433

>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=98.77  E-value=3.4e-09  Score=66.55  Aligned_cols=31  Identities=29%  Similarity=0.512  Sum_probs=26.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +..|..+.|.|||||||||+++.++...+..
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~~~~g   36 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANLPGVP   36 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTCSSSC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhccCCC
Confidence            5568899999999999999999999875543

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.77  E-value=6.5e-08  Score=66.07  Aligned_cols=82  Identities=16%  Similarity=0.257  Sum_probs=60.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcc--------------------------cc----ce-----------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQ--------------------------TP----QA-----------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~--------------------------~~----~~-----------------   49 (105)
                      ..++|+||+|+|||++++++|+.+.+...                          +.    ..                 
T Consensus        25 ~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~~~  104 (334)
T 1a5t_A           25 HALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHA  104 (334)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSCC
T ss_pred             eeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhhcc
Confidence            35999999999999999999999876421                          00    00                 


Q ss_pred             -------------------------eeeccc-CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          50 -------------------------IFFKKY-PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        50 -------------------------~~~~~~-~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                                               ..+++. +...++.+++.++.+.+.+.+|+. .+.++.++.++...++.+.
T Consensus       105 ~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~-~~~~~~~~~~~~~~~L~~~  179 (334)
T 1a5t_A          105 RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCR-LHYLAPPPEQYAVTWLSRE  179 (334)
T ss_dssp             TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHH
T ss_pred             ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcce-eeeCCCCCHHHHHHHHHHh
Confidence                                     022322 457778888888889999999986 5677888888877776554

>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=98.77  E-value=1.8e-09  Score=66.94  Aligned_cols=28  Identities=32%  Similarity=0.474  Sum_probs=26.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +.++..+.|.||+|+|||||+++++..+
T Consensus        30 i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           30 TEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            6788899999999999999999999998

>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=98.77  E-value=4.7e-09  Score=65.89  Aligned_cols=35  Identities=34%  Similarity=0.548  Sum_probs=30.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+..++|.|+|||||||+++.++..++.++++.+.
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~D~   38 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGLRLPLLSKDA   38 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHcCCeEecHHH
Confidence            46789999999999999999999999987765443

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=98.77  E-value=3.8e-09  Score=65.76  Aligned_cols=33  Identities=24%  Similarity=0.476  Sum_probs=29.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..++|.|||||||||+++.||..++.++++.+.
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~~~~~d~d~   37 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLDLVFLDSDF   37 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCCCEEcccH
Confidence            368999999999999999999999998877654

>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=98.76  E-value=2.9e-09  Score=69.87  Aligned_cols=41  Identities=24%  Similarity=0.358  Sum_probs=33.9

Q ss_pred             CCc--cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           2 KFS--HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         2 ~~~--~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|+  +..+++++   +++|..+.|.||+|||||||+++++.....
T Consensus        12 ~y~~~~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   57 (237)
T 2cbz_A           12 TWARSDPPTLNGITFSIPEGALVAVVGQVGCGKSSLLSALLAEMDK   57 (237)
T ss_dssp             ESCTTSCCSEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTCSEE
T ss_pred             EeCCCCCceeeeeEEEECCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            455  34567766   889999999999999999999999987653

>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=98.76  E-value=6.4e-09  Score=64.58  Aligned_cols=34  Identities=24%  Similarity=0.411  Sum_probs=29.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+..+.|.|||||||||+++.++..++..+++.+
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~~d   40 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   40 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhhCcEEEeCc
Confidence            4678999999999999999999998887766543

>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=98.76  E-value=6e-09  Score=64.19  Aligned_cols=33  Identities=15%  Similarity=0.347  Sum_probs=29.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..++|.||+||||||+++.++..++.++++.+.
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d~   34 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELKYPIIKGSS   34 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHCCCEEECCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeeecCcc
Confidence            368999999999999999999999988876654

>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=98.76  E-value=2.7e-09  Score=74.29  Aligned_cols=44  Identities=23%  Similarity=0.334  Sum_probs=36.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++..+.+++   ++.|..+.|.||||||||||+++|+........
T Consensus        20 ~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   66 (372)
T 1v43_A           20 RFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEG   66 (372)
T ss_dssp             EETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EECCEEEEeeeEEEECCCCEEEEECCCCChHHHHHHHHHcCCCCCce
Confidence            46665666666   888999999999999999999999988765443

>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=98.76  E-value=2.5e-09  Score=74.44  Aligned_cols=45  Identities=20%  Similarity=0.296  Sum_probs=36.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|++..+.+++   ++.|..+.|.||||||||||+++|+.........
T Consensus        12 ~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~   59 (372)
T 1g29_1           12 VFGEVTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQ   59 (372)
T ss_dssp             EETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCcHHHHHHHHHHcCCCCCccE
Confidence            46666677666   8889999999999999999999999887654433

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=98.76  E-value=6.8e-09  Score=66.04  Aligned_cols=34  Identities=26%  Similarity=0.470  Sum_probs=28.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      ..+..+.|.|||||||||+++.++..++..+++.
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i~~   60 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADETGLEFAEA   60 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHCCEEEEG
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhhCCeEEcc
Confidence            3577899999999999999999999998766553

>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=98.75  E-value=5.1e-09  Score=65.51  Aligned_cols=33  Identities=27%  Similarity=0.529  Sum_probs=29.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..++|.|+|||||||+++.|+..++.++++.+.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~D~   35 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALGVGLLDTDV   35 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCEEeCch
Confidence            469999999999999999999999999887665

>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=98.75  E-value=5.7e-09  Score=65.15  Aligned_cols=35  Identities=34%  Similarity=0.485  Sum_probs=30.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++.++|.|+|||||||+++.++..++.++++.+.
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~d~   44 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKSGLKYINVGD   44 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHHCCEEEEHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEHHH
Confidence            45679999999999999999999999988877654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.74  E-value=7.1e-09  Score=62.99  Aligned_cols=27  Identities=30%  Similarity=0.341  Sum_probs=24.4

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+..++|+||||||||++|++++...
T Consensus        22 ~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           22 ETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             TCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            456789999999999999999999876

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=98.74  E-value=6.2e-09  Score=65.10  Aligned_cols=34  Identities=29%  Similarity=0.554  Sum_probs=29.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+..++|.|+|||||||+++.++..++.++++.+
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l~~~~i~~d   36 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQELGFKKLSTG   36 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHHTCEEECHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCeEecHH
Confidence            3567999999999999999999999998887654

>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=98.73  E-value=2.6e-09  Score=70.06  Aligned_cols=39  Identities=21%  Similarity=0.273  Sum_probs=32.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +..|..+.|.||||||||||+++++........
T Consensus        19 ~~L~~isl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G   60 (235)
T 3tif_A           19 YALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEG   60 (235)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             eeEEeeeEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCce
Confidence            366666   889999999999999999999999987765443

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=98.73  E-value=2e-09  Score=69.45  Aligned_cols=44  Identities=27%  Similarity=0.389  Sum_probs=34.3

Q ss_pred             CCCcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|+...+++++ ..|..+.|.||+|||||||+++++.. ......
T Consensus         8 k~~g~~~~l~~i-~~Ge~~~liG~nGsGKSTLl~~l~Gl-~p~~G~   51 (208)
T 3b85_A            8 KTLGQKHYVDAI-DTNTIVFGLGPAGSGKTYLAMAKAVQ-ALQSKQ   51 (208)
T ss_dssp             CSHHHHHHHHHH-HHCSEEEEECCTTSSTTHHHHHHHHH-HHHTTS
T ss_pred             CCHhHHHHHHhc-cCCCEEEEECCCCCCHHHHHHHHhcC-CCcCCe
Confidence            456666666664 77889999999999999999999987 533333

>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=98.73  E-value=6e-09  Score=65.54  Aligned_cols=35  Identities=29%  Similarity=0.403  Sum_probs=30.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH-hCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK-LSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~-~~~~~~~~~~   49 (105)
                      .+..++|+|++||||||+++.++.. ++.++++.+.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~d~   44 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAELDGFQHLEVGK   44 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeHHH
Confidence            4678999999999999999999999 7887777553

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=98.73  E-value=9.7e-09  Score=65.23  Aligned_cols=34  Identities=24%  Similarity=0.379  Sum_probs=30.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +..++|.|++||||||+++.|+..++..+++.+.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~d~   51 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEGDA   51 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEGGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeCCc
Confidence            5689999999999999999999999988776554

>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=98.73  E-value=2.6e-09  Score=73.79  Aligned_cols=42  Identities=21%  Similarity=0.298  Sum_probs=35.2

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++. +.+++   ++.|..+.|.||||||||||+++|+.......
T Consensus        10 ~y~~~-~l~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~   54 (348)
T 3d31_A           10 KWKNF-SLDNLSLKVESGEYFVILGPTGAGKTLFLELIAGFHVPDS   54 (348)
T ss_dssp             ECSSC-EEEEEEEEECTTCEEEEECCCTHHHHHHHHHHHTSSCCSE
T ss_pred             EECCE-EEeeeEEEEcCCCEEEEECCCCccHHHHHHHHHcCCCCCC
Confidence            56665 77777   88899999999999999999999998776443

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=98.71  E-value=3.8e-09  Score=70.41  Aligned_cols=39  Identities=28%  Similarity=0.396  Sum_probs=32.7

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +..|..+.|.||+|||||||+++++........
T Consensus        21 ~vl~~vsl~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p~~G   62 (266)
T 2yz2_A           21 KALENVSLVINEGECLLVAGNTGSGKSTLLQIVAGLIEPTSG   62 (266)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             ceeeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCc
Confidence            466666   889999999999999999999999987764433

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=98.71  E-value=1.2e-08  Score=66.34  Aligned_cols=36  Identities=25%  Similarity=0.566  Sum_probs=31.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +..++.++|.|||||||+|.++.|++.++.+.+...
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~~~g~~hIstG   61 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQKFHFNHLSSG   61 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHHHHCCEEECHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHCCceEcHH
Confidence            455788999999999999999999999998887653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=98.71  E-value=1.1e-08  Score=67.67  Aligned_cols=32  Identities=25%  Similarity=0.367  Sum_probs=27.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +.++|.|||||||||+++.||..++.++++.+
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~~~~i~~D   33 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETGWPVVALD   33 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCCEEECC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCCCeEEecc
Confidence            36899999999999999999999998776543

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=98.70  E-value=8.1e-09  Score=64.92  Aligned_cols=35  Identities=23%  Similarity=0.503  Sum_probs=30.4

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..+..++|.|++||||||+++.++..++.++++.+
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~d   41 (196)
T 2c95_A            7 KKTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTG   41 (196)
T ss_dssp             TTSCEEEEEECTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHhCCeEEcHH
Confidence            45678999999999999999999999998876543

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=98.69  E-value=1e-08  Score=64.29  Aligned_cols=32  Identities=28%  Similarity=0.526  Sum_probs=28.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..++|.|+|||||||+++.++..++.++++.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   34 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLSA   34 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            56799999999999999999999999876654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=98.69  E-value=1.1e-08  Score=63.10  Aligned_cols=34  Identities=24%  Similarity=0.382  Sum_probs=30.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ...++|.|++||||||+++.|+..++.++++.+.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg~~~id~D~   40 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALKLEVLDTDM   40 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhCCCEEEChH
Confidence            3579999999999999999999999999987654

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=98.69  E-value=2.5e-09  Score=74.00  Aligned_cols=45  Identities=24%  Similarity=0.311  Sum_probs=36.5

Q ss_pred             CCcccc--ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHSK--VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~~--~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|++..  +.+++   ++.|..+.|.||||||||||+++|+.........
T Consensus        12 ~y~~~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~   61 (353)
T 1oxx_K           12 VFKKGKVVALDNVNINIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGE   61 (353)
T ss_dssp             EEGGGTEEEEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEE
T ss_pred             EECCEeeeeEeceEEEECCCCEEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            466555  66666   8889999999999999999999999887654433

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=98.69  E-value=8.1e-09  Score=68.61  Aligned_cols=35  Identities=23%  Similarity=0.361  Sum_probs=31.0

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+++++   +++|..+.|.||+|||||||+++++..+.
T Consensus        34 ~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           34 RTLKSINFFIPSGTTCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             CSEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             ceeEeeEEEECCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            466666   88999999999999999999999998765

>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=98.68  E-value=1.6e-08  Score=66.19  Aligned_cols=32  Identities=28%  Similarity=0.627  Sum_probs=27.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .+..+.|.|||||||||+++.|+..++....+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg~~~~~   57 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFGLQHLS   57 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHCCCCEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            46789999999999999999999888876543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=98.68  E-value=1.6e-08  Score=66.22  Aligned_cols=40  Identities=15%  Similarity=0.272  Sum_probs=27.3

Q ss_pred             ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           4 SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         4 ~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++..+++++   +..+..+.|.||+||||||+++.++..++..
T Consensus        10 ~~~~~l~~isl~i~~g~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           10 GVDLGTENLYFQSMRPFLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             -------------CCSEEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             CCceeecceeccCCCCEEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            344456665   6778889999999999999999999988754

>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=98.68  E-value=1.6e-08  Score=64.19  Aligned_cols=32  Identities=41%  Similarity=0.602  Sum_probs=28.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..++|.|+|||||||+++.|+..++.++++.
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            44799999999999999999999999888765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=98.66  E-value=1.8e-08  Score=66.43  Aligned_cols=37  Identities=38%  Similarity=0.706  Sum_probs=30.3

Q ss_pred             ccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          11 NIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        11 ~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+...+..+.|.||+||||||+++.++..++..+.+.
T Consensus        22 ~m~~~g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d~   58 (252)
T 4e22_A           22 HMTAIAPVITVDGPSGAGKGTLCKALAESLNWRLLDS   58 (252)
T ss_dssp             -CTTTSCEEEEECCTTSSHHHHHHHHHHHTTCEEEEH
T ss_pred             hcCCCCcEEEEECCCCCCHHHHHHHHHHhcCCCcCCC
Confidence            3345677899999999999999999999988766543

>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=98.66  E-value=1.2e-08  Score=63.80  Aligned_cols=31  Identities=29%  Similarity=0.584  Sum_probs=27.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC-----CCccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS-----IRLQT   46 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~-----~~~~~   46 (105)
                      +..++|.|||||||||+++.|+..++     .++++
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~   38 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVS   38 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEe
Confidence            46799999999999999999999988     55554

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.66  E-value=1.5e-08  Score=65.46  Aligned_cols=30  Identities=17%  Similarity=0.267  Sum_probs=26.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ++..+.++++||||+|||+++.++|+.+..
T Consensus        55 iPkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           55 TPKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            445568999999999999999999999864

>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=98.66  E-value=1.3e-08  Score=62.81  Aligned_cols=32  Identities=19%  Similarity=0.409  Sum_probs=28.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..++|.|++||||||+++.++..++.++++.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~d   34 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEccc
Confidence            46899999999999999999999998887654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.66  E-value=1.8e-08  Score=63.89  Aligned_cols=26  Identities=42%  Similarity=0.594  Sum_probs=24.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..++|+||+|+||||++++++..+..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~   80 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAK   80 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence            78999999999999999999998854

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.66  E-value=3.8e-09  Score=64.13  Aligned_cols=34  Identities=15%  Similarity=0.241  Sum_probs=28.1

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..+..++|+||||||||++|++++...+ ++..++
T Consensus        25 ~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~   58 (143)
T 3co5_A           25 KRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPA   58 (143)
T ss_dssp             TCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCS
T ss_pred             CCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEec
Confidence            4567899999999999999999998876 555443

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=98.66  E-value=1.6e-08  Score=65.21  Aligned_cols=33  Identities=21%  Similarity=0.422  Sum_probs=29.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+..++|.|||||||||+++.|+..++.++++.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   36 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQLAHISA   36 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHCCEECCH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            356799999999999999999999999887764

>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=98.66  E-value=1.1e-08  Score=71.69  Aligned_cols=40  Identities=35%  Similarity=0.450  Sum_probs=33.7

Q ss_pred             CC--ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           2 KF--SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         2 ~~--~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .|  ++..+++++   +..|..+.|.||+|||||||+++|+....
T Consensus        28 ~y~~~~~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           28 KYTEGGNAILENISFSISPGQRVGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             ESSSSSCCSEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTCSE
T ss_pred             EecCCCeEEeeceeEEEcCCCEEEEECCCCChHHHHHHHHhCCCC
Confidence            46  445677777   88999999999999999999999998654

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=98.65  E-value=5.9e-09  Score=69.49  Aligned_cols=37  Identities=32%  Similarity=0.478  Sum_probs=31.3

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ..+++++   +. |..+.|.||+|||||||+++++... ...
T Consensus        18 ~~il~~vsl~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~-p~~   57 (263)
T 2pjz_A           18 RFSLENINLEVN-GEKVIILGPNGSGKTTLLRAISGLL-PYS   57 (263)
T ss_dssp             EEEEEEEEEEEC-SSEEEEECCTTSSHHHHHHHHTTSS-CCE
T ss_pred             ceeEEeeeEEEC-CEEEEEECCCCCCHHHHHHHHhCCC-CCC
Confidence            4566666   88 9999999999999999999999877 443

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.65  E-value=7.3e-08  Score=65.40  Aligned_cols=81  Identities=5%  Similarity=-0.029  Sum_probs=56.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC------CCccccce----------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS------IRLQTPQA----------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~------~~~~~~~~----------------------------------------   49 (105)
                      ...++|+||+|+|||++++++++..+      ..+..++.                                        
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~~~kvviIdead~lt~~   97 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQ   97 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccCCceEEEeccHHHhCHH
Confidence            34799999999999999999998531      12221110                                        


Q ss_pred             ------eeeccc-CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          50 ------IFFKKY-PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        50 ------~~~~~~-~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                            ..++++ +...++.+++.+..+.+.+.+|   .+.+..++.+++...+.+.
T Consensus        98 a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR---~~~f~~l~~~~i~~~L~~~  151 (305)
T 2gno_A           98 AANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR---VFRVVVNVPKEFRDLVKEK  151 (305)
T ss_dssp             HHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT---SEEEECCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce---eEeCCCCCHHHHHHHHHHH
Confidence                  023332 4567777778888899999999   6666777777777766654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=98.65  E-value=1.5e-08  Score=63.82  Aligned_cols=33  Identities=21%  Similarity=0.545  Sum_probs=29.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+..++|.|++||||||+++.++..++.++++.
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            467899999999999999999999999887754

>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=98.65  E-value=1.7e-08  Score=64.90  Aligned_cols=32  Identities=22%  Similarity=0.444  Sum_probs=28.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..++|.|+|||||||+++.|+..++.++++.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            56799999999999999999999999887765

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=98.64  E-value=1.2e-08  Score=63.29  Aligned_cols=30  Identities=20%  Similarity=0.412  Sum_probs=24.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH-HhCCCcc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ-KLSIRLQ   45 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~-~~~~~~~   45 (105)
                      +..++|.|+|||||||+++.++. ..+..++
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~~~~~~~~i   32 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             CeEEEEecCCCCCHHHHHHHHHhhcCCcEEe
Confidence            35789999999999999999998 4554433

>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=98.64  E-value=2.2e-08  Score=64.03  Aligned_cols=29  Identities=28%  Similarity=0.654  Sum_probs=25.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..|..+.|.||||||||||+++++..+.
T Consensus        17 i~~Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           17 AAVGRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            66789999999999999999999999874

>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=98.64  E-value=5.4e-09  Score=71.06  Aligned_cols=44  Identities=16%  Similarity=0.356  Sum_probs=35.7

Q ss_pred             CCc-cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFS-HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~-~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|. +..+++++   +++|..+.|+||+|||||||+++|+..+.....
T Consensus        62 ~y~~~~~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G  109 (306)
T 3nh6_A           62 SYADGRETLQDVSFTVMPGQTLALVGPSGAGKSTILRLLFRFYDISSG  109 (306)
T ss_dssp             ESSTTCEEEEEEEEEECTTCEEEEESSSCHHHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCCceeeeeeEEEcCCCEEEEECCCCchHHHHHHHHHcCCCCCCc
Confidence            453 34577777   889999999999999999999999988765443

>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=98.63  E-value=2.3e-08  Score=64.34  Aligned_cols=34  Identities=41%  Similarity=0.714  Sum_probs=28.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +..+.|.||+||||||+++.+++.++.++.+.+.
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d~g~   38 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEALQWHLLDSGA   38 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTCEEEEHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcccCcc
Confidence            4579999999999999999999999877665443

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=98.63  E-value=1.7e-08  Score=65.31  Aligned_cols=33  Identities=15%  Similarity=0.397  Sum_probs=28.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+..++|.|++||||||+++.|+..++.++++.
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            456799999999999999999999999877754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=98.63  E-value=2.9e-08  Score=62.82  Aligned_cols=28  Identities=32%  Similarity=0.621  Sum_probs=25.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..|..+.|.||+||||||+++.++....
T Consensus         5 ~~g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            5 NKANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            4578899999999999999999999863

>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=98.62  E-value=2e-08  Score=61.64  Aligned_cols=30  Identities=27%  Similarity=0.597  Sum_probs=26.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      ..++|.|||||||||+++.+ ..++.++++.
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            36899999999999999999 8899887764

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=98.62  E-value=2.4e-08  Score=63.91  Aligned_cols=31  Identities=26%  Similarity=0.452  Sum_probs=27.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++|.|||||||||+++.++..++.++++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~d   32 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHISTG   32 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeeHH
Confidence            4789999999999999999999998887653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=98.61  E-value=2.7e-08  Score=61.22  Aligned_cols=32  Identities=19%  Similarity=0.275  Sum_probs=28.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++|.|++||||||+++.++..++.++++.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~d~   33 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYDVDE   33 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEEHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEECcH
Confidence            48999999999999999999999988876543

>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=98.61  E-value=2.4e-08  Score=63.98  Aligned_cols=31  Identities=26%  Similarity=0.418  Sum_probs=27.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++|.|||||||||+++.++..++.++++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~d   32 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYGIPHISTG   32 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeHH
Confidence            4789999999999999999999998887663

>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=98.61  E-value=3.2e-08  Score=62.86  Aligned_cols=29  Identities=31%  Similarity=0.381  Sum_probs=26.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+..+.|.|||||||||+++.++..++
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35678999999999999999999999984

>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=98.61  E-value=8.7e-09  Score=70.05  Aligned_cols=33  Identities=30%  Similarity=0.512  Sum_probs=29.2

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +++++   +++|..+.|+||+|||||||++.|++.+
T Consensus       115 vL~~vsl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          115 ALKLWLKGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHHHHHHTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hhccceEEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            44444   8889999999999999999999999987

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=98.61  E-value=2.6e-08  Score=63.20  Aligned_cols=33  Identities=24%  Similarity=0.497  Sum_probs=28.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +..++|.|++||||||+++.++..++.++++.+
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~d   47 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSAG   47 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeHH
Confidence            457999999999999999999999987766543

>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=98.60  E-value=2.3e-08  Score=62.54  Aligned_cols=33  Identities=24%  Similarity=0.499  Sum_probs=29.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +..++|.|++||||||+++.++..++.++++.+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   38 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLSAG   38 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEeeHH
Confidence            467999999999999999999999998777653

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=98.60  E-value=1.5e-08  Score=66.60  Aligned_cols=36  Identities=22%  Similarity=0.388  Sum_probs=29.7

Q ss_pred             cccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           9 KSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         9 ~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++   ++. ..+.|.||+|||||||+++++........
T Consensus        15 l~~isl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~~p~~G   53 (240)
T 2onk_A           15 RLNVDFEMGR-DYCVLLGPTGAGKSVFLELIAGIVKPDRG   53 (240)
T ss_dssp             EEEEEEEECS-SEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EeeeEEEECC-EEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4555   778 99999999999999999999988765433

>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=98.60  E-value=3.6e-08  Score=69.38  Aligned_cols=85  Identities=13%  Similarity=0.070  Sum_probs=54.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccccee------------eecccCCEEEEEeeCCCCCCCHHhh---cccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI------------FFKKYPNVLIFTTSNLTGAIDLAFL---DRAD   79 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~------------~~~~~~~~~~~~~~n~~~~~d~~~~---~r~~   79 (105)
                      .+..++|+|+|||||||+++.++..++..+++.+.+            .+..+ ..+++.+++.....-..++   +..+
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~~~~~i~~D~~~~~~~~~~~~~~~l~~g-~~vIiD~~~~~~~~r~~~~~~~~~~~  335 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVSSCQAALRQG-KRVVIDNTNPDVPSRARYIQCAKDAG  335 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGGTCEECCGGGSCSHHHHHHHHHHHHHTT-CCEEEESCCCSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCcEEEccchHHHHHHHHHHHHHHHhcC-CcEEEeCCCCCHHHHHHHHHHHHHcC
Confidence            356799999999999999999999999888877653            12232 3345666654311111111   1122


Q ss_pred             ---eEEEeCCCCHHHHHHHHHHHH
Q psy4924          80 ---IKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        80 ---~~~~~~~~~~~~~~~i~~~~~  100 (105)
                         ..++++.+.+..+.++..|..
T Consensus       336 ~~~~~v~l~~~~e~l~~R~~~R~~  359 (416)
T 3zvl_A          336 VPCRCFNFCATIEQARHNNRFREM  359 (416)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHHHH
T ss_pred             CeEEEEEEeCCHHHHHHHHHhhcc
Confidence               567777776666666666643

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=98.60  E-value=2.8e-08  Score=63.28  Aligned_cols=28  Identities=43%  Similarity=0.616  Sum_probs=23.2

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+++.+.|+||||||||||++.++....
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            3578899999999999999999998764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=98.60  E-value=3.6e-08  Score=61.77  Aligned_cols=27  Identities=19%  Similarity=0.410  Sum_probs=24.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++.+.|.||||||||||++.++....
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            367899999999999999999998764

>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=98.59  E-value=3.2e-08  Score=64.94  Aligned_cols=34  Identities=15%  Similarity=0.201  Sum_probs=30.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+..++|.|||||||||+++.|+..++.++++.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~~   61 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLSTG   61 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEEecH
Confidence            4667999999999999999999999998877654

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=98.59  E-value=2.6e-08  Score=61.98  Aligned_cols=30  Identities=23%  Similarity=0.496  Sum_probs=23.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +..++|.|+|||||||+++.++..++.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            567999999999999999999999998876

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.58  E-value=3.8e-08  Score=66.78  Aligned_cols=26  Identities=38%  Similarity=0.510  Sum_probs=24.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.+++|+||+|+|||||+++++..+.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=98.58  E-value=3.6e-08  Score=62.43  Aligned_cols=27  Identities=26%  Similarity=0.491  Sum_probs=24.8

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..|..+.|.||+||||||+++.++..+
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            457889999999999999999999887

>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=98.58  E-value=4.5e-08  Score=63.56  Aligned_cols=29  Identities=24%  Similarity=0.497  Sum_probs=25.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+.|..+.|.||||||||||+++++....
T Consensus        13 ~~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           13 MAQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            56789999999999999999999999875

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=98.58  E-value=3.6e-08  Score=63.69  Aligned_cols=28  Identities=25%  Similarity=0.478  Sum_probs=24.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +++|..+.|+||+|||||||+++|+...
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            6778999999999999999999999977

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=98.57  E-value=3.2e-08  Score=63.67  Aligned_cols=32  Identities=22%  Similarity=0.556  Sum_probs=28.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..++|.|+|||||||+++.|+..++.++++.
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            45699999999999999999999999888765

>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=98.57  E-value=3.9e-08  Score=63.92  Aligned_cols=34  Identities=24%  Similarity=0.390  Sum_probs=29.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+..++|.|++||||||+++.|+..++.++++.+
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~d   48 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFCVCHLATG   48 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCceecHH
Confidence            3467999999999999999999999998887653

>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=98.57  E-value=3.4e-08  Score=63.59  Aligned_cols=31  Identities=26%  Similarity=0.522  Sum_probs=27.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++|.|||||||+|.|+.||+.++.+++...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~istG   32 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVHISTG   32 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeEEcHH
Confidence            4789999999999999999999999887643

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=98.57  E-value=4.6e-08  Score=62.32  Aligned_cols=29  Identities=28%  Similarity=0.503  Sum_probs=26.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+..++|.|||||||||+++.|+..++
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            45688999999999999999999999874

>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=98.56  E-value=4.9e-08  Score=62.52  Aligned_cols=29  Identities=28%  Similarity=0.487  Sum_probs=25.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..|+.+.|.||+||||||+++.|+..+..
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            46788999999999999999999998753

>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=98.55  E-value=6.1e-08  Score=60.40  Aligned_cols=33  Identities=33%  Similarity=0.380  Sum_probs=27.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh---CCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL---SIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~---~~~~~~~   47 (105)
                      .+..+.|.|++||||||+++.++..+   +.+++.+
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~   39 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTL   39 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEE
Confidence            46789999999999999999999987   7665533

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=98.55  E-value=3.6e-08  Score=62.85  Aligned_cols=28  Identities=32%  Similarity=0.434  Sum_probs=25.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+..+.|.||+||||||+++.++..++
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3567899999999999999999999877

>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=98.55  E-value=5.2e-08  Score=61.32  Aligned_cols=25  Identities=36%  Similarity=0.767  Sum_probs=22.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.|.||||||||||+++++..++.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i   26 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5789999999999999999999873

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=98.54  E-value=5.5e-08  Score=65.40  Aligned_cols=26  Identities=42%  Similarity=0.586  Sum_probs=23.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+..++|.|||||||||+++.++..+
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36689999999999999999999988

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=98.54  E-value=5.3e-08  Score=61.92  Aligned_cols=33  Identities=15%  Similarity=0.215  Sum_probs=28.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+..++|.|++||||||+++.++..++.+.++.
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~~~~~   41 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYLKNNNVEV   41 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcE
Confidence            467899999999999999999999887665443

>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=98.54  E-value=2.7e-08  Score=69.11  Aligned_cols=38  Identities=18%  Similarity=0.269  Sum_probs=32.3

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+++++   ++.|..+.|.||||||||||+++++.......
T Consensus        42 ~aL~~vsl~i~~Gei~~IiGpnGaGKSTLlr~i~GL~~p~~   82 (366)
T 3tui_C           42 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLERPTE   82 (366)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEeeEEEEcCCCEEEEEcCCCchHHHHHHHHhcCCCCCc
Confidence            366666   88999999999999999999999998776543

>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=98.53  E-value=4.3e-08  Score=62.20  Aligned_cols=30  Identities=20%  Similarity=0.334  Sum_probs=25.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+.|.|++||||||+++.++. ++.++++.+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d   32 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDAD   32 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEcc
Confidence            589999999999999999999 777665433

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=98.53  E-value=5e-08  Score=60.77  Aligned_cols=23  Identities=35%  Similarity=0.570  Sum_probs=20.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKA   35 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~   35 (105)
                      ++.|..+.|+||||||||||+++
T Consensus         6 i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            6 IPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EESSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHH
Confidence            56789999999999999999993

>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=98.53  E-value=3e-08  Score=65.55  Aligned_cols=31  Identities=29%  Similarity=0.438  Sum_probs=28.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +..|..+.|.||+|||||||+++++..+...
T Consensus        23 i~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~   53 (249)
T 2qi9_C           23 VRAGEILHLVGPNGAGKSTLLARMAGMTSGK   53 (249)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSSCCE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            7789999999999999999999999887654

>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=98.52  E-value=3.9e-08  Score=62.61  Aligned_cols=35  Identities=23%  Similarity=0.310  Sum_probs=28.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh-CCCcccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL-SIRLQTP   47 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~-~~~~~~~   47 (105)
                      +..+..+.|.|++||||||+++.++..+ +..+++.
T Consensus        18 ~~~~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~~   53 (207)
T 2qt1_A           18 GSKTFIIGISGVTNSGKTTLAKNLQKHLPNCSVISQ   53 (207)
T ss_dssp             SCCCEEEEEEESTTSSHHHHHHHHHTTSTTEEEEEG
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHhcCCcEEEeC
Confidence            4457789999999999999999999987 5544433

>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=98.52  E-value=5.7e-08  Score=62.28  Aligned_cols=30  Identities=23%  Similarity=0.390  Sum_probs=27.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .++|.|+|||||||+++.|+..++.++++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            489999999999999999999999887765

>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=98.52  E-value=7.2e-08  Score=61.82  Aligned_cols=30  Identities=27%  Similarity=0.418  Sum_probs=26.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ++.+..+.|.||||||||||++.++.....
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~~~~   51 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVMVQL   51 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            677899999999999999999999986544

>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=98.52  E-value=5.2e-08  Score=61.93  Aligned_cols=31  Identities=29%  Similarity=0.464  Sum_probs=26.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..+.|.||+||||||+++.++. ++.++++.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~-lg~~~id~d   33 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD-LGVPLVDAD   33 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT-TTCCEEEHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH-CCCcccchH
Confidence            4689999999999999999998 787776543

>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=98.51  E-value=5.7e-08  Score=70.88  Aligned_cols=45  Identities=18%  Similarity=0.353  Sum_probs=36.4

Q ss_pred             CCcc--ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSH--SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~--~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|++  ..+.+++   +++|..+.|+||+|||||||++.+++........
T Consensus       350 ~y~~~~~~~l~~i~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~  399 (582)
T 3b5x_A          350 TYQGKEKPALSHVSFSIPQGKTVALVGRSGSGKSTIANLFTRFYDVDSGS  399 (582)
T ss_pred             EcCCCCccccccceEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCE
Confidence            4653  4577777   8899999999999999999999999987654433

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=98.51  E-value=5.8e-08  Score=63.93  Aligned_cols=29  Identities=24%  Similarity=0.387  Sum_probs=25.7

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..+..++|.|||||||||+++.++..++.
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~~   58 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQG   58 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTTT
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            34678999999999999999999999874

>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=98.51  E-value=2.8e-08  Score=67.08  Aligned_cols=36  Identities=31%  Similarity=0.448  Sum_probs=30.4

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+++++   ++.|..+.|.||+|||||||+++++.....
T Consensus        52 ~vl~~isl~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p   90 (290)
T 2bbs_A           52 PVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGELEP   90 (290)
T ss_dssp             CSEEEEEEEECTTCEEEEEESTTSSHHHHHHHHTTSSCE
T ss_pred             eEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCC
Confidence            455555   788999999999999999999999987653

>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=98.51  E-value=6.2e-08  Score=61.66  Aligned_cols=32  Identities=16%  Similarity=0.305  Sum_probs=27.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .+..++|.|++||||||+++.|+..++...++
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~~~~~   39 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCAAGHR   39 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHcCCc
Confidence            46789999999999999999999987654433

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.51  E-value=2.3e-07  Score=77.68  Aligned_cols=47  Identities=21%  Similarity=0.374  Sum_probs=38.7

Q ss_pred             CCEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHh
Q psy4924          56 PNVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        56 ~~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l  103 (105)
                      ..+.+++|.|.+     ..+++++++||.+ +.+++|+.+.+..|+...+..+
T Consensus      1421 ~d~~~vaamnPp~~gGr~~l~~Rf~r~F~v-i~i~~ps~esL~~If~til~~~ 1472 (3245)
T 3vkg_A         1421 DKIQFVGACNPPTDAGRVQLTHRFLRHAPI-LLVDFPSTSSLTQIYGTFNRAL 1472 (3245)
T ss_dssp             SSEEEEEEECCTTSTTCCCCCHHHHTTCCE-EECCCCCHHHHHHHHHHHHHHH
T ss_pred             cCeEEEEEcCCCCCCCCccCCHHHHhhceE-EEeCCCCHHHHHHHHHHHHHHH
Confidence            456788999887     4689999999986 7899999999999988766543

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=98.50  E-value=1.1e-07  Score=60.26  Aligned_cols=28  Identities=18%  Similarity=0.412  Sum_probs=25.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +..++|.|++||||||+++.|+..++..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            5679999999999999999999988764

>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=98.49  E-value=7.4e-08  Score=60.78  Aligned_cols=33  Identities=12%  Similarity=0.208  Sum_probs=28.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+..+.|.|++||||||+++.|++. +.++++.+
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~-g~~~id~d   39 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW-GYPVLDLD   39 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT-TCCEEEHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC-CCEEEccc
Confidence            3567999999999999999999998 87776544

>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=98.49  E-value=8e-08  Score=60.30  Aligned_cols=26  Identities=35%  Similarity=0.848  Sum_probs=22.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+.|.|||||||||+++.++...+
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~~~~   27 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAAQLD   27 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCcHHHHHHHHhcccC
Confidence            45789999999999999999998654

>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=98.49  E-value=8e-08  Score=60.74  Aligned_cols=30  Identities=17%  Similarity=0.459  Sum_probs=25.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh-CCCc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL-SIRL   44 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~-~~~~   44 (105)
                      .+..++|.|++||||||+++.++..+ +.++
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~   33 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESIPANTI   33 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTSCGGGE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHCCCce
Confidence            46789999999999999999999988 3433

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=98.48  E-value=1.1e-07  Score=59.95  Aligned_cols=28  Identities=21%  Similarity=0.519  Sum_probs=24.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .++|.|++||||||+++.|++.++.++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~   29 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIF   29 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEE
Confidence            4899999999999999999999886544

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.48  E-value=8.8e-08  Score=69.45  Aligned_cols=44  Identities=30%  Similarity=0.378  Sum_probs=34.4

Q ss_pred             CCccc-cccccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHS-KVKSNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~-~~~~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++. .+..++  +.+|..+.|.||||||||||+++|+..+.....
T Consensus        30 ~yg~~~~~l~~vs~i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~~p~~G   76 (538)
T 1yqt_A           30 RYGVNAFVLYRLPVVKEGMVVGIVGPNGTGKSTAVKILAGQLIPNLC   76 (538)
T ss_dssp             ECSTTCCEEECCCCCCTTSEEEEECCTTSSHHHHHHHHHTSSCCCTT
T ss_pred             EECCccccccCcCcCCCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            46554 255555  688999999999999999999999987754433

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.48  E-value=7e-07  Score=74.12  Aligned_cols=82  Identities=21%  Similarity=0.180  Sum_probs=64.4

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce--------------------------------------------
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA--------------------------------------------   49 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~--------------------------------------------   49 (105)
                      ..+.+.++.||+|+|||++++.+|+.+|.+++....                                            
T Consensus       643 ~~~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~~~lg~~~~g~~~~Gaw~~~DE~nr~~~evLs~l~~~l~  722 (2695)
T 4akg_A          643 HQKYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRLDEKVLSAVSANIQ  722 (2695)
T ss_dssp             HTTCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCHHHHHHHHHHHHHHTCEEEEETTTSSCHHHHHHHHHHHH
T ss_pred             HhCCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCChhHhhHHHHHHHhcCCEeeehhhhhcChHHHHHHHHHHH
Confidence            346789999999999999999999999998876543                                            


Q ss_pred             -----------------eeecccCCEEEEEeeCC----CCCCCHHhhcccceEEEeCCCCHHHHHHHH
Q psy4924          50 -----------------IFFKKYPNVLIFTTSNL----TGAIDLAFLDRADIKQYIGFPSAAAIFNIF   96 (105)
Q Consensus        50 -----------------~~~~~~~~~~~~~~~n~----~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~   96 (105)
                                       ..+...+...++.|.|.    ...++.++.+|| +.+.+.+|+.+...+++
T Consensus       723 ~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~F-r~v~m~~Pd~~~i~ei~  789 (2695)
T 4akg_A          723 QIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSF-REFSMKSPQSGTIAEMI  789 (2695)
T ss_dssp             HHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTTE-EEEECCCCCHHHHHHHH
T ss_pred             HHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhhe-EEEEeeCCCHHHHHHHH
Confidence                             02344456678888884    357888888888 56889999988776664

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=98.48  E-value=1.2e-07  Score=63.05  Aligned_cols=30  Identities=20%  Similarity=0.404  Sum_probs=27.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.++..++|.||+||||||++++++..+..
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~   51 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQ   51 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCC
Confidence            677889999999999999999999998753

>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=98.48  E-value=9.4e-08  Score=60.52  Aligned_cols=32  Identities=28%  Similarity=0.551  Sum_probs=29.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+.|.|++||||||+++.++..++.++++.+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~d~   35 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSSGL   35 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceeccch
Confidence            78999999999999999999999988877554

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=98.48  E-value=1.3e-06  Score=59.79  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=23.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+.|.||+||||||++++++..++
T Consensus        93 ~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           93 YIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3799999999999999999999876

>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=98.48  E-value=6.1e-08  Score=70.73  Aligned_cols=44  Identities=23%  Similarity=0.363  Sum_probs=36.2

Q ss_pred             CCcc--ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSH--SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~--~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++  ..+++++   +++|..+.|.||+|||||||++.+++.......
T Consensus       350 ~y~~~~~~~l~~v~~~i~~G~~~~ivG~sGsGKSTLl~~l~g~~~p~~G  398 (582)
T 3b60_A          350 TYPGREVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEG  398 (582)
T ss_dssp             CSSSSSCCSEEEEEEEECTTCEEEEEECTTSSHHHHHHHHTTTTCCSEE
T ss_pred             EcCCCCCccccceeEEEcCCCEEEEECCCCCCHHHHHHHHhhccCCCCC
Confidence            5653  4577777   889999999999999999999999988765443

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=98.47  E-value=9.4e-08  Score=61.81  Aligned_cols=30  Identities=30%  Similarity=0.481  Sum_probs=26.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .++|.|||||||||+++.|+..++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            489999999999999999999998877655

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=98.46  E-value=9.5e-08  Score=59.67  Aligned_cols=25  Identities=28%  Similarity=0.592  Sum_probs=23.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..++|.|+|||||||+++.|+..++
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3689999999999999999999887

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=98.46  E-value=8.6e-08  Score=65.62  Aligned_cols=33  Identities=33%  Similarity=0.515  Sum_probs=28.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ++.++|+||+||||||+++.+|..++..+++.+
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~~~iis~D   37 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALPCELISVD   37 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEEEC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCcEEecc
Confidence            457999999999999999999999997776654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=98.45  E-value=1.4e-07  Score=58.97  Aligned_cols=30  Identities=23%  Similarity=0.338  Sum_probs=25.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh---CCCcccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL---SIRLQTP   47 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~---~~~~~~~   47 (105)
                      .+.|.|++||||||+++.++..+   +.++++.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~   34 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLY   34 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            47899999999999999999988   7666553

>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=98.45  E-value=1.2e-07  Score=60.86  Aligned_cols=31  Identities=32%  Similarity=0.523  Sum_probs=26.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..+.|.|++||||||+++.++. ++.++++.
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~-lg~~~id~   34 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD-LGINVIDA   34 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH-cCCEEEEc
Confidence            46799999999999999999998 78776554

>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=98.45  E-value=1.2e-07  Score=62.27  Aligned_cols=34  Identities=38%  Similarity=0.610  Sum_probs=29.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +..+.|.||+||||||+++.++..++.++++.+.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~d~g~   42 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYLDTGA   42 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcccCCc
Confidence            4579999999999999999999999988766543

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=98.45  E-value=1.3e-07  Score=61.55  Aligned_cols=36  Identities=19%  Similarity=0.384  Sum_probs=30.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..+..+.|.|++||||||+++.++..++.++++.+.
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d~d~   49 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDFGFTYLDTGA   49 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHHCCEEEEHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHcCCceecCCC
Confidence            346789999999999999999999999988776544

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=98.45  E-value=1.4e-07  Score=60.41  Aligned_cols=28  Identities=36%  Similarity=0.418  Sum_probs=25.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.|..++|+||||+|||||++.++...
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            5678899999999999999999999665

>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=98.44  E-value=1.1e-07  Score=60.50  Aligned_cols=34  Identities=24%  Similarity=0.461  Sum_probs=29.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ...+.|.|++||||||+++.++..++.++++.+.
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~lg~~vid~D~   45 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNKYGAHVVNVDR   45 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHCCEEEEHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCEEEECcH
Confidence            3568999999999999999999998998887654

>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=98.44  E-value=1.6e-07  Score=65.50  Aligned_cols=33  Identities=30%  Similarity=0.378  Sum_probs=29.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +++++.++|+|||||||||++++++...+....
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~  198 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKAL  198 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEE
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEE
Confidence            677889999999999999999999998876543

>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=98.44  E-value=1.8e-07  Score=62.46  Aligned_cols=27  Identities=33%  Similarity=0.598  Sum_probs=23.6

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.++++|+||||+|||++++++|+..
T Consensus       102 ~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A          102 GKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            334589999999999999999999874

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.44  E-value=9.6e-08  Score=69.92  Aligned_cols=45  Identities=24%  Similarity=0.420  Sum_probs=36.7

Q ss_pred             CCCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           1 MKFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         1 ~~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +.|++ ..+++++   +++|..+.|+||+|||||||++.+++......+
T Consensus       362 ~~y~~~~~~l~~isl~i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G  410 (598)
T 3qf4_B          362 FSYDKKKPVLKDITFHIKPGQKVALVGPTGSGKTTIVNLLMRFYDVDRG  410 (598)
T ss_dssp             CCSSSSSCSCCSEEEECCTTCEEEEECCTTSSTTHHHHHHTTSSCCSEE
T ss_pred             EECCCCCccccceEEEEcCCCEEEEECCCCCcHHHHHHHHhcCcCCCCe
Confidence            35643 4577777   889999999999999999999999988776543

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=98.44  E-value=1.8e-07  Score=61.86  Aligned_cols=31  Identities=29%  Similarity=0.464  Sum_probs=26.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH---hCCCcc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK---LSIRLQ   45 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~---~~~~~~   45 (105)
                      .+..++|.|+|||||||+++.++..   .+.+++
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i   36 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVI   36 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEE
Confidence            3567999999999999999999998   666655

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=98.43  E-value=7.5e-08  Score=62.37  Aligned_cols=28  Identities=25%  Similarity=0.464  Sum_probs=19.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHH-HHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVA-QKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la-~~~   40 (105)
                      +..|..+.|.||+||||||+++.++ ...
T Consensus        24 v~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           24 KSVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EECCCEEEEECSCC----CHHHHHHC---
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            5678899999999999999999999 765

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=98.42  E-value=1e-07  Score=65.64  Aligned_cols=33  Identities=24%  Similarity=0.531  Sum_probs=28.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ++.++|.||+|||||+|+..||+.++..+++.+
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~D   72 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFPLEVINSD   72 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSCEEEEECC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCCCcEEccc
Confidence            457999999999999999999999997665543

>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=98.41  E-value=2.1e-07  Score=59.58  Aligned_cols=27  Identities=19%  Similarity=0.394  Sum_probs=24.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++.++|.||+|+|||||++.|++...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            578899999999999999999998865

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=98.41  E-value=9e-08  Score=70.10  Aligned_cols=32  Identities=44%  Similarity=0.576  Sum_probs=28.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +..+..++|+|||||||||++++++..+....
T Consensus        57 i~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~   88 (604)
T 3k1j_A           57 ANQKRHVLLIGEPGTGKSMLGQAMAELLPTET   88 (604)
T ss_dssp             HHTTCCEEEECCTTSSHHHHHHHHHHTSCCSS
T ss_pred             ccCCCEEEEEeCCCCCHHHHHHHHhccCCccc
Confidence            56688999999999999999999999987554

>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=98.40  E-value=2.3e-07  Score=63.11  Aligned_cols=30  Identities=13%  Similarity=0.186  Sum_probs=26.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..+..+.|.||+|||||||++.|+..+..
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhccc
Confidence            456888999999999999999999998753

>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=98.40  E-value=2e-07  Score=59.18  Aligned_cols=26  Identities=35%  Similarity=0.632  Sum_probs=23.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.|+|+||+|+|||||++.|......
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~   27 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPD   27 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCC
Confidence            67999999999999999999887653

>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=98.40  E-value=1.5e-07  Score=66.43  Aligned_cols=31  Identities=29%  Similarity=0.419  Sum_probs=26.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .++..++|.||+||||||++++++..++...
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~~~~  195 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELNSSE  195 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCCTT
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcCCCC
Confidence            4567899999999999999999999987543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=98.40  E-value=2.2e-07  Score=58.17  Aligned_cols=28  Identities=39%  Similarity=0.548  Sum_probs=25.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+..++|.|++||||||+++.++..++.
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            4678999999999999999999998863

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=98.39  E-value=2.3e-07  Score=58.96  Aligned_cols=26  Identities=46%  Similarity=0.796  Sum_probs=23.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      |..+.|+||+|+||||+++.++..+.
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcc
Confidence            45789999999999999999999873

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=98.39  E-value=6.3e-08  Score=67.01  Aligned_cols=31  Identities=35%  Similarity=0.680  Sum_probs=28.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.++..++|.||+||||||++++++......
T Consensus       172 i~~G~~i~ivG~sGsGKSTll~~l~~~~~~~  202 (361)
T 2gza_A          172 VQLERVIVVAGETGSGKTTLMKALMQEIPFD  202 (361)
T ss_dssp             HHTTCCEEEEESSSSCHHHHHHHHHTTSCTT
T ss_pred             HhcCCEEEEECCCCCCHHHHHHHHHhcCCCC
Confidence            6789999999999999999999999987653

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=98.39  E-value=2.8e-07  Score=62.49  Aligned_cols=29  Identities=28%  Similarity=0.417  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+..+.|+||+||||||+++.+|..+.
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            55688999999999999999999999875

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=98.38  E-value=1.8e-07  Score=68.77  Aligned_cols=44  Identities=32%  Similarity=0.400  Sum_probs=34.1

Q ss_pred             CCcccc-ccccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           2 KFSHSK-VKSNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         2 ~~~~~~-~~~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|++.. ++.++  +..|..+.|.||||||||||+++|+..+.....
T Consensus       100 ~yg~~~~~l~~vs~i~~Ge~~~LiG~NGsGKSTLlkiL~Gll~p~~G  146 (607)
T 3bk7_A          100 RYGVNAFVLYRLPIVKDGMVVGIVGPNGTGKTTAVKILAGQLIPNLC  146 (607)
T ss_dssp             ECSTTCCEEECCCCCCTTSEEEEECCTTSSHHHHHHHHTTSSCCCTT
T ss_pred             EECCCCeeeCCCCCCCCCCEEEEECCCCChHHHHHHHHhCCCCCCCC
Confidence            455542 45555  678999999999999999999999988765433

>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=98.37  E-value=2.8e-07  Score=58.98  Aligned_cols=29  Identities=21%  Similarity=0.345  Sum_probs=25.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+..++|.|++||||||+++.++..++
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45678899999999999999999999876

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.37  E-value=9.7e-08  Score=69.81  Aligned_cols=40  Identities=20%  Similarity=0.332  Sum_probs=34.1

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      ..+++++   +++|..+.|+||+|||||||++.+++.......
T Consensus       356 ~~~l~~isl~i~~Ge~~~ivG~sGsGKSTll~~l~g~~~~~~G  398 (587)
T 3qf4_A          356 DPVLSGVNFSVKPGSLVAVLGETGSGKSTLMNLIPRLIDPERG  398 (587)
T ss_dssp             CCSEEEEEEEECTTCEEEEECSSSSSHHHHHHTTTTSSCCSEE
T ss_pred             CcceeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCccCCCc
Confidence            4577777   889999999999999999999999988765443

>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=98.37  E-value=3.3e-07  Score=62.17  Aligned_cols=29  Identities=31%  Similarity=0.349  Sum_probs=25.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+..+.|+||+||||||+++.+|..+...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46789999999999999999999988643

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=98.37  E-value=2.4e-07  Score=65.75  Aligned_cols=38  Identities=16%  Similarity=0.210  Sum_probs=31.4

Q ss_pred             ccccccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           6 SKVKSNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         6 ~~~~~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..+.+++  +..|..+.|.||+|||||||++.|++.....
T Consensus       145 ~~vld~vl~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~~  184 (438)
T 2dpy_A          145 VRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYTRAD  184 (438)
T ss_dssp             CHHHHHHSCCBTTCEEEEEECTTSSHHHHHHHHHHHSCCS
T ss_pred             ceEEeeeEEecCCCEEEEECCCCCCHHHHHHHHhcccCCC
Confidence            3455555  6778899999999999999999999987643

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=98.36  E-value=3.3e-07  Score=58.38  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=24.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      ++.+..++|+||||+|||||++.++.
T Consensus        17 i~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           17 FAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             BCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            66789999999999999999999998

>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=98.36  E-value=2.9e-07  Score=60.44  Aligned_cols=28  Identities=25%  Similarity=0.450  Sum_probs=25.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ...|.|.|++||||||+++.|+..++.+
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~   49 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQN   49 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhh
Confidence            4469999999999999999999998876

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=98.35  E-value=8.9e-08  Score=69.82  Aligned_cols=45  Identities=18%  Similarity=0.347  Sum_probs=36.2

Q ss_pred             CCcc--ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSH--SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~--~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .|++  ..+++++   +++|..+.|+||+|||||||++.+++........
T Consensus       348 ~y~~~~~~~l~~isl~i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~  397 (578)
T 4a82_A          348 QYNDNEAPILKDINLSIEKGETVAFVGMSGGGKSTLINLIPRFYDVTSGQ  397 (578)
T ss_dssp             CSCSSSCCSEEEEEEEECTTCEEEEECSTTSSHHHHHTTTTTSSCCSEEE
T ss_pred             EcCCCCCcceeeeEEEECCCCEEEEECCCCChHHHHHHHHhcCCCCCCcE
Confidence            4543  3477776   8899999999999999999999999887765443

>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=98.34  E-value=3.1e-07  Score=59.33  Aligned_cols=28  Identities=29%  Similarity=0.442  Sum_probs=25.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.+..+.|+||||+|||||++.++...
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            6678999999999999999999999853

>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=98.34  E-value=2.4e-07  Score=62.03  Aligned_cols=29  Identities=24%  Similarity=0.437  Sum_probs=24.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh-CCCcc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL-SIRLQ   45 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~-~~~~~   45 (105)
                      ..++|.|+|||||||+++.++..+ +..++
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~~i   32 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcEEe
Confidence            578999999999999999999864 55444

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=98.34  E-value=2.8e-07  Score=58.98  Aligned_cols=34  Identities=32%  Similarity=0.483  Sum_probs=29.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +..+.|.|++||||||+++.++..++.++++.+.
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~d~   36 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASELSMIYVDTGA   36 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCEEEEHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCceecCCh
Confidence            3569999999999999999999999988877654

>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=98.34  E-value=2.5e-07  Score=64.07  Aligned_cols=30  Identities=30%  Similarity=0.400  Sum_probs=26.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..++..+++.||+||||||++++++..++.
T Consensus       120 ~~~~g~i~I~GptGSGKTTlL~~l~g~~~~  149 (356)
T 3jvv_A          120 DVPRGLVLVTGPTGSGKSTTLAAMLDYLNN  149 (356)
T ss_dssp             HCSSEEEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCCCHHHHHHHHHhcccC
Confidence            445668999999999999999999988764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.34  E-value=3.1e-07  Score=67.50  Aligned_cols=35  Identities=29%  Similarity=0.219  Sum_probs=30.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +.+|..+.|.||||+|||||+++|+..+......+
T Consensus       100 ~~~Gei~~LvGpNGaGKSTLLkiL~Gll~P~~G~i  134 (608)
T 3j16_B          100 PRPGQVLGLVGTNGIGKSTALKILAGKQKPNLGRF  134 (608)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSSCCCTTTT
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhcCCCCCCceE
Confidence            66799999999999999999999999887655543

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=98.33  E-value=1.9e-07  Score=71.74  Aligned_cols=37  Identities=24%  Similarity=0.446  Sum_probs=31.7

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHH
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .|++..+++++   +..|..+.|.||+|||||||+++|+.
T Consensus       444 ~yg~~~iL~~vsl~I~~Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          444 AYGAKILLNKTQLRLKRARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             EETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             EECCEEeEecceEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            46666667766   88899999999999999999999994

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=98.33  E-value=2.2e-07  Score=64.10  Aligned_cols=37  Identities=14%  Similarity=0.233  Sum_probs=30.7

Q ss_pred             cccccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924           7 KVKSNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus         7 ~~~~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++  +..|..+.|.||+|+|||||+++|++.....
T Consensus        60 ~ald~ll~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~~   98 (347)
T 2obl_A           60 RAIDGLLTCGIGQRIGIFAGSGVGKSTLLGMICNGASAD   98 (347)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHSCCS
T ss_pred             EEEEeeeeecCCCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            344444  6678999999999999999999999998643

>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=98.32  E-value=5.6e-07  Score=57.85  Aligned_cols=40  Identities=23%  Similarity=0.306  Sum_probs=32.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeeccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKY   55 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~   55 (105)
                      .++.++|.||+|+|||+++..++.... +++..+...+...
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdDs~~v~~~   72 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRGH-RLIADDRVDVYQQ   72 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTTC-EEEESSEEEEEEC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhCC-eEEecchhheeec
Confidence            477899999999999999999998877 6666666544433

>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=98.32  E-value=4.2e-07  Score=60.82  Aligned_cols=29  Identities=17%  Similarity=0.342  Sum_probs=26.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..|..++|.||||+|||||++.++....
T Consensus        32 l~~G~~~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           32 ARGGEVIMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             BCTTCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            77899999999999999999999998775

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=98.32  E-value=4.8e-07  Score=62.72  Aligned_cols=29  Identities=28%  Similarity=0.417  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+..+.|+||+||||||+++.+|..+.
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~  182 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhcc
Confidence            45688999999999999999999999875

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.32  E-value=2.7e-07  Score=65.27  Aligned_cols=37  Identities=22%  Similarity=0.330  Sum_probs=27.4

Q ss_pred             CCccccccccc---ccCCce--EEEEcCCCCCHHHHHHHHHHH
Q psy4924           2 KFSHSKVKSNI---ISWNRV--VLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~--ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|++.. .+++   +..|..  +.|+||||+|||||+++|+..
T Consensus        24 ~y~~~~-L~~vsl~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           24 GFDSLP-DQLVNKSVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             -CC--C-HHHHHHSCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             EECCee-cCCCceEecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            455444 4444   778888  999999999999999999876

>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=98.31  E-value=8e-07  Score=57.86  Aligned_cols=30  Identities=27%  Similarity=0.501  Sum_probs=26.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ...+..+.|.||+||||||+++.++..++.
T Consensus        23 ~~~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           23 NAMSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCCCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             cCCCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            346788999999999999999999999874

>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=98.30  E-value=3.9e-07  Score=62.09  Aligned_cols=33  Identities=27%  Similarity=0.536  Sum_probs=28.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ++.++|.||+|||||+|+..+|..++..++..+
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~D   42 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILPVELISVD   42 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEECC
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCCCcEEecc
Confidence            467899999999999999999999987665543

>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=98.30  E-value=3.8e-07  Score=61.04  Aligned_cols=31  Identities=26%  Similarity=0.369  Sum_probs=26.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..|.|.|++||||||+++.++ .++.++++.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La-~lg~~~id~  105 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK-NLGAYIIDS  105 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH-HHTCEEEEH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH-HCCCcEEeh
Confidence            4569999999999999999999 578776654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=98.30  E-value=3.4e-07  Score=63.07  Aligned_cols=32  Identities=28%  Similarity=0.481  Sum_probs=27.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..++|.||+||||||+++.||..++..+++.+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~D   39 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISGD   39 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEECC
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceeccc
Confidence            57999999999999999999999986544433

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=98.30  E-value=5.8e-07  Score=57.14  Aligned_cols=27  Identities=30%  Similarity=0.409  Sum_probs=24.2

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+..+.|.||+||||||+++.++..+
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456789999999999999999999876

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.29  E-value=3.7e-07  Score=66.23  Aligned_cols=45  Identities=20%  Similarity=0.295  Sum_probs=34.0

Q ss_pred             CCcccccc-ccc--ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           2 KFSHSKVK-SNI--ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         2 ~~~~~~~~-~~~--~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +|+.+.+. ..+  ..+|..+.|.||||||||||+++|+..+......
T Consensus         8 ~~~~~~f~l~~l~~~~~Gei~gLiGpNGaGKSTLlkiL~Gl~~p~~G~   55 (538)
T 3ozx_A            8 RYKVNGFKLFGLPTPKNNTILGVLGKNGVGKTTVLKILAGEIIPNFGD   55 (538)
T ss_dssp             ESSTTSCEEECCCCCCTTEEEEEECCTTSSHHHHHHHHTTSSCCCTTC
T ss_pred             ecCCCceeecCCCCCCCCCEEEEECCCCCcHHHHHHHHhcCCCCCCCc
Confidence            46665532 233  5578899999999999999999999987655443

>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=98.29  E-value=5.6e-07  Score=62.55  Aligned_cols=30  Identities=20%  Similarity=0.404  Sum_probs=26.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.++..++|+||+||||||++++++..+..
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~  162 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQ  162 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCc
Confidence            567888999999999999999999998754

>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=98.28  E-value=4e-07  Score=62.20  Aligned_cols=33  Identities=24%  Similarity=0.424  Sum_probs=28.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ++.++|.||+|||||+|+..+|..++..+++.+
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~D   35 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLNGEVISGD   35 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTTEEEEECC
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCccceeecC
Confidence            457899999999999999999999987655444

>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=98.28  E-value=7.1e-07  Score=55.54  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=23.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ...+|+||+||||||++++|+..++.
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l~~   52 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVLGG   52 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHcC
Confidence            37899999999999999999998765

>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=98.28  E-value=5e-07  Score=60.08  Aligned_cols=29  Identities=28%  Similarity=0.393  Sum_probs=25.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||||||||+..++..+.
T Consensus        27 l~~G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           27 MVAGTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             ccCCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            66789999999999999999999987653

>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=98.28  E-value=6.2e-07  Score=60.71  Aligned_cols=28  Identities=18%  Similarity=0.328  Sum_probs=25.4

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+..+.|.||+||||||+++.|+..++
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            5577899999999999999999999876

>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=98.28  E-value=6.6e-07  Score=61.32  Aligned_cols=29  Identities=28%  Similarity=0.307  Sum_probs=25.7

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..+..+.|.||+||||||+++.++..+..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45788999999999999999999988753

>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=98.27  E-value=5.8e-07  Score=61.60  Aligned_cols=29  Identities=28%  Similarity=0.407  Sum_probs=24.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||+|||+|+..++...+
T Consensus       120 i~~gsviLI~GpPGsGKTtLAlqlA~~~G  148 (331)
T 2vhj_A          120 RYASGMVIVTGKGNSGKTPLVHALGEALG  148 (331)
T ss_dssp             EEESEEEEEECSCSSSHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEcCCCCCHHHHHHHHHHhCC
Confidence            45567789999999999999999998744

>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=98.27  E-value=4.9e-07  Score=62.40  Aligned_cols=32  Identities=19%  Similarity=0.240  Sum_probs=28.0

Q ss_pred             ccC--CceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISW--NRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~--~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +..  +..+.|+||+|||||||++.|+..+....
T Consensus       165 v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~~~~~  198 (365)
T 1lw7_A          165 ARPFFAKTVAILGGESSGKSVLVNKLAAVFNTTS  198 (365)
T ss_dssp             TGGGTCEEEEEECCTTSHHHHHHHHHHHHTTCEE
T ss_pred             HHHhhhCeEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence            455  78999999999999999999999987654

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.24  E-value=2.5e-07  Score=63.54  Aligned_cols=28  Identities=29%  Similarity=0.379  Sum_probs=25.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..+..+.|.||||+|||||+++++..+
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            5678899999999999999999999765

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=98.24  E-value=4.1e-07  Score=63.03  Aligned_cols=32  Identities=31%  Similarity=0.561  Sum_probs=27.9

Q ss_pred             ccCCce--EEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISWNRV--VLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~~~~--ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +..+..  ++|+||+|+||||+++++|..++.++
T Consensus        19 i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A           19 IEDNYRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             TTTCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             hccCCeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            344444  99999999999999999999999887

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=98.24  E-value=6e-07  Score=64.05  Aligned_cols=29  Identities=28%  Similarity=0.226  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..|..+.|.||+|||||||+++|+....
T Consensus       135 i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~~  163 (460)
T 2npi_A          135 NFEGPRVVIVGGSQTGKTSLSRTLCSYAL  163 (460)
T ss_dssp             SSSCCCEEEEESTTSSHHHHHHHHHHTTH
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhCccc
Confidence            56789999999999999999999998763

>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=98.23  E-value=8.9e-07  Score=63.74  Aligned_cols=30  Identities=27%  Similarity=0.303  Sum_probs=26.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..+..++|+||+||||||++++|+..+..
T Consensus       290 i~~GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          290 GKAPFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             SCTTEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            556889999999999999999999988753

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=98.23  E-value=7.8e-07  Score=57.46  Aligned_cols=28  Identities=43%  Similarity=0.519  Sum_probs=24.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.+..++|+||||+|||||+..++...
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~~~   47 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLWNG   47 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            6778999999999999999988877654

>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=98.23  E-value=3.1e-07  Score=62.87  Aligned_cols=31  Identities=26%  Similarity=0.468  Sum_probs=27.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.++..++|.||+|||||||+++++......
T Consensus       168 i~~g~~v~i~G~~GsGKTTll~~l~g~~~~~  198 (330)
T 2pt7_A          168 IAIGKNVIVCGGTGSGKTTYIKSIMEFIPKE  198 (330)
T ss_dssp             HHHTCCEEEEESTTSCHHHHHHHGGGGSCTT
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhCCCcCC
Confidence            6678899999999999999999999987654

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=98.21  E-value=1.2e-06  Score=56.07  Aligned_cols=30  Identities=20%  Similarity=0.327  Sum_probs=28.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      ..|.|.||+||||||+++.+|..++.++++
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            479999999999999999999999999998

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.20  E-value=9.5e-07  Score=58.93  Aligned_cols=27  Identities=22%  Similarity=0.410  Sum_probs=22.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+.|.||||+|||||+++|+.......
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~~~~   30 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQVSRK   30 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            588999999999999999999876543

>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=98.20  E-value=9.3e-07  Score=60.92  Aligned_cols=29  Identities=28%  Similarity=0.400  Sum_probs=26.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..+.|+||||||||||++.++....
T Consensus       128 i~~G~i~~I~G~~GsGKTTL~~~l~~~~~  156 (349)
T 1pzn_A          128 IETQAITEVFGEFGSGKTQLAHTLAVMVQ  156 (349)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            67899999999999999999999998863

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=98.18  E-value=3e-07  Score=70.61  Aligned_cols=43  Identities=21%  Similarity=0.362  Sum_probs=34.3

Q ss_pred             CCcc--ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           2 KFSH--SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         2 ~~~~--~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .|++  ..+++++   +..|..+.|.||+|||||||+++|+..+....
T Consensus       680 ~Y~g~~~~iL~dVSl~I~~GeivaIiGpNGSGKSTLLklLaGll~P~s  727 (986)
T 2iw3_A          680 QYPGTSKPQITDINFQCSLSSRIAVIGPNGAGKSTLINVLTGELLPTS  727 (986)
T ss_dssp             CCTTCSSCSEEEEEEEEETTCEEEECSCCCHHHHHHHHHHTTSSCCSE
T ss_pred             EeCCCCceeeeccEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            4543  3456665   88899999999999999999999998876543

>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=98.17  E-value=1.3e-06  Score=58.81  Aligned_cols=28  Identities=21%  Similarity=0.383  Sum_probs=24.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+..+.|.||+||||||+++.|+..++.
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3567999999999999999999988763

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=98.16  E-value=1.7e-06  Score=56.69  Aligned_cols=31  Identities=26%  Similarity=0.476  Sum_probs=28.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+-|.|||||||||+++.|+..++.++++..
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g~~~is~g   40 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFGIPQISTG   40 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCEECHH
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhCCCeeech
Confidence            5789999999999999999999999988764

>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=98.15  E-value=1.1e-06  Score=61.83  Aligned_cols=32  Identities=28%  Similarity=0.524  Sum_probs=27.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+.++|.||+|||||+|+..+|..++..++..
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~~~iis~   33 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFNGEVINS   33 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHTEEEEEC
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCCCeEeec
Confidence            45789999999999999999999998765543

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=98.15  E-value=1.3e-06  Score=60.48  Aligned_cols=29  Identities=24%  Similarity=0.370  Sum_probs=25.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||||||||+..++....
T Consensus        58 i~~G~i~~I~GppGsGKSTLal~la~~~~   86 (356)
T 3hr8_A           58 YPRGRIVEIFGQESSGKTTLALHAIAEAQ   86 (356)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            55688999999999999999999998764

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=98.15  E-value=2.3e-06  Score=61.39  Aligned_cols=33  Identities=24%  Similarity=0.251  Sum_probs=28.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +.. ..+.|.||+|||||||+++++..+......
T Consensus        27 i~~-e~~~liG~nGsGKSTLl~~l~Gl~~p~~G~   59 (483)
T 3euj_A           27 FDE-LVTTLSGGNGAGKSTTMAGFVTALIPDLTL   59 (483)
T ss_dssp             CCS-SEEEEECCTTSSHHHHHHHHHHHHCCCTTT
T ss_pred             Ecc-ceEEEECCCCCcHHHHHHHHhcCCCCCCCE
Confidence            666 899999999999999999999988765433

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.14  E-value=1.4e-06  Score=63.25  Aligned_cols=34  Identities=29%  Similarity=0.338  Sum_probs=28.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +..|..+.|.||+|||||||+++|+.........
T Consensus       309 i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~  342 (538)
T 1yqt_A          309 IKKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGK  342 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHTSSCCSBCC
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeE
Confidence            4678999999999999999999999887654443

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=98.14  E-value=8.3e-07  Score=64.08  Aligned_cols=31  Identities=19%  Similarity=0.254  Sum_probs=27.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +..+..+++.||+||||||++++++..+...
T Consensus       257 v~~g~~i~I~GptGSGKTTlL~aL~~~i~~~  287 (511)
T 2oap_1          257 IEHKFSAIVVGETASGKTTTLNAIMMFIPPD  287 (511)
T ss_dssp             HHTTCCEEEEESTTSSHHHHHHHHGGGSCTT
T ss_pred             HhCCCEEEEECCCCCCHHHHHHHHHhhCCCC
Confidence            5678889999999999999999999888643

>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=98.14  E-value=5.5e-07  Score=56.95  Aligned_cols=33  Identities=15%  Similarity=0.157  Sum_probs=26.0

Q ss_pred             ccccc-ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924           8 VKSNI-ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus         8 ~~~~~-~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..++ +..+..+.|.|++|+|||||+++++...
T Consensus        17 ~l~~~~~~~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           17 DIRHLPSDTGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             SGGGSSCSCSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CHhHCCCCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33334 6677889999999999999999987544

>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=98.13  E-value=4.4e-07  Score=57.67  Aligned_cols=25  Identities=20%  Similarity=0.489  Sum_probs=22.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.|.|++||||||+++.|+..++.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            5889999999999999999998864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=98.13  E-value=6.2e-07  Score=60.38  Aligned_cols=26  Identities=15%  Similarity=0.419  Sum_probs=20.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..|.|.||+||||||+++.++..++
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45799999999999999999999876

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=98.12  E-value=8.1e-07  Score=64.67  Aligned_cols=29  Identities=31%  Similarity=0.487  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+..+.|.|++||||||++++|+..++
T Consensus       366 ~~~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          366 ERQGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             GGSCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             cccceEEEEECCCCChHHHHHHHHHHhhc
Confidence            44678899999999999999999999986

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=98.12  E-value=1.6e-06  Score=63.77  Aligned_cols=34  Identities=29%  Similarity=0.335  Sum_probs=28.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +..|..+.|.||+|||||||+++|+..+......
T Consensus       379 v~~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~  412 (607)
T 3bk7_A          379 IRKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGK  412 (607)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHTSSCCSBSC
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCceE
Confidence            4678999999999999999999999887654443

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.11  E-value=1.4e-06  Score=63.32  Aligned_cols=35  Identities=17%  Similarity=0.356  Sum_probs=29.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..|..+.|.||+|||||||+++|+.........+
T Consensus       291 i~~Gei~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i  325 (538)
T 3ozx_A          291 AKEGEIIGILGPNGIGKTTFARILVGEITADEGSV  325 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSSCCSBCCE
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEE
Confidence            56789999999999999999999998876554443

>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=98.11  E-value=2.5e-06  Score=57.93  Aligned_cols=29  Identities=31%  Similarity=0.419  Sum_probs=25.5

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..++.++++||+|+||||++..+|..+..
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~  130 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVD  130 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHh
Confidence            45778999999999999999999988753

>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=98.10  E-value=2.3e-06  Score=57.75  Aligned_cols=28  Identities=25%  Similarity=0.377  Sum_probs=24.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..++.++++||+|+||||++..+|..+.
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3577899999999999999999998775

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=98.08  E-value=2.3e-06  Score=59.05  Aligned_cols=29  Identities=24%  Similarity=0.456  Sum_probs=25.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||+|||||+..++....
T Consensus        58 l~~G~iv~I~G~pGsGKTtLal~la~~~~   86 (349)
T 2zr9_A           58 LPRGRVIEIYGPESSGKTTVALHAVANAQ   86 (349)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45788999999999999999999987653

>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=98.08  E-value=2.7e-06  Score=62.79  Aligned_cols=34  Identities=32%  Similarity=0.378  Sum_probs=28.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh---CCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL---SIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~---~~~~~~~~   48 (105)
                      .+..|+|.|++||||||+++.|+..+   +.+++.++
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lD   87 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   87 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEES
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            35679999999999999999999998   77765553

>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=98.06  E-value=1.5e-06  Score=68.63  Aligned_cols=41  Identities=15%  Similarity=0.277  Sum_probs=35.2

Q ss_pred             ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           6 SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         6 ~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      ..+++++   +++|..+.|+||+|||||||++.+.+........
T Consensus       431 ~~vL~~isl~i~~G~~vaivG~sGsGKSTll~ll~~~~~~~~G~  474 (1321)
T 4f4c_A          431 VPILRGMNLRVNAGQTVALVGSSGCGKSTIISLLLRYYDVLKGK  474 (1321)
T ss_dssp             SCSEEEEEEEECTTCEEEEEECSSSCHHHHHHHHTTSSCCSEEE
T ss_pred             CceeeceEEeecCCcEEEEEecCCCcHHHHHHHhccccccccCc
Confidence            4577777   8999999999999999999999999888765443

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=98.06  E-value=1.3e-06  Score=68.75  Aligned_cols=39  Identities=15%  Similarity=0.235  Sum_probs=33.6

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +++|..+.|+||+|||||||++.+++.......
T Consensus       404 ~vL~~isl~i~~G~~~~ivG~sGsGKSTl~~ll~g~~~~~~G  445 (1284)
T 3g5u_A          404 QILKGLNLKVKSGQTVALVGNSGCGKSTTVQLMQRLYDPLDG  445 (1284)
T ss_dssp             CSEEEEEEEECTTCEEEEECCSSSSHHHHHHHTTTSSCCSEE
T ss_pred             cceecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            477777   889999999999999999999999988765433

>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=98.05  E-value=2.6e-06  Score=61.60  Aligned_cols=31  Identities=26%  Similarity=0.320  Sum_probs=26.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+..|+++|.|||||||+++.++..++..++
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~~~   64 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWIGV   64 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCC
Confidence            3457999999999999999999999865543

>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=98.05  E-value=1.7e-06  Score=56.13  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=23.6

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..|..+.|.||+||||||+++.++..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            45778999999999999999999887

>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=98.04  E-value=4.6e-06  Score=50.89  Aligned_cols=25  Identities=36%  Similarity=0.550  Sum_probs=22.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +...+|+||+|+|||+++.+++..+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4578999999999999999998766

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=98.04  E-value=3.4e-06  Score=59.22  Aligned_cols=28  Identities=29%  Similarity=0.447  Sum_probs=24.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.+..+.|+||||||||||++.++...
T Consensus       175 I~~Gei~~I~G~sGsGKTTLl~~la~~~  202 (400)
T 3lda_A          175 VETGSITELFGEFRTGKSQLCHTLAVTC  202 (400)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cCCCcEEEEEcCCCCChHHHHHHHHHHh
Confidence            6678999999999999999999877444

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=98.04  E-value=9e-06  Score=52.50  Aligned_cols=32  Identities=25%  Similarity=0.297  Sum_probs=28.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      -.+-|+|..||||||+++.++. +|.++++.+.
T Consensus        10 ~~iglTGgigsGKStv~~~l~~-~g~~vidaD~   41 (210)
T 4i1u_A           10 YAIGLTGGIGSGKTTVADLFAA-RGASLVDTDL   41 (210)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH-TTCEEEEHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH-CCCcEEECcH
Confidence            4588999999999999999998 9999988775

>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=98.03  E-value=3e-06  Score=61.08  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=24.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHH--HHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKA--VAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~--la~~~   40 (105)
                      ++.|..++|.||||||||||+++  ++...
T Consensus        36 i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~   65 (525)
T 1tf7_A           36 LPIGRSTLVSGTSGTGKTLFSIQFLYNGII   65 (525)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            45789999999999999999999  45544

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=98.03  E-value=2.8e-06  Score=66.95  Aligned_cols=38  Identities=16%  Similarity=0.280  Sum_probs=32.9

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+++++   +.+|..+.|+||+|||||||++.+++.....-
T Consensus      1047 ~~l~~vsl~i~~Ge~v~ivG~sGsGKSTl~~~l~g~~~p~~ 1087 (1284)
T 3g5u_A         1047 PVLQGLSLEVKKGQTLALVGSSGCGKSTVVQLLERFYDPMA 1087 (1284)
T ss_dssp             CSBSSCCEEECSSSEEEEECSSSTTHHHHHHHHTTSSCCSE
T ss_pred             eeecceeEEEcCCCEEEEECCCCCCHHHHHHHHhcCcCCCC
Confidence            467777   88999999999999999999999998776543

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=98.02  E-value=4.3e-06  Score=54.37  Aligned_cols=34  Identities=21%  Similarity=0.345  Sum_probs=30.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ...|.|.|++||||||+++.+|..++.++++.+.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg~~~~d~~~   47 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELGIHFYDDDI   47 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTCEEECHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcCCcEEcHHH
Confidence            3579999999999999999999999999988544

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=98.02  E-value=4.8e-06  Score=57.16  Aligned_cols=29  Identities=24%  Similarity=0.216  Sum_probs=25.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..+.|+||||||||+|+..+|....
T Consensus       119 l~~G~i~~I~G~~GsGKTtla~~la~~~~  147 (343)
T 1v5w_A          119 IESMAITEAFGEFRTGKTQLSHTLCVTAQ  147 (343)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            66788999999999999999999998743

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=98.02  E-value=1.5e-06  Score=54.44  Aligned_cols=27  Identities=26%  Similarity=0.380  Sum_probs=23.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.+.|+||+|||||||++.++..+...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~   29 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRER   29 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            568999999999999999999988644

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=98.02  E-value=4.1e-06  Score=56.99  Aligned_cols=29  Identities=28%  Similarity=0.512  Sum_probs=25.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||+|||+|+..++....
T Consensus       104 l~~G~i~~i~G~~GsGKT~la~~la~~~~  132 (324)
T 2z43_A          104 IETRTMTEFFGEFGSGKTQLCHQLSVNVQ  132 (324)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCCCcEEEEECCCCCCHhHHHHHHHHHHh
Confidence            56788999999999999999999998754

>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=98.01  E-value=1.5e-06  Score=68.56  Aligned_cols=39  Identities=15%  Similarity=0.295  Sum_probs=34.1

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+++++   +++|..+.|+||+|||||||++.+.+.....-+
T Consensus      1093 ~VL~~isl~I~~Ge~vaIVG~SGsGKSTL~~lL~rl~~p~~G 1134 (1321)
T 4f4c_A         1093 EILKGLSFSVEPGQTLALVGPSGCGKSTVVALLERFYDTLGG 1134 (1321)
T ss_dssp             CSEEEEEEEECTTCEEEEECSTTSSTTSHHHHHTTSSCCSSS
T ss_pred             ccccceeEEECCCCEEEEECCCCChHHHHHHHHhcCccCCCC
Confidence            578888   999999999999999999999999987765443

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=98.01  E-value=4.5e-06  Score=56.41  Aligned_cols=34  Identities=26%  Similarity=0.406  Sum_probs=26.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      ..+..+.|.||||+|||||+++|+ ........+.
T Consensus       163 l~G~i~~l~G~sG~GKSTLln~l~-~~~~~~G~i~  196 (302)
T 2yv5_A          163 LEGFICILAGPSGVGKSSILSRLT-GEELRTQEVS  196 (302)
T ss_dssp             TTTCEEEEECSTTSSHHHHHHHHH-SCCCCCSCC-
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHH-HhhCcccccc
Confidence            347789999999999999999999 7665544443

>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=98.01  E-value=5.1e-06  Score=52.10  Aligned_cols=26  Identities=31%  Similarity=0.367  Sum_probs=23.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+.+.+.||+||||||+++.+...+.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            45789999999999999999998764

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=98.00  E-value=4.2e-06  Score=52.34  Aligned_cols=28  Identities=21%  Similarity=0.127  Sum_probs=24.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+.+.|++||||||++..++..+...
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            3578999999999999999999887543

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=98.00  E-value=1.1e-05  Score=50.88  Aligned_cols=42  Identities=26%  Similarity=0.284  Sum_probs=31.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPN   57 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~   57 (105)
                      .++.++|.|+||+||||++..+... +..++.-+...+.....
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r-G~~lvaDD~v~i~~~~~   56 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR-GHQLVCDDVIDLKQENN   56 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT-TCEEEESSEEEEEESSS
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc-CCeEecCCEEEEEEeCC
Confidence            5789999999999999999999874 55555555544444344

>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=98.00  E-value=2.9e-06  Score=57.33  Aligned_cols=35  Identities=20%  Similarity=0.380  Sum_probs=20.1

Q ss_pred             CCcccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924           2 KFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus         2 ~~~~~~~~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|++..+.+++   .-.++|.||+|+|||||++.|+..
T Consensus         7 ~~~~~~~l~~~---~~~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A            7 QVHRKSVKKGF---EFTLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             --------------CEEEEEEEETTSSHHHHHHHHHC-
T ss_pred             eECCEEEEcCC---CEEEEEECCCCCCHHHHHHHHhCC
Confidence            45555555543   345799999999999999998754

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.00  E-value=3.7e-06  Score=58.06  Aligned_cols=27  Identities=30%  Similarity=0.424  Sum_probs=23.5

Q ss_pred             CCceEEE--EcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLL--HGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill--~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+..++|  +||+|+|||++++.+++.+.
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~   77 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVS   77 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHH
Confidence            4567899  99999999999999998763

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.99  E-value=3.9e-06  Score=58.17  Aligned_cols=31  Identities=29%  Similarity=0.413  Sum_probs=26.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC-CCcc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS-IRLQ   45 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~-~~~~   45 (105)
                      .+..+.|.||||+|||||+++|+.... ....
T Consensus       214 ~G~~~~lvG~sG~GKSTLln~L~g~~~~~~~G  245 (358)
T 2rcn_A          214 TGRISIFAGQSGVGKSSLLNALLGLQNEILTN  245 (358)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHCCSSCCCCC
T ss_pred             CCCEEEEECCCCccHHHHHHHHhccccccccC
Confidence            577899999999999999999998776 4433

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=97.99  E-value=3.2e-06  Score=57.06  Aligned_cols=33  Identities=27%  Similarity=0.464  Sum_probs=26.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      ..+..+.|.||||+|||||+++|+.........
T Consensus       167 l~geiv~l~G~sG~GKSTll~~l~g~~~~~~G~  199 (301)
T 1u0l_A          167 LKGKISTMAGLSGVGKSSLLNAINPGLKLRVSE  199 (301)
T ss_dssp             HSSSEEEEECSTTSSHHHHHHHHSTTCCCC---
T ss_pred             hcCCeEEEECCCCCcHHHHHHHhcccccccccc
Confidence            357789999999999999999999877654433

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=97.99  E-value=5.4e-06  Score=61.10  Aligned_cols=26  Identities=35%  Similarity=0.701  Sum_probs=19.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .....+|.||||||||+.+-.+..++
T Consensus       204 ~~~~~lI~GPPGTGKT~ti~~~I~~l  229 (646)
T 4b3f_X          204 QKELAIIHGPPGTGKTTTVVEIILQA  229 (646)
T ss_dssp             CSSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            34578999999999998655544433

>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=97.99  E-value=6.2e-06  Score=53.20  Aligned_cols=30  Identities=33%  Similarity=0.424  Sum_probs=26.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+..|.|.|++||||||+++.++..+....
T Consensus         5 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~~~   34 (213)
T 4edh_A            5 TGLFVTLEGPEGAGKSTNRDYLAERLRERG   34 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHTTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence            367899999999999999999999887543

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=97.98  E-value=7.9e-06  Score=57.48  Aligned_cols=31  Identities=26%  Similarity=0.511  Sum_probs=26.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +..+...+|+||+|+|||+++++++..++..
T Consensus        23 ~~~~~~~~i~G~nG~GKstll~ai~~~~~~~   53 (430)
T 1w1w_A           23 FGESNFTSIIGPNGSGKSNMMDAISFVLGVR   53 (430)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHTTC-
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhhhccc
Confidence            3456789999999999999999999887654

>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=97.98  E-value=4.5e-06  Score=59.43  Aligned_cols=31  Identities=23%  Similarity=0.369  Sum_probs=26.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +..++++|.|||||||+++.++..++..+.+
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~~~   69 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIGVP   69 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccCCC
Confidence            4579999999999999999999987654443

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.97  E-value=5.6e-06  Score=53.44  Aligned_cols=27  Identities=37%  Similarity=0.484  Sum_probs=23.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ++.|..++|.|+||+|||+|+..+|..
T Consensus        27 l~~G~l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           27 FPEGTTVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            667889999999999999999887644

>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=97.97  E-value=4.9e-06  Score=52.18  Aligned_cols=25  Identities=28%  Similarity=0.356  Sum_probs=22.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      -.+.|.|++|+|||||++.++...-
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCC
Confidence            4689999999999999999997653

>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=97.97  E-value=5.5e-06  Score=52.08  Aligned_cols=24  Identities=29%  Similarity=0.409  Sum_probs=21.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+.|.|++|+|||||++.++...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999999764

>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=97.96  E-value=5.4e-06  Score=55.90  Aligned_cols=26  Identities=31%  Similarity=0.438  Sum_probs=23.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.++|+||+|+|||+|++.+++..+.
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~~~   56 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINELNL   56 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHTC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhcCC
Confidence            58999999999999999999998764

>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=97.96  E-value=5.3e-06  Score=58.56  Aligned_cols=24  Identities=21%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++|+||+|+|||||++.++....
T Consensus        33 ~I~lvG~sGaGKSTLln~L~g~~~   56 (418)
T 2qag_C           33 TLMVVGESGLGKSTLINSLFLTDL   56 (418)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTCCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCC
Confidence            479999999999999999987653

>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=97.95  E-value=6.1e-06  Score=59.59  Aligned_cols=28  Identities=11%  Similarity=0.061  Sum_probs=25.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+..++|.|.+||||||++++|++.++.
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            4568999999999999999999999986

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=97.95  E-value=6.4e-06  Score=53.56  Aligned_cols=26  Identities=19%  Similarity=0.379  Sum_probs=23.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+.+.|++||||||+++.++..++
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            56799999999999999999999984

>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=97.95  E-value=3.6e-06  Score=53.15  Aligned_cols=25  Identities=20%  Similarity=0.401  Sum_probs=21.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ++++|++|||||++|+.++.. +.+.
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            789999999999999999977 6543

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.95  E-value=7.7e-06  Score=55.81  Aligned_cols=30  Identities=27%  Similarity=0.283  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ...++.++++||+|+||||++..+|..+..
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~  131 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAE  131 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            456788999999999999999999988764

>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=97.94  E-value=6.5e-06  Score=56.97  Aligned_cols=29  Identities=31%  Similarity=0.497  Sum_probs=25.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||+|||||+..++....
T Consensus        60 l~~G~ii~I~G~pGsGKTtLal~la~~~~   88 (356)
T 1u94_A           60 LPMGRIVEIYGPESSGKTTLTLQVIAAAQ   88 (356)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45788999999999999999999987653

>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=97.93  E-value=8.2e-06  Score=52.12  Aligned_cols=28  Identities=32%  Similarity=0.437  Sum_probs=24.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +...+|+||+|+||||++.+|...+..+
T Consensus        23 ~~~~~I~G~NgsGKStil~ai~~~l~g~   50 (203)
T 3qks_A           23 EGINLIIGQNGSGKSSLLDAILVGLYWP   50 (203)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence            4678999999999999999999888763

>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=97.93  E-value=6.1e-06  Score=55.88  Aligned_cols=28  Identities=25%  Similarity=0.343  Sum_probs=25.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.+..++|+||||+|||+|+..+|...
T Consensus        95 l~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           95 LESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5678899999999999999999999764

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=97.93  E-value=6.3e-06  Score=59.43  Aligned_cols=30  Identities=27%  Similarity=0.401  Sum_probs=26.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..|..++|.||||||||||++.++.....
T Consensus       278 i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~  307 (525)
T 1tf7_A          278 FFKDSIILATGATGTGKTLLVSRFVENACA  307 (525)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            677899999999999999999999987643

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=97.93  E-value=4e-06  Score=59.11  Aligned_cols=25  Identities=24%  Similarity=0.315  Sum_probs=22.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.|.||||+|||||+++++.....
T Consensus        71 ~valvG~nGaGKSTLln~L~Gl~~p   95 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRGIGNE   95 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTCCTT
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCc
Confidence            8999999999999999999986543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.92  E-value=7.8e-06  Score=60.17  Aligned_cols=29  Identities=34%  Similarity=0.503  Sum_probs=25.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +..+.|.||+|||||||+++|+..+....
T Consensus       378 GEiv~iiG~NGsGKSTLlk~l~Gl~~p~~  406 (608)
T 3j16_B          378 SEILVMMGENGTGKTTLIKLLAGALKPDE  406 (608)
T ss_dssp             TCEEEEESCTTSSHHHHHHHHHTSSCCSB
T ss_pred             ceEEEEECCCCCcHHHHHHHHhcCCCCCC
Confidence            46799999999999999999998876543

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=97.91  E-value=8e-06  Score=56.56  Aligned_cols=24  Identities=38%  Similarity=0.724  Sum_probs=21.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+|+||+||||||+..+|+..+
T Consensus        24 g~~~i~G~NGaGKTTll~ai~~al   47 (365)
T 3qf7_A           24 GITVVEGPNGAGKSSLFEAISFAL   47 (365)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            378899999999999999998665

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=97.91  E-value=8.6e-06  Score=61.35  Aligned_cols=25  Identities=28%  Similarity=0.494  Sum_probs=23.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.+.|.||||+||||+++.++...
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhh
Confidence            8899999999999999999998754

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.89  E-value=1e-05  Score=54.52  Aligned_cols=27  Identities=30%  Similarity=0.300  Sum_probs=23.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++.++|+||+|+|||+|++.+++..+
T Consensus        30 ~~~~v~i~G~~G~GKT~Ll~~~~~~~~   56 (350)
T 2qen_A           30 NYPLTLLLGIRRVGKSSLLRAFLNERP   56 (350)
T ss_dssp             HCSEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             cCCeEEEECCCcCCHHHHHHHHHHHcC
Confidence            357899999999999999999988753

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.89  E-value=1e-05  Score=50.92  Aligned_cols=25  Identities=20%  Similarity=0.359  Sum_probs=20.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..++++||+|+||||++..++...
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999986666544

>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=97.88  E-value=8.4e-06  Score=59.60  Aligned_cols=26  Identities=23%  Similarity=0.429  Sum_probs=24.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..++|.|++||||||+++.|+..++
T Consensus       396 ~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            45799999999999999999999987

>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=97.88  E-value=9.5e-06  Score=57.53  Aligned_cols=28  Identities=25%  Similarity=0.330  Sum_probs=24.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+..+++.||+|+||||++..+|..+..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999999999977753

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.87  E-value=1.5e-06  Score=59.14  Aligned_cols=34  Identities=26%  Similarity=0.483  Sum_probs=23.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +..+..+.|.||||+|||||+++|+.........
T Consensus       170 ~~~G~~~~lvG~sG~GKSTLln~L~g~~~~~~G~  203 (307)
T 1t9h_A          170 HFQDKTTVFAGQSGVGKSSLLNAISPELGLRTNE  203 (307)
T ss_dssp             GGTTSEEEEEESHHHHHHHHHHHHCC--------
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHhcccccccccc
Confidence            4468899999999999999999998776544433

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=97.87  E-value=1.6e-05  Score=55.89  Aligned_cols=30  Identities=33%  Similarity=0.506  Sum_probs=26.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..|..+.|+||+|+|||+|++.+++..+.
T Consensus       171 i~rGQr~~IvG~sG~GKTtLl~~Iar~i~~  200 (422)
T 3ice_A          171 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAY  200 (422)
T ss_dssp             CBTTCEEEEECCSSSSHHHHHHHHHHHHHH
T ss_pred             ecCCcEEEEecCCCCChhHHHHHHHHHHhh
Confidence            667889999999999999999999987753

>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=97.87  E-value=8.9e-06  Score=53.34  Aligned_cols=29  Identities=21%  Similarity=0.438  Sum_probs=25.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+..+.+.|++||||||+++.++..+...
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~~~   54 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQQN   54 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            36789999999999999999999988643

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=97.86  E-value=1.4e-05  Score=51.77  Aligned_cols=28  Identities=32%  Similarity=0.576  Sum_probs=25.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|..+.+.|++||||||+++.++..++.
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            4788999999999999999999999974

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=97.86  E-value=6.5e-06  Score=63.04  Aligned_cols=32  Identities=38%  Similarity=0.454  Sum_probs=25.8

Q ss_pred             cccccc---ccCCceEEEEcCCCCCHHHHHHHHHH
Q psy4924           7 KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus         7 ~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+..++   +..++.+.|.||+|+||||+++.++.
T Consensus       661 ~V~ndvsl~~~~g~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          661 YVPNNTDLSEDSERVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             SCCEEEEECTTSCCEEEEESCCCHHHHHHHHHHHH
T ss_pred             eecccccccCCCCeEEEEECCCCCchHHHHHHHHH
Confidence            344444   45688999999999999999999874

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=97.86  E-value=1e-05  Score=52.82  Aligned_cols=29  Identities=21%  Similarity=0.362  Sum_probs=22.5

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..+..|.|.||+||||||+++.++..+..
T Consensus        23 ~~g~~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           23 ARGKFITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             CCCCEEEEECCC---CHHHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34678999999999999999999998854

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=97.86  E-value=2.8e-06  Score=59.20  Aligned_cols=29  Identities=21%  Similarity=0.315  Sum_probs=26.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.++ .+.|+||||+|||||+++|+..++.
T Consensus        58 ~~~G-~~~lvG~NGaGKStLl~aI~~l~~~   86 (415)
T 4aby_A           58 LGGG-FCAFTGETGAGKSIIVDALGLLLGG   86 (415)
T ss_dssp             CCSS-EEEEEESHHHHHHHHTHHHHHHTTC
T ss_pred             cCCC-cEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5667 8999999999999999999988875

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.85  E-value=1.5e-05  Score=54.10  Aligned_cols=29  Identities=28%  Similarity=0.421  Sum_probs=26.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.+|..++|.|+||+|||+|+..+|....
T Consensus        65 l~~G~l~li~G~pG~GKTtl~l~ia~~~a   93 (315)
T 3bh0_A           65 YKRRNFVLIAARPSMGKTAFALKQAKNMS   93 (315)
T ss_dssp             BCTTCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            67788999999999999999999987664

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.84  E-value=5.6e-06  Score=61.30  Aligned_cols=25  Identities=32%  Similarity=0.545  Sum_probs=22.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVA   37 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la   37 (105)
                      ++.|..+.|.||||||||||++++.
T Consensus       345 I~~Ge~vaIiGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          345 IPLGTFVAVTGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             EETTSEEEEECSTTSSHHHHHTTTH
T ss_pred             ecCCCEEEEEeeCCCCHHHHHHHHH
Confidence            7789999999999999999997653

>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=97.83  E-value=4.8e-06  Score=54.86  Aligned_cols=28  Identities=14%  Similarity=0.264  Sum_probs=24.4

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..+..|+|.|++||||||+++.|+..+.
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3467899999999999999999999883

>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=97.83  E-value=1.5e-05  Score=54.47  Aligned_cols=28  Identities=32%  Similarity=0.437  Sum_probs=23.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +...+|+||+|+|||+++.+|+..+..+
T Consensus        23 ~~~~~i~G~NGsGKS~lleAi~~~l~~~   50 (339)
T 3qkt_A           23 EGINLIIGQNGSGKSSLLDAILVGLYWP   50 (339)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHCS
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            4578999999999999999997766543

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=97.82  E-value=3.3e-06  Score=55.10  Aligned_cols=27  Identities=30%  Similarity=0.331  Sum_probs=23.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ..+.|.||+||||||++++|+..+...
T Consensus        28 ~~~~i~GpnGsGKSTll~~i~g~~~~~   54 (227)
T 1qhl_A           28 LVTTLSGGNGAGKSTTMAAFVTALIPD   54 (227)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcccccC
Confidence            457889999999999999999998754

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=97.82  E-value=1.4e-05  Score=61.81  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=20.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVA   37 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la   37 (105)
                      ++.++|.||+|+||||+++.++
T Consensus       789 g~i~~ItGpNgsGKSTlLr~iG  810 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQAG  810 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHH
Confidence            6899999999999999999983

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.82  E-value=1.7e-05  Score=56.21  Aligned_cols=29  Identities=21%  Similarity=0.483  Sum_probs=26.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.+|..++|.|+||+|||+|+..++....
T Consensus       200 l~~G~liiI~G~pG~GKTtl~l~ia~~~~  228 (454)
T 2r6a_A          200 FQRSDLIIVAARPSVGKTAFALNIAQNVA  228 (454)
T ss_dssp             BCTTCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            67788999999999999999999987664

>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=97.81  E-value=1.3e-05  Score=55.60  Aligned_cols=29  Identities=31%  Similarity=0.505  Sum_probs=25.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||+|||+|+..++....
T Consensus        71 l~~G~li~I~G~pGsGKTtlal~la~~~~   99 (366)
T 1xp8_A           71 IPRGRITEIYGPESGGKTTLALAIVAQAQ   99 (366)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             ccCCcEEEEEcCCCCChHHHHHHHHHHHH
Confidence            45688899999999999999999887653

>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=97.81  E-value=1.8e-05  Score=53.29  Aligned_cols=28  Identities=25%  Similarity=0.229  Sum_probs=25.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .++.+.++|++|+||||++..+|..+..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~  124 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG  124 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6778999999999999999999988753

>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=97.81  E-value=1.2e-05  Score=49.47  Aligned_cols=26  Identities=35%  Similarity=0.514  Sum_probs=22.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+..++|.|++|+|||||++.++...
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35679999999999999999998653

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=97.80  E-value=1.4e-05  Score=61.29  Aligned_cols=25  Identities=16%  Similarity=0.278  Sum_probs=22.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVA   37 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la   37 (105)
                      +..++.++|.||+|+||||+++.++
T Consensus       659 ~~~g~i~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          659 KDKQMFHIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             TTTBCEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHH
Confidence            4557889999999999999999984

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.80  E-value=1.3e-05  Score=64.69  Aligned_cols=31  Identities=29%  Similarity=0.444  Sum_probs=26.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++.|+.++++||||||||+||++++.+-...
T Consensus      1079 ~p~g~~~l~~G~~g~GKT~la~~~~~~~~~~ 1109 (1706)
T 3cmw_A         1079 LPMGRIVEIYGPESSGKTTLTLQVIAAAQRE 1109 (1706)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCCEEEEEcCCCCChHHHHHHHHHHhhhc
Confidence            4567889999999999999999999876543

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=97.80  E-value=1.7e-05  Score=51.63  Aligned_cols=28  Identities=29%  Similarity=0.357  Sum_probs=25.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+..|.+.|++||||||+++.++..++.
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4678999999999999999999998865

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=97.80  E-value=1.6e-05  Score=55.03  Aligned_cols=30  Identities=30%  Similarity=0.304  Sum_probs=24.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.++ ..+|+||+|+|||+++++++......
T Consensus        24 ~~~g-~~~i~G~nG~GKttll~ai~~~~~g~   53 (359)
T 2o5v_A           24 FPEG-VTGIYGENGAGKTNLLEAAYLALTGQ   53 (359)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHHHHHSC
T ss_pred             EcCC-eEEEECCCCCChhHHHHHHHHhccCC
Confidence            3444 89999999999999999998755433

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=97.80  E-value=1.6e-05  Score=60.21  Aligned_cols=26  Identities=23%  Similarity=0.427  Sum_probs=23.3

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      +.++.+.|.||||+||||++++++..
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHH
Confidence            45778999999999999999999875

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=97.80  E-value=1.2e-05  Score=57.84  Aligned_cols=35  Identities=17%  Similarity=0.220  Sum_probs=24.4

Q ss_pred             cCCEEEEEeeCCCC-----------CCCHHhhcccceEEE-eCCCCH
Q psy4924          55 YPNVLIFTTSNLTG-----------AIDLAFLDRADIKQY-IGFPSA   89 (105)
Q Consensus        55 ~~~~~~~~~~n~~~-----------~~d~~~~~r~~~~~~-~~~~~~   89 (105)
                      ..++.+++|+|...           .+..++++|||+... .++|+.
T Consensus       337 parf~VIAA~NP~~~yd~~~s~~~~~Lp~alLDRFDLi~i~~d~pd~  383 (506)
T 3f8t_A          337 NARCAVLAAINPGEQWPSDPPIARIDLDQDFLSHFDLIAFLGVDPRP  383 (506)
T ss_dssp             ECCCEEEEEECCCC--CCSCGGGGCCSCHHHHTTCSEEEETTC----
T ss_pred             CCCeEEEEEeCcccccCCCCCccccCCChHHhhheeeEEEecCCCCh
Confidence            35678999999864           788899999988654 456643

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=97.79  E-value=1.8e-05  Score=47.52  Aligned_cols=24  Identities=33%  Similarity=0.537  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.++...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999998654

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=97.78  E-value=1.7e-05  Score=48.42  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+.+.|++|+|||||++.++..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999864

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.78  E-value=1.5e-05  Score=65.11  Aligned_cols=31  Identities=29%  Similarity=0.444  Sum_probs=26.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++.++.++|+|||||||||||.+++.+....
T Consensus      1424 i~~g~~vll~GppGtGKT~LA~ala~ea~~~ 1454 (2050)
T 3cmu_A         1424 LPMGRIVEIYGPESSGKTTLTLQVIAAAQRE 1454 (2050)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4578999999999999999999998877543

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=97.78  E-value=2.1e-05  Score=50.80  Aligned_cols=28  Identities=25%  Similarity=0.457  Sum_probs=24.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      |..|.+.|++||||||.++.++..+...
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~~~   30 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLEQL   30 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            6789999999999999999999988643

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.78  E-value=2.1e-05  Score=54.16  Aligned_cols=25  Identities=36%  Similarity=0.583  Sum_probs=22.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..+.|.|+||+|||||+++++..+
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            5679999999999999999999764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=97.78  E-value=1.2e-05  Score=54.70  Aligned_cols=24  Identities=38%  Similarity=0.537  Sum_probs=21.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +.++|.|++||||||+++.+....
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc
Confidence            568999999999999999999764

>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=97.78  E-value=1.3e-05  Score=49.70  Aligned_cols=22  Identities=27%  Similarity=0.575  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||||++.++..
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            6899999999999999999863

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=97.77  E-value=2.3e-05  Score=47.83  Aligned_cols=27  Identities=30%  Similarity=0.414  Sum_probs=23.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ......+++.|++|+|||||++.+...
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            345678999999999999999999753

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.77  E-value=2.3e-05  Score=55.59  Aligned_cols=26  Identities=38%  Similarity=0.602  Sum_probs=23.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ..++|.||+|||||+++..++..+..
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l~~   71 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEALIS   71 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            48999999999999999999887753

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.76  E-value=1.9e-05  Score=54.18  Aligned_cols=27  Identities=15%  Similarity=0.314  Sum_probs=22.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.+ .++|+||||+|||||+..++...
T Consensus        26 l~~G-iteI~G~pGsGKTtL~Lq~~~~~   52 (333)
T 3io5_A           26 MQSG-LLILAGPSKSFKSNFGLTMVSSY   52 (333)
T ss_dssp             BCSE-EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             CcCC-eEEEECCCCCCHHHHHHHHHHHH
Confidence            5567 79999999999999988776655

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.76  E-value=0.00011  Score=62.12  Aligned_cols=81  Identities=20%  Similarity=0.115  Sum_probs=61.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce---------------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA---------------------------------------------   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~---------------------------------------------   49 (105)
                      ...+..+.||+|+|||.+++.+|+.+|.+.+....                                             
T Consensus       603 ~~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~~~~g~i~~G~~~~GaW~cfDEfNrl~~~vLSvv~~qi~~  682 (3245)
T 3vkg_A          603 SRMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGAWGCFDEFNRLEERILSAVSQQIQT  682 (3245)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCHHHHHHHHHHHHHHTCEEEEETTTSSCHHHHHHHHHHHHH
T ss_pred             hcCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHhhHhhcCcEEEehhhhcCCHHHHHHHHHHHHH
Confidence            35667899999999999999999999988765443                                             


Q ss_pred             -----------e------eecccCCEEEEEeeCC----CCCCCHHhhcccceEEEeCCCCHHHHHHHH
Q psy4924          50 -----------I------FFKKYPNVLIFTTSNL----TGAIDLAFLDRADIKQYIGFPSAAAIFNIF   96 (105)
Q Consensus        50 -----------~------~~~~~~~~~~~~~~n~----~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~   96 (105)
                                 +      .+...+...++.|.|.    ...++.++..||-. +.+..|+.+...++.
T Consensus       683 I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lFr~-v~m~~Pd~~~i~ei~  749 (3245)
T 3vkg_A          683 IQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRS-MAMIKPDREMIAQVM  749 (3245)
T ss_dssp             HHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTEEE-EECCSCCHHHHHHHH
T ss_pred             HHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhcEE-EEEeCCCHHHHHHHH
Confidence                       0      1223345667888874    36888988888855 788999988776664

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.76  E-value=1.3e-05  Score=59.41  Aligned_cols=26  Identities=42%  Similarity=0.654  Sum_probs=22.5

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHH
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~   33 (105)
                      +++++   ++.|..+.|.||||||||||+
T Consensus        33 ~L~~vsl~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           33 NLKNIDVEIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             TCCSEEEEEETTSEEEEECSTTSSHHHHH
T ss_pred             ceeccEEEECCCCEEEEECCCCCCHHHHh
Confidence            45555   788999999999999999997

>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=97.75  E-value=0.00037  Score=43.18  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+++.|++|+|||||++.+....
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            69999999999999998877643

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=97.75  E-value=2.6e-05  Score=48.38  Aligned_cols=25  Identities=28%  Similarity=0.525  Sum_probs=22.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...++++|++|+|||||+..++...
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4579999999999999999998754

>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=97.74  E-value=2.6e-05  Score=55.48  Aligned_cols=29  Identities=28%  Similarity=0.428  Sum_probs=25.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+..++++|++|+||||++..+|..+...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            36789999999999999999999877643

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=97.74  E-value=1.9e-05  Score=48.75  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+++.|++|+|||||++.++..
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999999864

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.74  E-value=2.8e-05  Score=50.59  Aligned_cols=29  Identities=21%  Similarity=0.222  Sum_probs=23.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      -..+..++++||+|+||||++..++....
T Consensus         9 ~~~G~i~litG~mGsGKTT~ll~~~~r~~   37 (223)
T 2b8t_A            9 KKIGWIEFITGPMFAGKTAELIRRLHRLE   37 (223)
T ss_dssp             --CCEEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             cCCcEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            34577899999999999999888877764

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=97.73  E-value=2.4e-05  Score=47.19  Aligned_cols=24  Identities=17%  Similarity=0.313  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998653

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.72  E-value=2.9e-05  Score=49.21  Aligned_cols=25  Identities=28%  Similarity=0.525  Sum_probs=22.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...++++|++|+|||||+..++...
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4579999999999999999998765

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.72  E-value=2.7e-05  Score=56.96  Aligned_cols=26  Identities=50%  Similarity=0.750  Sum_probs=23.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+.++|.|||||||||++.+++..+.
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~  229 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAE  229 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999999987664

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.72  E-value=2.1e-05  Score=53.44  Aligned_cols=25  Identities=32%  Similarity=0.622  Sum_probs=22.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+|+||+|+|||++++++...++
T Consensus        25 g~~~i~G~NGsGKS~ll~ai~~llg   49 (322)
T 1e69_A           25 RVTAIVGPNGSGKSNIIDAIKWVFG   49 (322)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHHTSC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhC
Confidence            3899999999999999999997653

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=97.71  E-value=2.9e-05  Score=46.66  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            469999999999999999988643

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=97.70  E-value=2.7e-05  Score=46.68  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+++.|++|+|||||++.+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            58999999999999999998653

>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=97.68  E-value=3.6e-05  Score=52.75  Aligned_cols=28  Identities=25%  Similarity=0.368  Sum_probs=24.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+..+.+.|+||+||||+++.++..+
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4567789999999999999999998765

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=97.68  E-value=3.4e-05  Score=54.55  Aligned_cols=29  Identities=21%  Similarity=0.383  Sum_probs=25.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.++..++|.|+||+|||+|+..+|....
T Consensus       197 l~~G~l~ii~G~pg~GKT~lal~ia~~~a  225 (444)
T 2q6t_A          197 LGPGSLNIIAARPAMGKTAFALTIAQNAA  225 (444)
T ss_dssp             CCTTCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            66788999999999999999999987654

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.68  E-value=3.3e-05  Score=46.61  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            368999999999999999998654

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=97.68  E-value=3.4e-05  Score=46.40  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.+...-
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            469999999999999999998643

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=97.67  E-value=3.5e-05  Score=46.56  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=21.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
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            469999999999999999998654

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=97.67  E-value=4.3e-05  Score=46.26  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=21.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ....+++.|++|+|||||++.+...
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3567999999999999999999754

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=97.67  E-value=3.6e-05  Score=46.56  Aligned_cols=24  Identities=33%  Similarity=0.286  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            469999999999999999998653

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=97.67  E-value=3.2e-05  Score=46.99  Aligned_cols=24  Identities=50%  Similarity=0.620  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
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            469999999999999999997543

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=97.67  E-value=3.5e-05  Score=46.98  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            469999999999999999998643

>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=97.67  E-value=2.5e-05  Score=55.29  Aligned_cols=26  Identities=35%  Similarity=0.567  Sum_probs=23.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..++++|++|+||||++..+|..+.
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~  124 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQ  124 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45799999999999999999998764

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=97.67  E-value=3.6e-05  Score=47.02  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.+....
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            469999999999999999988643

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=97.65  E-value=3.4e-05  Score=46.62  Aligned_cols=23  Identities=30%  Similarity=0.471  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
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            46899999999999999999854

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=97.65  E-value=3.4e-05  Score=46.64  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999863

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=97.65  E-value=4.2e-05  Score=48.60  Aligned_cols=26  Identities=27%  Similarity=0.429  Sum_probs=23.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+++.|++|+|||||+..++....
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            45799999999999999999998764

>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=97.64  E-value=4.2e-05  Score=46.07  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999999864

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=97.63  E-value=0.00066  Score=42.42  Aligned_cols=25  Identities=32%  Similarity=0.344  Sum_probs=21.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+++.|++|+|||||++.+....
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCC
Confidence            3469999999999999999998654

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=97.63  E-value=3.9e-05  Score=46.42  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+++.|++|+|||||++.+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999874

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=97.63  E-value=4.3e-05  Score=46.06  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
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            46899999999999999999864

>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=97.63  E-value=4.9e-05  Score=53.77  Aligned_cols=29  Identities=24%  Similarity=0.252  Sum_probs=25.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+..+++.||+|+||||++..+|..+...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            57789999999999999999999988654

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=97.62  E-value=4.3e-05  Score=47.06  Aligned_cols=23  Identities=30%  Similarity=0.315  Sum_probs=20.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
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            47999999999999999999864

>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=97.62  E-value=3.6e-05  Score=51.97  Aligned_cols=26  Identities=35%  Similarity=0.425  Sum_probs=23.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..+++.|++|+||||++..+|..+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~  123 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK  123 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            77899999999999999999998775

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=97.61  E-value=4.4e-05  Score=46.57  Aligned_cols=24  Identities=33%  Similarity=0.430  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCc
Confidence            369999999999999999998643

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=97.61  E-value=3.9e-05  Score=55.77  Aligned_cols=27  Identities=30%  Similarity=0.455  Sum_probs=24.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..+++.|++||||||+++.++..++.
T Consensus       372 ~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          372 GFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            567999999999999999999998764

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=97.61  E-value=5.1e-05  Score=45.68  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+++.|++|+|||+|++.+....
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999997643

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=97.61  E-value=4.7e-05  Score=48.63  Aligned_cols=22  Identities=32%  Similarity=0.608  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+++|+||||||+++..+...
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~   28 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMAN   28 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            6899999999999998886444

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=97.60  E-value=6.8e-05  Score=54.24  Aligned_cols=23  Identities=26%  Similarity=0.556  Sum_probs=21.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+.+.|+|+.|+||||||+.+++
T Consensus       152 ~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          152 SFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            47899999999999999999996

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=97.60  E-value=4.9e-05  Score=47.05  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=21.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .-.+++.|++|+|||||++.+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346999999999999999999875

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=97.60  E-value=5e-05  Score=46.68  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            368999999999999999998644

>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=97.60  E-value=3.8e-05  Score=46.34  Aligned_cols=21  Identities=43%  Similarity=0.751  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+++.|++|+|||||++.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            589999999999999999864

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=97.59  E-value=4.6e-05  Score=46.45  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+++.|++|+|||||++.+...
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            47999999999999999999875

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=97.59  E-value=5.2e-05  Score=46.14  Aligned_cols=25  Identities=24%  Similarity=0.301  Sum_probs=21.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+++.|++|+|||||++.+....
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3479999999999999999998654

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=97.59  E-value=5.2e-05  Score=46.92  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=21.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.++...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            369999999999999999998653

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=97.59  E-value=4.7e-05  Score=46.33  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46999999999999999999854

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=97.59  E-value=5.6e-05  Score=46.23  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
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            36999999999999999999864

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=97.59  E-value=6e-05  Score=51.84  Aligned_cols=29  Identities=24%  Similarity=0.321  Sum_probs=25.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.++..++|.|+||+|||+|+..+|....
T Consensus        43 l~~G~LiiIaG~pG~GKTt~al~ia~~~a   71 (338)
T 4a1f_A           43 FNKGSLVIIGARPSMGKTSLMMNMVLSAL   71 (338)
T ss_dssp             BCTTCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            67788999999999999999999987764

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=97.58  E-value=5.4e-05  Score=46.40  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=21.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.+....
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCC
Confidence            469999999999999999998643

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=97.58  E-value=5.4e-05  Score=47.02  Aligned_cols=24  Identities=33%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            469999999999999999998754

>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=97.58  E-value=7.8e-05  Score=50.84  Aligned_cols=35  Identities=23%  Similarity=0.422  Sum_probs=27.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccccee
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~   50 (105)
                      .+..++|.|+||+||||++..+... +..+..-+..
T Consensus       143 ~g~~vl~~G~sG~GKSt~a~~l~~~-g~~lv~dD~~  177 (314)
T 1ko7_A          143 YGVGVLITGDSGIGKSETALELIKR-GHRLVADDNV  177 (314)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT-TCEEEESSEE
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHhc-CCceecCCeE
Confidence            4789999999999999999999875 5555544443

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=97.58  E-value=6.1e-05  Score=48.00  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=22.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+++.|++|+|||||+..++....
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            46789999999999999999998753

>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=97.58  E-value=5e-05  Score=47.38  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=20.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+++.|++|+|||||++.++..
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999999864

>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=97.57  E-value=5.1e-05  Score=46.90  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999875

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=97.57  E-value=5.2e-05  Score=46.23  Aligned_cols=23  Identities=35%  Similarity=0.463  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
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            46999999999999999998753

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=97.57  E-value=4.8e-05  Score=47.21  Aligned_cols=24  Identities=21%  Similarity=0.369  Sum_probs=21.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+++.|++|+|||||++.+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999754

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=97.56  E-value=5.3e-05  Score=46.59  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=21.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .-.+++.|++|+|||||++.+....
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3479999999999999999998654

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=97.56  E-value=5.9e-05  Score=52.84  Aligned_cols=27  Identities=22%  Similarity=0.336  Sum_probs=24.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      +..+..+.|.|+||+|||||.++++..
T Consensus        17 v~~g~~vgiVG~pnaGKSTL~n~Ltg~   43 (392)
T 1ni3_A           17 PGNNLKTGIVGMPNVGKSTFFRAITKS   43 (392)
T ss_dssp             SSSCCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHCC
Confidence            556778999999999999999999983

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=97.55  E-value=5.2e-05  Score=46.85  Aligned_cols=25  Identities=28%  Similarity=0.356  Sum_probs=21.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+++.|++|+|||||++.+...-
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            3479999999999999999998654

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=97.55  E-value=5.2e-05  Score=49.04  Aligned_cols=26  Identities=19%  Similarity=0.363  Sum_probs=22.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...++|+|++|+|||||++++.....
T Consensus        29 ~~~i~lvG~~g~GKStlin~l~g~~~   54 (239)
T 3lxx_A           29 QLRIVLVGKTGAGKSATGNSILGRKV   54 (239)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHcCCCc
Confidence            34799999999999999999986543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.55  E-value=7.9e-05  Score=48.66  Aligned_cols=26  Identities=31%  Similarity=0.335  Sum_probs=22.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+++.|++|+||||++-.+|..+...
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            59999999999999988888776543

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=97.55  E-value=6.3e-05  Score=55.32  Aligned_cols=25  Identities=40%  Similarity=0.740  Sum_probs=21.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+..++.||||||||+++..++..+
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4578999999999999888777665

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=97.55  E-value=6.4e-05  Score=46.15  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
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            36899999999999999999865

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=97.55  E-value=6.5e-05  Score=45.89  Aligned_cols=25  Identities=32%  Similarity=0.359  Sum_probs=21.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .-.+++.|++|+|||||++.+....
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4479999999999999999997654

>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=97.54  E-value=7.7e-05  Score=51.30  Aligned_cols=26  Identities=31%  Similarity=0.452  Sum_probs=22.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ....+.|.|+||+||||++..++..+
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            34579999999999999999998876

>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=97.54  E-value=6.6e-05  Score=51.89  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=21.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      +...+|+||+|+|||+++.+|+-.
T Consensus        25 ~gl~vi~G~NGaGKT~ileAI~~~   48 (371)
T 3auy_A           25 KGIVAIIGENGSGKSSIFEAVFFA   48 (371)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999999973

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=97.54  E-value=6.7e-05  Score=46.36  Aligned_cols=26  Identities=27%  Similarity=0.261  Sum_probs=22.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      -.+++.|++|+|||+|++.+......
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~~~   40 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKVPE   40 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTSCG
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhccc
Confidence            46999999999999999988776543

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.53  E-value=2.8e-05  Score=57.18  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=21.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+.|+||+|||||||+++|+...
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            39999999999999999999865

>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=97.53  E-value=6.9e-05  Score=45.94  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
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            36899999999999999999853

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=97.53  E-value=8.2e-05  Score=47.62  Aligned_cols=26  Identities=31%  Similarity=0.639  Sum_probs=23.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++-|.|-|+.||||||.++.|+..+.
T Consensus         2 ~kFI~~EG~dGsGKsTq~~~L~~~L~   27 (205)
T 4hlc_A            2 SAFITFEGPEGSGKTTVINEVYHRLV   27 (205)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHH
Confidence            45688999999999999999999885

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=97.53  E-value=6.9e-05  Score=55.05  Aligned_cols=27  Identities=33%  Similarity=0.539  Sum_probs=22.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++.+++.|||||||||++..+...+.
T Consensus       163 ~~~~~vi~G~pGTGKTt~l~~ll~~l~  189 (608)
T 1w36_D          163 TRRISVISGGPGTGKTTTVAKLLAALI  189 (608)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHHHH
T ss_pred             cCCCEEEEeCCCCCHHHHHHHHHHHHH
Confidence            367899999999999999887766553

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=97.53  E-value=5.1e-05  Score=46.74  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||||++.+...
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            5899999999999999999864

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=97.53  E-value=7e-05  Score=46.40  Aligned_cols=24  Identities=33%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+...-
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            479999999999999999998654

>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=97.53  E-value=7e-05  Score=51.94  Aligned_cols=27  Identities=22%  Similarity=0.209  Sum_probs=23.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ....+++.||+|+|||++++.++...-
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~~   60 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLREY   60 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHHH
Confidence            356799999999999999999987764

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=97.52  E-value=7.1e-05  Score=46.39  Aligned_cols=24  Identities=33%  Similarity=0.409  Sum_probs=21.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            469999999999999999998644

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=97.52  E-value=7.1e-05  Score=46.74  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.+....
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            469999999999999999998654

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=97.52  E-value=5.1e-05  Score=50.15  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=20.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+.|.|++|+|||||.+++...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            56999999999999999999765

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=97.51  E-value=7.5e-05  Score=46.72  Aligned_cols=25  Identities=36%  Similarity=0.429  Sum_probs=21.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+++.|++|+|||||++.+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3469999999999999999998654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.51  E-value=7e-05  Score=54.20  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=21.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+.+.|+||+|+|||+||+.++..
T Consensus       146 ~~~~v~I~G~~GiGKTtLa~~~~~~  170 (591)
T 1z6t_A          146 EPGWVTIHGMAGCGKSVLAAEAVRD  170 (591)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHhc
Confidence            3568999999999999999998753

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=97.51  E-value=8.3e-05  Score=52.77  Aligned_cols=29  Identities=28%  Similarity=0.421  Sum_probs=25.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +.+|..++|.|+||+|||+|+..+|....
T Consensus       194 l~~G~liiIaG~pG~GKTtlal~ia~~~a  222 (444)
T 3bgw_A          194 YKRRNFVLIAARPSMGKTAFALKQAKNMS  222 (444)
T ss_dssp             BCSSCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCChHHHHHHHHHHHH
Confidence            66788999999999999999999887764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=97.50  E-value=7.5e-05  Score=46.38  Aligned_cols=24  Identities=29%  Similarity=0.286  Sum_probs=21.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC
Confidence            469999999999999999998765

>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=97.50  E-value=8e-05  Score=45.55  Aligned_cols=24  Identities=21%  Similarity=0.148  Sum_probs=21.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .-.+++.|++|+|||||++.+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346999999999999999999864

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=97.50  E-value=8.1e-05  Score=46.11  Aligned_cols=23  Identities=22%  Similarity=0.289  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+++.|++|+|||||++.+...
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            47999999999999999999754

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=97.50  E-value=7.2e-05  Score=46.56  Aligned_cols=25  Identities=32%  Similarity=0.375  Sum_probs=21.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .-.+++.|++|+|||||++.+....
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3469999999999999999998654

>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=97.50  E-value=8.2e-05  Score=46.40  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=21.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .-.+++.|++|+|||||++.+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999999875

>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=97.49  E-value=8.4e-05  Score=46.18  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||+|++.+....
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhCC
Confidence            369999999999999999988653

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=97.49  E-value=8.4e-05  Score=46.17  Aligned_cols=24  Identities=25%  Similarity=0.337  Sum_probs=21.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+...-
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            369999999999999999998643

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=97.49  E-value=8.5e-05  Score=45.93  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=21.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            479999999999999999998654

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=97.49  E-value=7.8e-05  Score=46.10  Aligned_cols=24  Identities=38%  Similarity=0.495  Sum_probs=21.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+++.|++|+|||||++.++..
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999998754

>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=97.49  E-value=0.00016  Score=49.25  Aligned_cols=38  Identities=24%  Similarity=0.239  Sum_probs=28.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeec
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFK   53 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~   53 (105)
                      .+.+++|.|+||+||||+|..+.. -|..++.-+...+.
T Consensus       146 ~g~gvli~G~sG~GKStlal~l~~-~G~~lv~DD~v~i~  183 (312)
T 1knx_A          146 FGVGVLLTGRSGIGKSECALDLIN-KNHLFVGDDAIEIY  183 (312)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHT-TTCEEEEEEEEEEE
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH-cCCEEEeCCEEEEE
Confidence            478899999999999999988765 45555554444443

>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=97.48  E-value=8.6e-05  Score=46.06  Aligned_cols=25  Identities=24%  Similarity=0.283  Sum_probs=21.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .-.+++.|++|+|||+|++.+...-
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            3469999999999999999998643

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=97.48  E-value=7.4e-05  Score=46.74  Aligned_cols=25  Identities=28%  Similarity=0.252  Sum_probs=21.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .-.+++.|++|+|||||++.+...-
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3479999999999999999987643

>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=97.48  E-value=8.1e-05  Score=45.62  Aligned_cols=23  Identities=26%  Similarity=0.354  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+++.|++|+|||||++.+...
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46999999999999999999843

>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=97.48  E-value=8.9e-05  Score=46.10  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=21.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||||++.+....
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            369999999999999999998754

>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=97.47  E-value=6.1e-05  Score=46.05  Aligned_cols=24  Identities=21%  Similarity=0.167  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|++|+|||+|++.++..-
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            469999999999999999998743

>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=97.47  E-value=5.1e-05  Score=46.56  Aligned_cols=24  Identities=25%  Similarity=0.336  Sum_probs=21.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      ....+++.|++|+|||||++.+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999998863

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=97.47  E-value=8.3e-05  Score=46.67  Aligned_cols=24  Identities=29%  Similarity=0.389  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.+....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            479999999999999999998643

>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=97.46  E-value=7.1e-05  Score=48.42  Aligned_cols=24  Identities=38%  Similarity=0.555  Sum_probs=19.7

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHH
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVA   37 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la   37 (105)
                      ..++.+++.||+|||||+++....
T Consensus        74 ~~g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           74 SQNSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             HHCSEEEEECCTTSSHHHHHHHHH
T ss_pred             hcCCEEEEEeCCCCCcHHhHHHHH
Confidence            357889999999999998766554

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=97.46  E-value=9.5e-05  Score=46.26  Aligned_cols=24  Identities=21%  Similarity=0.384  Sum_probs=21.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+++.|++|+|||+|++.+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            457999999999999999999754

>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=97.46  E-value=7.3e-05  Score=46.07  Aligned_cols=26  Identities=23%  Similarity=0.262  Sum_probs=22.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ....+++.|++|+|||||++.+....
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            45679999999999999999998644

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=97.45  E-value=0.00011  Score=45.65  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .-.+++.|++|+|||||++.+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            347999999999999999999864

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=97.45  E-value=0.0001  Score=52.85  Aligned_cols=30  Identities=23%  Similarity=0.300  Sum_probs=25.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..|..+.|+||+|+|||+|++.++.....
T Consensus       148 i~kGq~~~i~G~sGvGKTtL~~~l~~~~~~  177 (473)
T 1sky_E          148 YIKGGKIGLFGGAGVGKTVLIQELIHNIAQ  177 (473)
T ss_dssp             EETTCEEEEECCSSSCHHHHHHHHHHHHHH
T ss_pred             hccCCEEEEECCCCCCccHHHHHHHhhhhh
Confidence            345778999999999999999999877653

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=97.45  E-value=8.9e-05  Score=46.87  Aligned_cols=24  Identities=38%  Similarity=0.545  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.+....
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            479999999999999999988643

>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=97.45  E-value=8.9e-05  Score=46.96  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.++++|++|+|||||++.++..
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999999875

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.45  E-value=0.0001  Score=46.32  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...++++|++|+|||||+..+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999999854

>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=97.44  E-value=0.00014  Score=45.38  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=20.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      ..-.+++.|++|+|||+|++.+..
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHh
Confidence            345799999999999999999863

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.44  E-value=0.0001  Score=53.23  Aligned_cols=27  Identities=30%  Similarity=0.535  Sum_probs=22.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++.++++|++|+||||++..||..+.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~  126 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQ  126 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            356799999999999999999997664

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=97.44  E-value=7.2e-05  Score=50.39  Aligned_cols=24  Identities=21%  Similarity=0.425  Sum_probs=21.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+.|.|+||+|||||++++...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            346999999999999999999865

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=97.44  E-value=8.4e-05  Score=46.70  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      ...+++.|++|+|||||++.++.
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            45799999999999999999874

>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=97.43  E-value=0.00011  Score=46.42  Aligned_cols=25  Identities=32%  Similarity=0.331  Sum_probs=21.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+++.|++|+|||+|++.+....
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3579999999999999999998654

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.42  E-value=0.00013  Score=51.71  Aligned_cols=28  Identities=32%  Similarity=0.351  Sum_probs=24.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .++.++++|++|+||||++..+|..+..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~  126 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLRE  126 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3568999999999999999999987754

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=97.42  E-value=9.7e-05  Score=45.86  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=20.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+++.|++|+|||+|++.+...
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999998753

>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=97.42  E-value=0.00013  Score=45.69  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||+|++.++..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999999864

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=97.40  E-value=0.00012  Score=45.18  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=21.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      ....+++.|++|+|||||++.+..
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            355799999999999999999984

>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=97.40  E-value=0.00011  Score=46.23  Aligned_cols=24  Identities=21%  Similarity=0.307  Sum_probs=21.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ..+++.|++|+|||||++.+....
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcCC
Confidence            479999999999999999998643

>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=97.39  E-value=0.0003  Score=45.77  Aligned_cols=26  Identities=31%  Similarity=0.552  Sum_probs=23.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+++.|.+|+||||++..++..+.
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            45789999999999999999998876

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=97.39  E-value=6.1e-05  Score=46.24  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=10.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .-.+++.|++|+|||||++.+...
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            346999999999999999998754

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=97.38  E-value=0.00018  Score=45.70  Aligned_cols=28  Identities=18%  Similarity=0.201  Sum_probs=23.6

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..++..+++||.|+||||.+..++....
T Consensus         6 ~~g~i~v~~G~mgsGKTT~ll~~a~r~~   33 (191)
T 1xx6_A            6 DHGWVEVIVGPMYSGKSEELIRRIRRAK   33 (191)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            3467899999999999998888887763

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=97.38  E-value=0.00011  Score=46.08  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=20.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .-.+++.|++|+|||||++.+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            347999999999999999998743

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=97.38  E-value=0.00013  Score=46.16  Aligned_cols=23  Identities=26%  Similarity=0.354  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++.+...
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46999999999999999998853

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=97.38  E-value=8.9e-05  Score=53.10  Aligned_cols=31  Identities=10%  Similarity=0.151  Sum_probs=27.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +..+..++|.|+||+|||+|+..+|......
T Consensus       239 l~~G~l~li~G~pG~GKT~lal~~a~~~a~~  269 (503)
T 1q57_A          239 ARGGEVIMVTSGSGMVMSTFVRQQALQWGTA  269 (503)
T ss_dssp             CCTTCEEEEEESSCHHHHHHHHHHHHHHTTT
T ss_pred             cCCCeEEEEeecCCCCchHHHHHHHHHHHHh
Confidence            6678899999999999999999999877643

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=97.38  E-value=0.0001  Score=47.18  Aligned_cols=24  Identities=29%  Similarity=0.671  Sum_probs=21.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+++.|++|+|||||+..+...
T Consensus        29 ~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           29 KKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999998754

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=97.38  E-value=8.5e-05  Score=45.75  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=21.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .-.+++.|++|+|||||++.+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346999999999999999999854

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	105
d1qhxa_	178	c.37.1.3 (A:) Chloramphenicol phosphotransferase {	1e-06
d1zp6a1	176	c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {	1e-06
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	2e-06
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	6e-06
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	6e-06
d1knqa_	171	c.37.1.17 (A:) Gluconate kinase {Escherichia coli	7e-06
d2bdta1	176	c.37.1.25 (A:1-176) Hypothetical protein BH3686 {B	8e-06
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	1e-05
d1khta_	190	c.37.1.1 (A:) Adenylate kinase {Archaeon Methanoco	1e-05
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	2e-05
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-05
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	3e-05
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	4e-05
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	5e-05
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	5e-05
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	0.002
d1lw7a2	192	c.37.1.1 (A:220-411) Transcriptional regulator Nad	8e-05
d1ukza_	196	c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Sac	8e-05
d1yj5a2	172	c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' p	1e-04
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	1e-04
d2bmfa2	305	c.37.1.14 (A:178-482) Dengue virus helicase {Dengu	1e-04
d1ly1a_	152	c.37.1.1 (A:) Polynucleotide kinase, kinase domain	2e-04
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	2e-04
d1rkba_	173	c.37.1.1 (A:) Adenylate kinase {Human (Homo sapien	2e-04
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-04
d1kaga_	169	c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia	3e-04
d1gkya_	186	c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Sac	3e-04
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	3e-04
d2i1qa2	258	c.37.1.11 (A:65-322) DNA repair protein Rad51, cat	3e-04
d2iyva1	165	c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycoba	4e-04
d1ckea_	225	c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId:	4e-04
d1qf9a_	194	c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoi	5e-04
d1y63a_	174	c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishma	5e-04
d1kgda_	178	c.37.1.1 (A:) Guanylate kinase-like domain of Cask	6e-04
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	6e-04
d1lvga_	190	c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculu	6e-04
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	7e-04
d3adka_	194	c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [	7e-04
d1akya1	180	c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Bak	8e-04
d1m8pa3	183	c.37.1.15 (A:391-573) ATP sulfurylase C-terminal d	9e-04
d1bifa1	213	c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fruct	0.001
d1e6ca_	170	c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chr	0.001
d1np6a_	170	c.37.1.10 (A:) Molybdopterin-guanine dinucleotide	0.001
d1nksa_	194	c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobu	0.001
d1teva_	194	c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens)	0.001
d1q3ta_	223	c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae	0.001
d1ak2a1	190	c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Co	0.001
d1znwa1	182	c.37.1.1 (A:20-201) Guanylate kinase {Mycobacteriu	0.001
d2cdna1	181	c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium	0.001
d1n0wa_	242	c.37.1.11 (A:) DNA repair protein Rad51, catalytic	0.001
d1zaka1	189	c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Mai	0.001
d1szpa2	251	c.37.1.11 (A:145-395) DNA repair protein Rad51, ca	0.002
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	0.002
d2ak3a1	189	c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow	0.002
d1e4va1	179	c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Esc	0.002
d1zina1	182	c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bac	0.002
d1yksa1	140	c.37.1.14 (A:185-324) YFV helicase domain {Yellow	0.003
d1tf7a2	242	c.37.1.11 (A:256-497) Circadian clock protein KaiC	0.003
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	0.003
d1s3ga1	182	c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bac	0.004
d1x6va3	195	c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kin	0.004
d1pzna2	254	c.37.1.11 (A:96-349) DNA repair protein Rad51, cat	0.004
d1nlfa_	274	c.37.1.11 (A:) Hexameric replicative helicase repA	0.004
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	0.004

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]} Length = 178

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]

 Score = 42.7 bits (99), Expect = 1e-06
 Identities = 10/77 (12%), Positives = 24/77 (31%), Gaps = 1/77 (1%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR-LQTPQAIFFKKYPNVLIFTTSNLTGAIDLAF 74
           R+++L+G    GK+ + + +   L    L        +  P  +      +    D   
Sbjct: 3  TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDADGGV 62

Query: 75 LDRADIKQYIGFPSAAA 91
              + +   G  +   
Sbjct: 63 SIGPEFRALEGAWAEGV 79

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

 Score = 42.2 bits (98), Expect = 1e-06
 Identities = 9/27 (33%), Positives = 18/27 (66%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIR 43
           ++LL G PG+GK+++ +A+A    + 
Sbjct: 5  NILLLSGHPGSGKSTIAEALANLPGVP 31

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

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]

 Score = 42.7 bits (100), Expect = 2e-06
 Identities = 11/40 (27%), Positives = 17/40 (42%)

Query: 1   MKFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKL 40
           + +   K     I   R  L  GP  +GKT+L  A+ +  
Sbjct: 139 VVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELC 178

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 41.1 bits (95), Expect = 6e-06
 Identities = 11/24 (45%), Positives = 15/24 (62%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKL 40
             LL G PG+GKTSL  A+ ++ 
Sbjct: 33 TAFLLGGQPGSGKTSLRSAIFEET 56

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

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]

 Score = 40.9 bits (94), Expect = 6e-06
 Identities = 8/29 (27%), Positives = 15/29 (51%)

Query: 15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR 43
             + L+ G   TGK+S+ K    +L++ 
Sbjct: 28 RAPITLVLGLRRTGKSSIIKIGINELNLP 56

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]} Length = 171

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]

 Score = 40.4 bits (93), Expect = 7e-06
 Identities = 8/28 (28%), Positives = 16/28 (57%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR 43
          + + +L G  G+GK+++   VA +L   
Sbjct: 6  HHIYVLMGVSGSGKSAVASEVAHQLHAA 33

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

 Score = 40.0 bits (92), Expect = 8e-06
 Identities = 10/46 (21%), Positives = 18/46 (39%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIF 61
           ++ ++ GP G GK++ CK +A +L         I           
Sbjct: 2  KKLYIITGPAGVGKSTTCKRLAAQLDNSAYIEGDIINHMVVGGYRP 47

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

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]

 Score = 39.9 bits (92), Expect = 1e-05
 Identities = 11/29 (37%), Positives = 17/29 (58%)

Query: 8  VKSNIISWNRVVLLHGPPGTGKTSLCKAV 36
           K++  +    VLL GPP +GKT+L   +
Sbjct: 32 TKNSDRTPLVSVLLEGPPHSGKTALAAKI 60

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 190

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

 Score = 39.6 bits (91), Expect = 1e-05
 Identities = 9/25 (36%), Positives = 14/25 (56%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKL 40
          N+VV++ G PG G T+  +     L
Sbjct: 1  NKVVVVTGVPGVGSTTSSQLAMDNL 25

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

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]

 Score = 39.0 bits (91), Expect = 2e-05
 Identities = 21/78 (26%), Positives = 31/78 (39%), Gaps = 16/78 (20%)

Query: 13  ISWNRVVLLHGPPGTGKTSLCKAVAQKLS---IRLQTPQAIFFKKYPNVLIFTTSNLTGA 69
               + VL+ GPPGTGKT L KA+A +       +      F + +  V     S +   
Sbjct: 42  GKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSD--FVEMFVGV---GASRVRDM 96

Query: 70  IDLA--------FLDRAD 79
            + A        F+D  D
Sbjct: 97  FEQAKKAAPCIIFIDEID 114

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

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]

 Score = 39.4 bits (90), Expect = 2e-05
 Identities = 8/25 (32%), Positives = 13/25 (52%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKL 40
          N +    G  G GKT+L K   +++
Sbjct: 46 NMIYGSIGRVGIGKTTLAKFTVKRV 70

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

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]

 Score = 38.9 bits (90), Expect = 3e-05
 Identities = 8/23 (34%), Positives = 14/23 (60%)

Query: 18  VVLLHGPPGTGKTSLCKAVAQKL 40
           +V++ G   +GKT L  A+ + L
Sbjct: 125 MVIVTGKGNSGKTPLVHALGEAL 147

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

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]

 Score = 38.6 bits (88), Expect = 4e-05
 Identities = 8/22 (36%), Positives = 11/22 (50%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
            L G PGTGKT   + + +  
Sbjct: 46 ATLLGRPGTGKTVTLRKLWELY 67

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]} Length = 189

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (87), Expect = 5e-05
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKL 40
          R V L GPPG GKT+L    ++ L
Sbjct: 2  RHVFLTGPPGVGKTTLIHKASEVL 25

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

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]

 Score = 38.3 bits (89), Expect = 5e-05
 Identities = 21/78 (26%), Positives = 30/78 (38%), Gaps = 16/78 (20%)

Query: 13  ISWNRVVLLHGPPGTGKTSLCKAVAQKLS---IRLQTPQAIFFKKYPNVLIFTTSNLTGA 69
               + VLL GPPG GKT L +AVA +     I        F + +  V     + +   
Sbjct: 39  ARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSD--FVEMFVGV---GAARVRDL 93

Query: 70  IDLA--------FLDRAD 79
            + A        F+D  D
Sbjct: 94  FETAKRHAPCIVFIDEID 111

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

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]

 Score = 33.7 bits (77), Expect = 0.002
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 2/50 (4%)

Query: 52  FKKYPNVLIFTTSNLTGAIDLAFL--DRADIKQYIGFPSAAAIFNIFSSC 99
           F+K   +++   +N    +D A L   R D +  I  P       I    
Sbjct: 142 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIH 191

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]} Length = 192

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]

 Score = 37.4 bits (85), Expect = 8e-05
 Identities = 6/26 (23%), Positives = 12/26 (46%)

Query: 15 WNRVVLLHGPPGTGKTSLCKAVAQKL 40
          + + V + G   +GK+ L   +A   
Sbjct: 6  FAKTVAILGGESSGKSVLVNKLAAVF 31

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 196

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.3 bits (85), Expect = 8e-05
 Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 8/52 (15%)

Query: 2  KFSHSKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFK 53
           FS  +V         V+ + G PG GK + C+ + +  S    +   +   
Sbjct: 2  AFSPDQVS--------VIFVLGGPGAGKGTQCEKLVKDYSFVHLSAGDLLRA 45

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.8 bits (84), Expect = 1e-04
 Identities = 15/94 (15%), Positives = 26/94 (27%), Gaps = 5/94 (5%)

Query: 17  RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFT--TSNLTGAIDLAF 74
            VV+  G PG GK++  +               +   +                 ID   
Sbjct: 15  EVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVSSCQAALRQGKRVVIDNTN 74

Query: 75  LDRADIKQYIGFPSAAA---IFNIFSSCVEELKR 105
            D     +YI     A        F + +E+ + 
Sbjct: 75  PDVPSRARYIQCAKDAGVPCRCFNFCATIEQARH 108

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

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]

 Score = 37.1 bits (85), Expect = 1e-04
 Identities = 8/21 (38%), Positives = 14/21 (66%)

Query: 17 RVVLLHGPPGTGKTSLCKAVA 37
          + +L+ GP G GKT + + +A
Sbjct: 50 KNILMIGPTGVGKTEIARRLA 70

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]} Length = 305

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]

 Score = 36.8 bits (84), Expect = 1e-04
 Identities = 7/23 (30%), Positives = 13/23 (56%)

Query: 8  VKSNIISWNRVVLLHGPPGTGKT 30
          ++ +I    R+ ++   PG GKT
Sbjct: 1  IEDDIFRKKRLTIMDLHPGAGKT 23

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]} Length = 152

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]

 Score = 36.2 bits (82), Expect = 2e-04
 Identities = 7/25 (28%), Positives = 14/25 (56%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKL 40
           +++L  G PG+GK++  +    K 
Sbjct: 2  KKIILTIGCPGSGKSTWAREFIAKN 26

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

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]

 Score = 36.5 bits (83), Expect = 2e-04
 Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRA 78
          +LL GPPG GKT+L   +A +L + L+       +K P  L    +N     D+ F+D  
Sbjct: 38 LLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK-PGDLAAILANSLEEGDILFIDEI 96

Query: 79 D 79
           
Sbjct: 97 H 97

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]} Length = 173

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]

 Score = 36.1 bits (82), Expect = 2e-04
 Identities = 12/25 (48%), Positives = 17/25 (68%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIR 43
          +LL G PG GKT+L K +A K  ++
Sbjct: 7  ILLTGTPGVGKTTLGKELASKSGLK 31

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

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]

 Score = 36.3 bits (83), Expect = 2e-04
 Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 7/32 (21%)

Query: 9  KSNIISWNRVVLLHGPPGTGKTSLCKAVAQKL 40
            NI       L+ GP G GKT + + +A+  
Sbjct: 49 PKNI-------LMIGPTGVGKTEIARRLAKLA 73

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]} Length = 169

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]

 Score = 35.9 bits (81), Expect = 3e-04
 Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 7/35 (20%)

Query: 9  KSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR 43
          K NI        L GP G GK+++ + +AQ+L++ 
Sbjct: 2  KRNIF-------LVGPMGAGKSTIGRQLAQQLNME 29

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 186

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]

 Score = 35.7 bits (81), Expect = 3e-04
 Identities = 9/32 (28%), Positives = 17/32 (53%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP 47
          +R +++ GP GTGK++L K +  +        
Sbjct: 1  SRPIVISGPSGTGKSTLLKKLFAEYPDSFGFS 32

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

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]

 Score = 36.1 bits (82), Expect = 3e-04
 Identities = 10/22 (45%), Positives = 15/22 (68%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
          VL+ G  GTGK++  +A+A  L
Sbjct: 31 VLVFGDRGTGKSTAVRALAALL 52

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 258

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]

 Score = 35.8 bits (81), Expect = 3e-04
 Identities = 7/37 (18%), Positives = 9/37 (24%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFF 52
            V    G  G+GKT +       L            
Sbjct: 34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEA 70

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]} Length = 165

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]

 Score = 35.4 bits (80), Expect = 4e-04
 Identities = 10/28 (35%), Positives = 20/28 (71%), Gaps = 1/28 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRL 44
          + VL+ G PG+GK+++ + +A+ L + L
Sbjct: 3  KAVLV-GLPGSGKSTIGRRLAKALGVGL 29

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]} Length = 225

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]

 Score = 35.4 bits (80), Expect = 4e-04
 Identities = 12/25 (48%), Positives = 17/25 (68%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSI 42
          V+ + GP G GK +LCKA+A+ L  
Sbjct: 5  VITIDGPSGAGKGTLCKAMAEALQW 29

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

 Score = 35.3 bits (80), Expect = 5e-04
 Identities = 8/41 (19%), Positives = 18/41 (43%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPN 57
           VV + G PG+GK + C  + +       +   +  ++  +
Sbjct: 7  NVVFVLGGPGSGKGTQCANIVRDFGWVHLSAGDLLRQEQQS 47

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]} Length = 174

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]

 Score = 35.0 bits (79), Expect = 5e-04
 Identities = 10/25 (40%), Positives = 17/25 (68%), Gaps = 1/25 (4%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLS 41
           +++  G PGTGKTS+ + +A +L 
Sbjct: 7  NILIT-GTPGTGKTSMAEMIAAELD 30

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]} Length = 178

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]

 Score = 34.8 bits (79), Expect = 6e-04
 Identities = 7/31 (22%), Positives = 13/31 (41%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP 47
          + ++L G  G G+  +   +  K   R   P
Sbjct: 4  KTLVLLGAHGVGRRHIKNTLITKHPDRFAYP 34

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

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]

 Score = 35.0 bits (80), Expect = 6e-04
 Identities = 8/53 (15%), Positives = 17/53 (32%), Gaps = 8/53 (15%)

Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAID 71
          +L++G   +    +   + + +          F  K  +VL          ID
Sbjct: 18 ILINGEDLSYPREVSLELPEYVE--------KFPPKASDVLEIDPEGENIGID 62

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]} Length = 190

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.9 bits (79), Expect = 6e-04
 Identities = 12/31 (38%), Positives = 17/31 (54%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP 47
          R V+L GP G GK++L K + Q+ S      
Sbjct: 1  RPVVLSGPSGAGKSTLLKKLFQEHSSIFGFS 31

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

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]

 Score = 35.1 bits (79), Expect = 7e-04
 Identities = 14/39 (35%), Positives = 20/39 (51%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKY 55
          R  +L+GPPG GKT+    VAQ+L   +    A   +  
Sbjct: 53 RAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSK 91

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 34.9 bits (79), Expect = 7e-04
 Identities = 8/30 (26%), Positives = 18/30 (60%)

Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI 42
          +  ++++ + G PG+GK + C+ + QK   
Sbjct: 5  LKKSKIIFVVGGPGSGKGTQCEKIVQKYGY 34

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 180

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]

 Score = 34.5 bits (78), Expect = 8e-04
 Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 1/26 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSI 42
          R+VL+ GPPG GK +    + ++   
Sbjct: 4  RMVLI-GPPGAGKGTQAPNLQERFHA 28

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

 Score = 34.7 bits (78), Expect = 9e-04
 Identities = 6/26 (23%), Positives = 14/26 (53%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIR 43
           + L G   +GK ++ +A+   L+ +
Sbjct: 8  TIFLTGYMNSGKDAIARALQVTLNQQ 33

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 213

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 34.6 bits (78), Expect = 0.001
 Identities = 7/23 (30%), Positives = 14/23 (60%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKL 40
          ++++ G P  GKT + K + + L
Sbjct: 4  LIVMVGLPARGKTYISKKLTRYL 26

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]} Length = 170

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]

 Score = 34.2 bits (77), Expect = 0.001
 Identities = 6/29 (20%), Positives = 13/29 (44%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRL 44
             + + G  G G T++ + +A+ L    
Sbjct: 2  TEPIFMVGARGCGMTTVGRELARALGYEF 30

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

 Score = 34.2 bits (77), Expect = 0.001
 Identities = 9/26 (34%), Positives = 13/26 (50%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIR 43
          ++      GTGKT+L K +   L  R
Sbjct: 4  LLAFAAWSGTGKTTLLKKLIPALCAR 29

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

 Score = 34.2 bits (77), Expect = 0.001
 Identities = 7/27 (25%), Positives = 16/27 (59%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIR 43
          ++ ++ G PG GK+++   V + L  +
Sbjct: 2  KIGIVTGIPGVGKSTVLAKVKEILDNQ 28

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.2 bits (77), Expect = 0.001
 Identities = 9/25 (36%), Positives = 13/25 (52%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSI 42
          VV + G PG GK + C  + +K   
Sbjct: 3  VVFVLGGPGAGKGTQCARIVEKYGY 27

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]} Length = 223

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]

 Score = 34.2 bits (77), Expect = 0.001
 Identities = 7/34 (20%), Positives = 17/34 (50%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIF 51
           + + GP  +GK+++ K +A+          A++
Sbjct: 5  QIAIDGPASSGKSTVAKIIAKDFGFTYLDTGAMY 38

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]} Length = 190

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

 Score = 34.1 bits (77), Expect = 0.001
 Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 1/26 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSI 42
          R VLL GPPG GK +    +A+   +
Sbjct: 5  RAVLL-GPPGAGKGTQAPKLAKNFCV 29

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]} Length = 182

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]

 Score = 34.2 bits (77), Expect = 0.001
 Identities = 8/24 (33%), Positives = 17/24 (70%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKL 40
          RVV+L GP   GK+++ + + +++
Sbjct: 3  RVVVLSGPSAVGKSTVVRCLRERI 26

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]} Length = 181

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]

 Score = 34.1 bits (77), Expect = 0.001
 Identities = 14/26 (53%), Positives = 18/26 (69%), Gaps = 1/26 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSI 42
          RV+LL GPPG GK +    +A+KL I
Sbjct: 2  RVLLL-GPPGAGKGTQAVKLAEKLGI 26

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 34.0 bits (76), Expect = 0.001
 Identities = 7/36 (19%), Positives = 13/36 (36%)

Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIF 51
            +  + G   TGKT +C  +A    + +       
Sbjct: 23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEG 58

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]} Length = 189

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]

 Score = 34.1 bits (77), Expect = 0.001
 Identities = 7/25 (28%), Positives = 14/25 (56%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSI 42
           V++ G P +GK + C+ +  K  +
Sbjct: 5  KVMISGAPASGKGTQCELIKTKYQL 29

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 251

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]

 Score = 33.9 bits (76), Expect = 0.002
 Identities = 10/33 (30%), Positives = 14/33 (42%)

Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ 45
          +    +  L G   TGK+ LC  +A    I L 
Sbjct: 31 VETGSITELFGEFRTGKSQLCHTLAVTCQIPLD 63

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

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]

 Score = 34.0 bits (76), Expect = 0.002
 Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 3/34 (8%)

Query: 10 SNIISWNRV---VLLHGPPGTGKTSLCKAVAQKL 40
           ++    R    +LL+GP GTGK + C A+ + +
Sbjct: 24 KSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI 57

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]} Length = 189

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]

 Score = 33.7 bits (76), Expect = 0.002
 Identities = 6/26 (23%), Positives = 14/26 (53%), Gaps = 1/26 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSI 42
          R  ++ G PG+GK ++   + +   +
Sbjct: 8  RAAIM-GAPGSGKGTVSSRITKHFEL 32

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]} Length = 179

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]

 Score = 33.4 bits (75), Expect = 0.002
 Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 1/27 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIR 43
          R++LL G P  GK +  + + +K  I 
Sbjct: 2  RIILL-GAPVAGKGTQAQFIMEKYGIP 27

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]} Length = 182

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]

 Score = 33.4 bits (75), Expect = 0.002
 Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 1/26 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSI 42
           +VL+ G PG GK +  + +     I
Sbjct: 2  NLVLM-GLPGAGKGTQAEKIVAAYGI 26

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]} Length = 140

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]

 Score = 32.7 bits (73), Expect = 0.003
 Identities = 7/21 (33%), Positives = 11/21 (52%)

Query: 10 SNIISWNRVVLLHGPPGTGKT 30
          S+++      +L   PG GKT
Sbjct: 1  SHMLKKGMTTVLDFHPGAGKT 21

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

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]

 Score = 33.0 bits (74), Expect = 0.003
 Identities = 9/44 (20%), Positives = 17/44 (38%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLI 60
           ++L  G  GTGKT L     +      +      +++    L+
Sbjct: 27 SIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLL 70

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

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]

 Score = 33.1 bits (74), Expect = 0.003
 Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 2/33 (6%)

Query: 10 SNIISWNRV--VLLHGPPGTGKTSLCKAVAQKL 40
             +    +  +L +GPPGTGKTS   A+ ++L
Sbjct: 25 KKTLKSANLPHMLFYGPPGTGKTSTILALTKEL 57

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]} Length = 182

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]

 Score = 32.9 bits (74), Expect = 0.004
 Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 1/26 (3%)

Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSI 42
           +VL+ G PG GK +    + +K   
Sbjct: 2  NIVLM-GLPGAGKGTQADRIVEKYGT 26

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.7 bits (73), Expect = 0.004
 Identities = 9/23 (39%), Positives = 13/23 (56%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKL 40
           V L G  G GKT++  A+ + L
Sbjct: 21 TVWLTGLSGAGKTTVSMALEEYL 43

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 254

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]

 Score = 32.7 bits (73), Expect = 0.004
 Identities = 6/18 (33%), Positives = 9/18 (50%)

Query: 16 NRVVLLHGPPGTGKTSLC 33
            +  + G  G+GKT L 
Sbjct: 36 QAITEVFGEFGSGKTQLA 53

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]} Length = 274

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]

 Score = 32.7 bits (73), Expect = 0.004
 Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 2/46 (4%)

Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTT 63
          V  L  P G GK+ L   +A    I          +     +I+  
Sbjct: 31 VGALVSPGGAGKSMLALQLA--AQIAGGPDLLEVGELPTGPVIYLP 74

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

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]

 Score = 32.7 bits (73), Expect = 0.004
 Identities = 14/32 (43%), Positives = 20/32 (62%)

Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL 44
          +   R +LL+GPPGTGKT + +AVA +     
Sbjct: 35 VKPPRGILLYGPPGTGKTLIARAVANETGAFF 66

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	105
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.85
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.84
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.83
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.81
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.65
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.63
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.59
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.53
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.45
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.41
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.4
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.39
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.32
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.27
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.19
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.19
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.19
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.19
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.18
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.17
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.17
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.15
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	99.13
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.1
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	99.08
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	99.07
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	99.04
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	99.02
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	99.01
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.01
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	98.99
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	98.99
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	98.99
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.96
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.94
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	98.93
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	98.93
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.92
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.91
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.9
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	98.88
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	98.87
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.87
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.87
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	98.86
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	98.86
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.86
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.86
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	98.85
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	98.85
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.85
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.84
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	98.83
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	98.83
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	98.81
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	98.81
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.81
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.81
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	98.81
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	98.8
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	98.79
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.79
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.77
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.77
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	98.76
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	98.76
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.75
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	98.75
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	98.74
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.73
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	98.73
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.73
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	98.72
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	98.71
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	98.71
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	98.7
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	98.69
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	98.69
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.69
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.65
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.65
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	98.64
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	98.62
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	98.55
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	98.55
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	98.51
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	98.51
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.5
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	98.5
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	98.46
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	98.37
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.36
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.36
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	98.34
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.33
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.33
d1okkd2	207	GTPase domain of the signal recognition particle r	98.33
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	98.32
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	98.31
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.28
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.28
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	98.27
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	98.26
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.25
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	98.25
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	98.22
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	98.21
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	98.19
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	98.18
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	98.16
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	98.15
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	98.11
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	98.08
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	98.08
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	98.07
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	98.06
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.05
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	98.05
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.03
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	98.01
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	97.98
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.97
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	97.95
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	97.95
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.94
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.93
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.92
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	97.92
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	97.92
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.9
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	97.87
d2fh5b1	207	Signal recognition particle receptor beta-subunit	97.86
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	97.84
d1nrjb_	209	Signal recognition particle receptor beta-subunit	97.84
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.83
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	97.81
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.81
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	97.81
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.8
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.8
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.8
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	97.79
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	97.79
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	97.79
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	97.77
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	97.76
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	97.76
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	97.75
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.75
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.74
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	97.74
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.72
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	97.71
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.71
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.71
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.7
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	97.7
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	97.69
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	97.68
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	97.68
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	97.68
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.68
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	97.67
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	97.67
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.66
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.66
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.65
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	97.65
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	97.65
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.65
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.64
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.63
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	97.62
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	97.62
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	97.61
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.6
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.58
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	97.57
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.57
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	97.57
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	97.57
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.56
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	97.56
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.56
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	97.56
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	97.55
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	97.54
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	97.54
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	97.53
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	97.52
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	97.52
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	97.52
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.51
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.51
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	97.49
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.49
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.48
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	97.47
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	97.46
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	97.46
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	97.46
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	97.45
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	97.44
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	97.44
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.44
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	97.44
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	97.42
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	97.41
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	97.41
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	97.41
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	97.4
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	97.4
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	97.39
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	97.37
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.36
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	97.36
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	97.36
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	97.33
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	97.33
d1xpua3	289	Transcription termination factor Rho, ATPase domai	97.32
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	97.3
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.24
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	97.23
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	97.21
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	97.17
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	97.14
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	97.11
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	97.08
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	97.06
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	96.98
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	96.93
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	96.89
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.86
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	96.84
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	96.82
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.81
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.77
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.73
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	96.72
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.7
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	96.68
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	96.55
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	96.54
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.48
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	96.46
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	96.41
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	96.37
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.28
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	96.28
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	96.24
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	96.24
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	96.22
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.06
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	96.06
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.91
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	95.81
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.81
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.79
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	95.75
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	95.64
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	95.57
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	95.48
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	95.45
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	95.43
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	95.37
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	95.31
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	94.94
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	94.9
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	94.89
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	94.87
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	94.83
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	94.81
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	94.72
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	94.71
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	94.62
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	94.6
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	94.48
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	94.44
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	94.39
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	94.38
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	94.33
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	94.27
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	94.24
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	94.17
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	94.14
d2zfia1	349	Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090	94.07
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	94.01
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	93.99
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	93.97
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	93.93
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	93.82
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	93.78
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	93.52
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	93.48
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	93.42
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	93.25
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	93.17
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	93.14
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	93.04
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	92.65
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	92.64
d1khba1	363	Cytosolic phosphoenolpyruvate carboxykinase (GTP-h	92.28
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	92.07
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	91.68
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	91.39
d1kjwa2	199	Guanylate kinase-like domain of Psd-95 {Rat (Rattu	90.78
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	90.34
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	89.4
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	88.56
d2axpa1	164	Hypothetical protein YorR {Bacillus subtilis [TaxI	82.76
d1gg4a4	214	UDP-murNac-tripeptide D-alanyl-D-alanine-adding en	81.11

>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=99.85  E-value=1.3e-21  Score=128.72  Aligned_cols=90  Identities=30%  Similarity=0.407  Sum_probs=79.6

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      ++++++++|+||||||||++++++|++.+.+++.++.                                           
T Consensus        35 ~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~  114 (258)
T d1e32a2          35 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE  114 (258)
T ss_dssp             CCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHH
T ss_pred             CCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCC
Confidence            5568899999999999999999999999999887664                                           


Q ss_pred             ------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                        ......+++++++|||+++.+|+++++  ||+.+++++.|+.+++..|++.++++
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~  187 (258)
T d1e32a2         115 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN  187 (258)
T ss_dssp             HCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTT
T ss_pred             CCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccC
Confidence                              023555678999999999999999998  89999999999999999999988754

>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=99.84  E-value=5.1e-21  Score=125.86  Aligned_cols=90  Identities=29%  Similarity=0.426  Sum_probs=77.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      ...+++++|+||||||||++|+++|++++.+++.++.                             +             
T Consensus        42 ~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~  121 (256)
T d1lv7a_          42 GKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG  121 (256)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCS
T ss_pred             CCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCC
Confidence            4567899999999999999999999999999877664                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....++++++|||+++.+|+++++  ||+..++++.|+.+++..|++.++.+
T Consensus       122 ~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~  197 (256)
T d1lv7a_         122 AGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR  197 (256)
T ss_dssp             TTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccC
Confidence                                  11345678999999999999999987  89999999999999999999988754

>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=99.83  E-value=6.9e-21  Score=124.65  Aligned_cols=90  Identities=29%  Similarity=0.399  Sum_probs=78.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------e-------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------I-------------   50 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------~-------------   50 (105)
                      ...+++++|+||||||||++|+++|++++.+++.++.                             +             
T Consensus        39 ~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~  118 (247)
T d1ixza_          39 ARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG  118 (247)
T ss_dssp             CCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---
T ss_pred             CCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhccccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCC
Confidence            4457889999999999999999999999999987764                             0             


Q ss_pred             ----------------------eecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 ----------------------FFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 ----------------------~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                            .+....++++++|||.++.+|+++++  ||+..++++.|+.+++..|++.++.+
T Consensus       119 ~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~  194 (247)
T d1ixza_         119 SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG  194 (247)
T ss_dssp             ------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTT
T ss_pred             CCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcc
Confidence                                  12345678999999999999999986  89999999999999999999988754

>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=99.81  E-value=1.6e-20  Score=123.98  Aligned_cols=90  Identities=30%  Similarity=0.411  Sum_probs=75.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------------------
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------------------   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------------------   49 (105)
                      +.++++++|+||||||||++++++|++++.+++.++.                                           
T Consensus        38 ~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~  117 (265)
T d1r7ra3          38 MTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG  117 (265)
T ss_dssp             CCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHH
T ss_pred             CCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCC
Confidence            4567899999999999999999999999999887764                                           


Q ss_pred             ---------------------eeecccCCEEEEEeeCCCCCCCHHhhc--ccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLTGAIDLAFLD--RADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~~~~d~~~~~--r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                                           ..+....++++++|||.++.+|+++++  ||+..+.++.|+.+++..||+.++++
T Consensus       118 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~  193 (265)
T d1r7ra3         118 GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK  193 (265)
T ss_dssp             HCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTC
T ss_pred             CcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhcc
Confidence                                 012344568999999999999999987  89999999999999999999877654

>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=99.65  E-value=5.6e-16  Score=99.62  Aligned_cols=86  Identities=22%  Similarity=0.345  Sum_probs=70.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      .+.++|+||||+|||++|+++|++++.+++..+.                                              
T Consensus        35 ~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~  114 (238)
T d1in4a2          35 LDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQ  114 (238)
T ss_dssp             CCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSC
T ss_pred             CCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccHHHHHHHHHhhccCCchHHHHHHHhhhHHHhhcccceeeee
Confidence            4579999999999999999999999998876443                                              


Q ss_pred             e-----------ee-cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 I-----------FF-KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ~-----------~~-~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      +           .+ ....+++++++||.+...+.+..+||.....++.|+.+++..+++....
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~  178 (238)
T d1in4a2         115 IDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAAS  178 (238)
T ss_dssp             CCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             eeeeecCcccccccccCCCCeEEEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhh
Confidence            0           00 1224678899999999999999999999999999999998888877654

>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=99.63  E-value=1e-16  Score=104.54  Aligned_cols=84  Identities=18%  Similarity=0.214  Sum_probs=62.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------e--------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------I--------------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------~--------------   50 (105)
                      +.++++|+||||||||++|+++|++++.+++.+..                              +              
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~~p~il~iDEid~l~~~~~~  118 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPI  118 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhhhhhhhhhhhhhcccceeehhhhhhHhhhccc
Confidence            45689999999999999999999999999887653                              0              


Q ss_pred             ------------------eecccCCEEEEEeeCCCCCCCHH-hhcccceEEEeCCC-CHHHHHHHHHH
Q psy4924          51 ------------------FFKKYPNVLIFTTSNLTGAIDLA-FLDRADIKQYIGFP-SAAAIFNIFSS   98 (105)
Q Consensus        51 ------------------~~~~~~~~~~~~~~n~~~~~d~~-~~~r~~~~~~~~~~-~~~~~~~i~~~   98 (105)
                                        ......++++++|||+++.+|.+ +.+||+..+.++.+ ..+++..++.+
T Consensus       119 ~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~  186 (246)
T d1d2na_         119 GPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALEL  186 (246)
T ss_dssp             TTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhcCccceEEecCCchhHHHHHHHHHh
Confidence                              01122357899999999888765 55699998887555 34455554443

>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=99.59  E-value=7.2e-15  Score=94.47  Aligned_cols=86  Identities=22%  Similarity=0.377  Sum_probs=70.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      .++++|+||||+||||+|+++|++++.++...+.                                              
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~  114 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDF  114 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHHHTTCCTTCEEEEETGGGCCHHHHHHHHHHHHHS
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccchhhHHHHHhhccCCCeeeeecccccchhHHHhhhhhhhhh
Confidence            4679999999999999999999999998776554                                              


Q ss_pred             -------------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 -------------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 -------------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                   ......+++.++++++.+...+.+.++|+.....+..|+.+.+..++.+...
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~  179 (239)
T d1ixsb2         115 VMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDAR  179 (239)
T ss_dssp             EEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHG
T ss_pred             hhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHH
Confidence                         0112345667788888888888888999999999999999998888776654

>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=99.53  E-value=9.7e-15  Score=97.71  Aligned_cols=85  Identities=20%  Similarity=0.260  Sum_probs=66.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------e--------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------I--------   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------~--------   50 (105)
                      ++++++|+||||||||.||+++|+.++.++..++.                                    +        
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki  127 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKI  127 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGG
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeeeccccccccchhhhcccccccCCceEEehhhhhh
Confidence            46889999999999999999999999988765554                                    0        


Q ss_pred             ---------------------------eec------ccCCEEEEEe----eCCCCCCCHHhhcccceEEEeCCCCHHHHH
Q psy4924          51 ---------------------------FFK------KYPNVLIFTT----SNLTGAIDLAFLDRADIKQYIGFPSAAAIF   93 (105)
Q Consensus        51 ---------------------------~~~------~~~~~~~~~~----~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~   93 (105)
                                                 ..+      ...++.++++    ++.+..+++++..|++..+.++.|+...+.
T Consensus       128 ~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~ga~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~  207 (309)
T d1ofha_         128 CKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFE  207 (309)
T ss_dssp             SCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHH
T ss_pred             hhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEeccchhhcCcccchhhhhhhhheeeeccCCCHHHHH
Confidence                                       000      1123445555    466788999999999999999999999999


Q ss_pred             HHHHHH
Q psy4924          94 NIFSSC   99 (105)
Q Consensus        94 ~i~~~~   99 (105)
                      ++++..
T Consensus       208 ~Il~~~  213 (309)
T d1ofha_         208 RILTEP  213 (309)
T ss_dssp             HHHHSS
T ss_pred             HHHHHH
Confidence            987543

>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=99.45  E-value=1.4e-13  Score=88.75  Aligned_cols=85  Identities=25%  Similarity=0.310  Sum_probs=59.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------------------e---
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------------------I---   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------------------~---   50 (105)
                      ..+.++|+||||+||||+|+++|++++.++..+..                                         +   
T Consensus        51 ~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~id  130 (253)
T d1sxja2          51 VFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMD  130 (253)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEEC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEee
Confidence            34689999999999999999999999987764432                                         0   


Q ss_pred             -----------------e-e-cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          51 -----------------F-F-KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        51 -----------------~-~-~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                       . . .....++++++++....++.  ++|+...+.++.|+.+++..++.+.+.
T Consensus       131 e~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~~~~~~~~~~~--l~~~~~~i~f~~~~~~~i~~~l~~i~~  198 (253)
T d1sxja2         131 EVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRP--FDRVCLDIQFRRPDANSIKSRLMTIAI  198 (253)
T ss_dssp             SGGGCCTTSTTHHHHHHHHHHHCSSCEEEEESCTTSSTTGG--GTTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             eccccccchhhhhHHHhhhhccccccccccccccccccccc--ccceeeeeeccccchhHHHHHHHHHHH
Confidence                             0 0 11123444444444344443  566678889999999999888887654

>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=99.41  E-value=1.4e-15  Score=102.24  Aligned_cols=82  Identities=15%  Similarity=0.179  Sum_probs=59.9

Q ss_pred             Cce-EEEEcCCCCCHHHHHHHHHHHhC--CCccccce-------------------------------------------
Q psy4924          16 NRV-VLLHGPPGTGKTSLCKAVAQKLS--IRLQTPQA-------------------------------------------   49 (105)
Q Consensus        16 ~~~-ill~Gp~GsGKT~l~~~la~~~~--~~~~~~~~-------------------------------------------   49 (105)
                      +++ ++++||||||||.+|+++|.+++  .+++.+..                                           
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~~~ilf~DEid~~~~~r~~~  201 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHRVIVIDSLKNVIGAAGGN  201 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCSEEEEECCTTTC------
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhhccEEEeehhhhhccccccC
Confidence            444 55589999999999999999987  45665543                                           


Q ss_pred             -----------------eeecccCCEEEEEeeCCCCCCCHHh----h--cccceEEEeCCCCHHHHHHHHHH
Q psy4924          50 -----------------IFFKKYPNVLIFTTSNLTGAIDLAF----L--DRADIKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        50 -----------------~~~~~~~~~~~~~~~n~~~~~d~~~----~--~r~~~~~~~~~~~~~~~~~i~~~   98 (105)
                                       -.+....+++++++||+ +.+|+++    +  .||+..+.++.|+.+.+++|+++
T Consensus       202 ~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~-~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il~~  272 (321)
T d1w44a_         202 TTSGGISRGAFDLLSDIGAMAASRGCVVIASLNP-TSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVLTR  272 (321)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHHTCEEEEECCC-CCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEEEE
T ss_pred             CCCCcchhhhhhhhhhccccccCCCeEEEEeCCC-cccccchhhhhhccCcccceeecCCCChHHHHHHHHH
Confidence                             01234456899999995 5555544    3  38999999999988776655543

>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=99.40  E-value=1.4e-12  Score=83.75  Aligned_cols=46  Identities=17%  Similarity=0.117  Sum_probs=37.9

Q ss_pred             cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          55 YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        55 ~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ..++.++.++|..+.+++++.+|+. .+.++.|+.+++..++++.+.
T Consensus       159 ~~~~~~Il~tn~~~~i~~~l~sR~~-~i~~~~~~~~~~~~~l~~i~~  204 (252)
T d1sxje2         159 SKNIRLIMVCDSMSPIIAPIKSQCL-LIRCPAPSDSEISTILSDVVT  204 (252)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             cccccceeeeccccchhhhhhcchh-eeeecccchhhHHHHHHHHHH
Confidence            3456788899999999999999995 678899999998888876654

>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=99.39  E-value=5.5e-13  Score=85.12  Aligned_cols=84  Identities=21%  Similarity=0.147  Sum_probs=63.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------------------------   49 (105)
                      ..++|+||||+||||+|+++|+++.......+.                                               
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~~~  125 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDA  125 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHHHHHHHHhhhhccCCCceEEeehhhhhcchhH
Confidence            569999999999999999999987653222111                                               


Q ss_pred             ------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                            ..-.....+.++.++|....++.++.+|+. .+.+..|+..++..++++.++
T Consensus       126 ~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~-~i~~~~~~~~~~~~~l~~~~~  182 (231)
T d1iqpa2         126 QQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA-IFRFRPLRDEDIAKRLRYIAE  182 (231)
T ss_dssp             HHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccCCcceEEEeccCChhhchHhHhCccc-cccccccchhhHHHHHHHHHH
Confidence                  011233567788999999999999999986 467788888888888877664

>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=99.32  E-value=2.6e-12  Score=81.66  Aligned_cols=84  Identities=14%  Similarity=0.104  Sum_probs=63.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----------------------------------------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----------------------------------------------   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----------------------------------------------   49 (105)
                      ..++|+||||+||||+|+.+|++++........                                               
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~  116 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAG  116 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHH
T ss_pred             CeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHHHHhhccCCCcceEEEEEecccccchh
Confidence            359999999999999999999998865332221                                               


Q ss_pred             -------eeecccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 -------IFFKKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 -------~~~~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                             ..-.......++.+++..+.+..++.+|+. .+.++.|+.+++..++.+...
T Consensus       117 ~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~-~i~~~~~~~~~i~~~l~~i~~  174 (224)
T d1sxjb2         117 AQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCA-ILRYSKLSDEDVLKRLLQIIK  174 (224)
T ss_dssp             HHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhccccccceeeeeccCchhhhhhHHHHHHH-HhhhcccchhhhHHHHHHHHH
Confidence                   011223456677888888899999999995 578899999998888877654

>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=99.27  E-value=9.4e-12  Score=78.98  Aligned_cols=83  Identities=22%  Similarity=0.228  Sum_probs=62.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------------------   49 (105)
                      .++|+||||+|||++++++|+++.........                                                
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~~~~  116 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQ  116 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhccccccccCCCeEEEEEeccccchhhHH
Confidence            59999999999999999999997654321110                                                


Q ss_pred             ----eee-cccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ----IFF-KKYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ----~~~-~~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                          ..+ .......++.++|....+.+++.+|+. .+.+..|+..++..++.+.+.
T Consensus       117 ~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~-~i~~~~~~~~~i~~~l~~I~~  172 (227)
T d1sxjc2         117 NALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT-RFRFQPLPQEAIERRIANVLV  172 (227)
T ss_dssp             HHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhcccceeeccccCcHHHhHHHHHHHHh-hhccccccccccccccccccc
Confidence                012 223567788888998999999999985 557788889988888877553

>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=99.19  E-value=5.7e-12  Score=81.36  Aligned_cols=37  Identities=30%  Similarity=0.388  Sum_probs=32.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ...++.++|+|||||||||+|+++|.+++.+++.++.
T Consensus        29 ~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~   65 (273)
T d1gvnb_          29 VESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   65 (273)
T ss_dssp             CSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEec
Confidence            4457789999999999999999999999998877754

>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=99.19  E-value=1.4e-11  Score=83.92  Aligned_cols=36  Identities=28%  Similarity=0.341  Sum_probs=32.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+..++++|+||||+|||++|+++|+.++.+++.+.
T Consensus       151 ~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in  186 (362)
T d1svma_         151 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVN  186 (362)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCS
T ss_pred             CCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEE
Confidence            567789999999999999999999999999988764

>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=99.19  E-value=7.3e-11  Score=75.69  Aligned_cols=87  Identities=14%  Similarity=0.051  Sum_probs=60.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce----------------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA----------------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~----------------------------------------------   49 (105)
                      +.+++|+||||+|||++++++++.+.........                                              
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRER  122 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHT
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhc
Confidence            4689999999999999999999998643221100                                              


Q ss_pred             ----------------------------eeecccCCEEEEEeeCCC---CCCCHHhhcccc-eEEEeCCCCHHHHHHHHH
Q psy4924          50 ----------------------------IFFKKYPNVLIFTTSNLT---GAIDLAFLDRAD-IKQYIGFPSAAAIFNIFS   97 (105)
Q Consensus        50 ----------------------------~~~~~~~~~~~~~~~n~~---~~~d~~~~~r~~-~~~~~~~~~~~~~~~i~~   97 (105)
                                                  ........+.++.+++..   +.+++.+.+|+. ..+.++.++.+++..++.
T Consensus       123 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~  202 (276)
T d1fnna2         123 DLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILL  202 (276)
T ss_dssp             TCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHH
T ss_pred             ccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHH
Confidence                                        011223456677777764   456777776653 456788889999999988


Q ss_pred             HHHHH
Q psy4924          98 SCVEE  102 (105)
Q Consensus        98 ~~~~~  102 (105)
                      +.++.
T Consensus       203 ~r~~~  207 (276)
T d1fnna2         203 DRAKA  207 (276)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76653

>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=99.19  E-value=5.3e-11  Score=75.59  Aligned_cols=45  Identities=11%  Similarity=-0.065  Sum_probs=35.5

Q ss_pred             CCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          56 PNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        56 ~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                      ....++.+++..+.+..++.+|+ ..+.+..|+.+++..++++...
T Consensus       137 ~~~~~i~~~~~~~~~~~~l~sr~-~~i~f~~~~~~~~~~~L~~i~~  181 (237)
T d1sxjd2         137 GVTRFCLICNYVTRIIDPLASQC-SKFRFKALDASNAIDRLRFISE  181 (237)
T ss_dssp             TTEEEEEEESCGGGSCHHHHHHS-EEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchh-hhhccccccccccchhhhhhhh
Confidence            44566777788888888899998 4667899999999888887654

>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=99.18  E-value=4.3e-11  Score=76.00  Aligned_cols=85  Identities=19%  Similarity=0.212  Sum_probs=54.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-------------------------------e---------------
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-------------------------------I---------------   50 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-------------------------------~---------------   50 (105)
                      .+++||||+|||||||++++|++.......+..                               +               
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~i~~~~~~~  116 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSGKERTQ  116 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTTCHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHccchhhHHHHHhhccchhhhhhhhhcCchHHH
Confidence            459999999999999999999987643222111                               0               


Q ss_pred             --------eecccCCEEEEEeeCCCCCC---CHHhhccc--ceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          51 --------FFKKYPNVLIFTTSNLTGAI---DLAFLDRA--DIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        51 --------~~~~~~~~~~~~~~n~~~~~---d~~~~~r~--~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                              .....+..+++.+...|..+   .+.+.+|+  .....++ |+.+.+..++.+...+
T Consensus       117 ~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~  180 (213)
T d1l8qa2         117 IEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKE  180 (213)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHH
Confidence                    12223444555555555433   45556654  5666675 6777888888877643

>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=99.17  E-value=2.5e-10  Score=76.23  Aligned_cols=86  Identities=24%  Similarity=0.353  Sum_probs=67.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce------------------------------------------------
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA------------------------------------------------   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~------------------------------------------------   49 (105)
                      .++++||+|+|||.||+.+|+.++.++...+.                                                
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             EEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhhcccCCCccccccCChhhHHHHhCccchhhhcccccc
Confidence            68999999999999999999999988765553                                                


Q ss_pred             ----------------e-----eecccCCEEEEEeeCCCC-------------------------CCCHHhhcccceEEE
Q psy4924          50 ----------------I-----FFKKYPNVLIFTTSNLTG-------------------------AIDLAFLDRADIKQY   83 (105)
Q Consensus        50 ----------------~-----~~~~~~~~~~~~~~n~~~-------------------------~~d~~~~~r~~~~~~   83 (105)
                                      +     ......+.++++|+|.-.                         ...+.++.|++..+.
T Consensus       134 ~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~  213 (315)
T d1r6bx3         134 HPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIW  213 (315)
T ss_dssp             CHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEE
T ss_pred             cchHhhhhHHhhccceecCCCCCccCccceEEEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhc
Confidence                            0     112346678889988531                         245677889999888


Q ss_pred             eCCCCHHHHHHHHHHHHHHh
Q psy4924          84 IGFPSAAAIFNIFSSCVEEL  103 (105)
Q Consensus        84 ~~~~~~~~~~~i~~~~~~~l  103 (105)
                      +.....++...|.+..+.++
T Consensus       214 f~~l~~~~~~~I~~~~l~~~  233 (315)
T d1r6bx3         214 FDHLSTDVIHQVVDKFIVEL  233 (315)
T ss_dssp             CCCCCHHHHHHHHHHHHHHH
T ss_pred             ccchhhhHHHHHHHHHHHHH
Confidence            88888999998888877665

>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=99.17  E-value=1.5e-10  Score=72.98  Aligned_cols=44  Identities=11%  Similarity=0.113  Sum_probs=35.8

Q ss_pred             cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHH
Q psy4924          55 YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSC   99 (105)
Q Consensus        55 ~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~   99 (105)
                      ..++.++.+|+.++.+.+.+.+|+ ..+.+..|+.++...++++.
T Consensus       136 ~~~~~fIl~t~~~~~ll~tI~SRc-~~i~~~~~~~~~~~~~L~~~  179 (207)
T d1a5ta2         136 PAETWFFLATREPERLLATLRSRC-RLHYLAPPPEQYAVTWLSRE  179 (207)
T ss_dssp             CTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHH
T ss_pred             cccceeeeeecChhhhhhhhccee-EEEecCCCCHHHHHHHHHHc
Confidence            356788889999999999999999 67788888888887776643

>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=99.15  E-value=1.8e-10  Score=73.82  Aligned_cols=84  Identities=17%  Similarity=0.197  Sum_probs=62.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccc------------------------cce----------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT------------------------PQA----------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~------------------------~~~----------------------   49 (105)
                      +..++|+||||+|||++|+++++.+......                        .+.                      
T Consensus        34 ~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~  113 (239)
T d1njfa_          34 HHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPAR  113 (239)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSS
T ss_pred             CeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEEecchhcCCHHHHHHHHHHHHhcccc
Confidence            3458999999999999999999988754211                        000                      


Q ss_pred             -----------------------eeec-ccCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCCHHHHHHHHHHHH
Q psy4924          50 -----------------------IFFK-KYPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCV  100 (105)
Q Consensus        50 -----------------------~~~~-~~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~  100 (105)
                                             ..++ ......++.+||..+.+.+++.+|+. .+.++.|+.+++...+.+..
T Consensus       114 ~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~-~i~~~~~~~~~i~~~l~~i~  187 (239)
T d1njfa_         114 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCL-QFHLKALDVEQIRHQLEHIL  187 (239)
T ss_dssp             SSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhc-ccccccCcHHHhhhHHHHHH
Confidence                                   0232 23567888899999999999999995 56778888888777766654

>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=99.13  E-value=1.2e-11  Score=73.82  Aligned_cols=33  Identities=30%  Similarity=0.630  Sum_probs=30.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.|+|.|||||||||+++.||.+++.++++.+.
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id~~~   35 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   35 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEeech
Confidence            579999999999999999999999999887654

>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=99.10  E-value=3.5e-10  Score=75.57  Aligned_cols=39  Identities=15%  Similarity=0.244  Sum_probs=30.0

Q ss_pred             CCEEEEEeeCCC-CCCCHHhhcccceEEEeCCCC-HHHHHH
Q psy4924          56 PNVLIFTTSNLT-GAIDLAFLDRADIKQYIGFPS-AAAIFN   94 (105)
Q Consensus        56 ~~~~~~~~~n~~-~~~d~~~~~r~~~~~~~~~~~-~~~~~~   94 (105)
                      ..+.+++++|.. ..+..++++||++.+.+++|. ......
T Consensus       169 ~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~~~~~~~  209 (333)
T d1g8pa_         169 ARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVE  209 (333)
T ss_dssp             CCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHH
T ss_pred             CCEEEEEecCccccccccchhhhhcceeeccCcchhhHHHH
Confidence            457788888875 568999999999999999884 333333

>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=99.08  E-value=5.5e-11  Score=72.08  Aligned_cols=34  Identities=26%  Similarity=0.461  Sum_probs=30.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .|+.++|.|||||||||+++.++++++.+++.++
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~   36 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLPGVPKVHFH   36 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEec
Confidence            3678999999999999999999999998887654

>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=99.07  E-value=1.9e-11  Score=74.68  Aligned_cols=33  Identities=18%  Similarity=0.389  Sum_probs=30.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.++|.|+|||||||+++.+|+.++.++++.+.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~D~   35 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDTDI   35 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEehhh
Confidence            568899999999999999999999999988664

>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=99.04  E-value=5.4e-11  Score=72.29  Aligned_cols=34  Identities=18%  Similarity=0.232  Sum_probs=29.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+.|+|.|||||||||||++||..++.++.....
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~   40 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYG   40 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeeh
Confidence            4789999999999999999999999988865443

>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=99.02  E-value=6.2e-11  Score=71.98  Aligned_cols=33  Identities=24%  Similarity=0.476  Sum_probs=29.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.++|+|+|||||||+++.+|+.++.++++.+.
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~d~   33 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDSDF   33 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEecCc
Confidence            358899999999999999999999999998764

>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=99.01  E-value=6.6e-11  Score=71.45  Aligned_cols=33  Identities=36%  Similarity=0.551  Sum_probs=29.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..++|.|||||||||+++.||..++.++++.+.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~~i~~~~   37 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLKYINVGD   37 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEEHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCcEEechH
Confidence            357899999999999999999999999876554

>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=99.01  E-value=1.2e-10  Score=75.05  Aligned_cols=46  Identities=7%  Similarity=-0.011  Sum_probs=32.2

Q ss_pred             CEEEEEeeCCCC------CCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          57 NVLIFTTSNLTG------AIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        57 ~~~~~~~~n~~~------~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      ...++..++.++      ..++...+|+...+.++.++.+++..++...++.
T Consensus       173 ~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~  224 (287)
T d1w5sa2         173 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAEL  224 (287)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             ceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHH
Confidence            444555555442      2234566788889999999999999999877653

>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=98.99  E-value=1.4e-10  Score=70.04  Aligned_cols=35  Identities=23%  Similarity=0.377  Sum_probs=30.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++.++|.|||||||||+++.|++.++.++...+.
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d~   39 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGDF   39 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGGG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeechhh
Confidence            46788999999999999999999999988876664

>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=98.99  E-value=1.5e-10  Score=70.01  Aligned_cols=33  Identities=18%  Similarity=0.369  Sum_probs=28.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+.|+|.|||||||||+|+.|+++++.+++.++
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~   35 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFG   35 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEee
Confidence            578999999999999999999999998776543

>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=98.99  E-value=1.2e-10  Score=70.77  Aligned_cols=32  Identities=28%  Similarity=0.555  Sum_probs=28.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++|.|+|||||||+++.+|..++.+|++.+.
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~~fiD~D~   34 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTDV   34 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCeEeecc
Confidence            36677999999999999999999999988664

>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=98.96  E-value=1.5e-09  Score=72.38  Aligned_cols=50  Identities=26%  Similarity=0.254  Sum_probs=40.0

Q ss_pred             cCCEEEEEeeCCC--------------------------CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHHHhh
Q psy4924          55 YPNVLIFTTSNLT--------------------------GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEELK  104 (105)
Q Consensus        55 ~~~~~~~~~~n~~--------------------------~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~l~  104 (105)
                      ..+.++++|+|.-                          ....+.++.|+|..+.+...+.++..++++..+.++.
T Consensus       164 ~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~  239 (315)
T d1qvra3         164 FRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLR  239 (315)
T ss_dssp             CTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHH
T ss_pred             CcceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHH
Confidence            3668899999952                          4577888999999888888889999999887776653

>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=98.94  E-value=1.4e-10  Score=74.53  Aligned_cols=47  Identities=26%  Similarity=0.376  Sum_probs=40.2

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      |+|++..+.+++   ++.|..+.|.||+|||||||+++++........++
T Consensus         8 k~yg~~~~l~~isl~i~~Gei~~liGpsGsGKSTLl~~i~Gl~~p~sG~I   57 (232)
T d2awna2           8 KAWGEVVVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDL   57 (232)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EEECCEEEEeeeEEEEcCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEE
Confidence            468888888877   89999999999999999999999999887655443

>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=98.93  E-value=2.1e-10  Score=69.39  Aligned_cols=33  Identities=18%  Similarity=0.255  Sum_probs=28.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|..|+|+|+|||||||+|++||+.++..+++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~   37 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRS   37 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCc
Confidence            356789999999999999999999998766543

>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=98.93  E-value=2.5e-10  Score=70.68  Aligned_cols=34  Identities=24%  Similarity=0.450  Sum_probs=29.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+..|+|.|||||||||+++.||+.++..++...
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i~~g   38 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDFGWVHLSAG   38 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHCCceEchh
Confidence            4667999999999999999999999998876654

>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=98.92  E-value=1.8e-10  Score=74.32  Aligned_cols=47  Identities=21%  Similarity=0.283  Sum_probs=40.2

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      |+|++..+.+++   ++.|..+.|.||+|||||||+++++.........+
T Consensus        14 k~yg~~~al~~vsl~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I   63 (239)
T d1v43a3          14 KRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRI   63 (239)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EEECCEEEEcceeEEECCCCEEEEECCCCChHHHHHHHHHcCCCCCCCEE
Confidence            468888888877   88999999999999999999999999887655443

>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=98.91  E-value=4.2e-10  Score=69.53  Aligned_cols=35  Identities=23%  Similarity=0.383  Sum_probs=30.5

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +.+-.++|.|||||||||.++.||..++..++...
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~~~g~~~i~~g   35 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAKNFCVCHLATG   35 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHHHhCCeEEeHH
Confidence            34667889999999999999999999998887754

>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=98.90  E-value=2e-10  Score=74.16  Aligned_cols=47  Identities=19%  Similarity=0.255  Sum_probs=39.9

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      |.|++..+.+++   ++.|..+.|.||+|||||||+++++........++
T Consensus        11 k~yg~~~al~~vsl~i~~Ge~~~liG~sGaGKSTll~~i~gl~~p~sG~I   60 (240)
T d1g2912          11 KVFGEVTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQI   60 (240)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EEECCEEEEcceeeEEcCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEE
Confidence            468887788877   88999999999999999999999998887655443

>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=98.88  E-value=5.2e-10  Score=67.19  Aligned_cols=29  Identities=31%  Similarity=0.684  Sum_probs=25.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +.++|.|||||||||+|+.|++.++..++
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            56999999999999999999999886543

>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=98.87  E-value=6e-10  Score=68.82  Aligned_cols=34  Identities=21%  Similarity=0.448  Sum_probs=30.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +-.++|.|||||||||+++.||..++.++++...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~is~~~   36 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHISAGD   36 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECCHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEEehhH
Confidence            4568999999999999999999999999887653

>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=98.87  E-value=5.2e-10  Score=72.27  Aligned_cols=47  Identities=15%  Similarity=0.330  Sum_probs=39.1

Q ss_pred             CCCcc-ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           1 MKFSH-SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         1 ~~~~~-~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      |+|.+ ..+++++   +++|..+.|+||+|||||||+++++........++
T Consensus         9 f~Y~~~~~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I   59 (242)
T d1mv5a_           9 FAYDDSEQILRDISFEAQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAGEI   59 (242)
T ss_dssp             ECSSSSSCSEEEEEEEECTTEEEEEECCTTSSHHHHHHHHTTSSCCSBSCE
T ss_pred             EECCCCCceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHHhhCCCCCEE
Confidence            46744 4688888   99999999999999999999999998887655443

>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=98.87  E-value=5.7e-10  Score=77.57  Aligned_cols=34  Identities=26%  Similarity=0.493  Sum_probs=31.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +.++||+||+|||||.||+.||+.++.||...++
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~da   82 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEA   82 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEG
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHhCCCEEEeec
Confidence            4589999999999999999999999999988776

>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=98.86  E-value=2.2e-10  Score=70.45  Aligned_cols=33  Identities=27%  Similarity=0.265  Sum_probs=28.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      |..|+|+|+|||||||+|+.||..++.++.+..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~   51 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCY   51 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCcc
Confidence            567889999999999999999999987766544

>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=98.86  E-value=6.8e-10  Score=67.80  Aligned_cols=32  Identities=22%  Similarity=0.373  Sum_probs=28.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .|+|.|||||||||+++.||..++.+++....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~~~~   33 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHISTGD   33 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceechhH
Confidence            38899999999999999999999998876543

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.86  E-value=5.8e-09  Score=68.17  Aligned_cols=85  Identities=18%  Similarity=0.171  Sum_probs=59.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC----------Cccccce------------------------------------
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI----------RLQTPQA------------------------------------   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~----------~~~~~~~------------------------------------   49 (105)
                      ..+++|+||||+|||++++.+|..+..          .++.++.                                    
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDe  118 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDE  118 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETT
T ss_pred             cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHHHHHHHHHHhhccCCceEEecc
Confidence            457999999999999999999986432          2222222                                    


Q ss_pred             ---------------------eeecccCCEEEEEeeCCC-----CCCCHHhhcccceEEEeCCCCHHHHHHHHHHHHH
Q psy4924          50 ---------------------IFFKKYPNVLIFTTSNLT-----GAIDLAFLDRADIKQYIGFPSAAAIFNIFSSCVE  101 (105)
Q Consensus        50 ---------------------~~~~~~~~~~~~~~~n~~-----~~~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~  101 (105)
                                           ...-..+.+.+|++|...     ..-|+++.+||+. +.++.|+.++...|+.....
T Consensus       119 ih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~eey~~~~e~d~al~rrF~~-I~V~Eps~e~t~~IL~~~~~  195 (268)
T d1r6bx2         119 IHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRALARRFQK-IDITEPSIEETVQIINGLKP  195 (268)
T ss_dssp             TTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCCCCCTTSSGGGEEE-EECCCCCHHHHHHHHHHHHH
T ss_pred             hHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHHHHHHHhhcHHHHhhhcc-cccCCCCHHHHHHHHHHhhH
Confidence                                 012223456677776543     4668889999985 47899999988888876543

>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=98.86  E-value=9e-10  Score=66.50  Aligned_cols=28  Identities=39%  Similarity=0.597  Sum_probs=25.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+-.|+|.|||||||||+++.|+..++.
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            4556999999999999999999999874

>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=98.85  E-value=5.1e-10  Score=69.44  Aligned_cols=36  Identities=22%  Similarity=0.512  Sum_probs=31.4

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      ..++.++|.|||||||||+++.||+.++.+++....
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~~g~~~is~g~   41 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGD   41 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHHTCCEEEEHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHhCCeeEeccH
Confidence            357889999999999999999999999988876543

>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=98.85  E-value=8e-10  Score=68.52  Aligned_cols=33  Identities=24%  Similarity=0.480  Sum_probs=29.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      ....++|.|||||||||+|+.||..++..+++.
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~~~g~~~is~   39 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   39 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEEeh
Confidence            345799999999999999999999999887765

>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=98.85  E-value=3.5e-10  Score=71.14  Aligned_cols=45  Identities=33%  Similarity=0.431  Sum_probs=37.1

Q ss_pred             CCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           2 KFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         2 ~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|+ ..+++++   +++|..+.|.||+|||||||+++++..+....+++
T Consensus        11 ~y~-~~vl~~is~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~~p~~G~I   58 (200)
T d1sgwa_          11 GYD-KPVLERITMTIEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEI   58 (200)
T ss_dssp             ESS-SEEEEEEEEEEETTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EeC-CeEEeceEEEEcCCCEEEEECCCCChHHHHHHHHhcccccCCCEE
Confidence            453 4677777   88999999999999999999999998887655443

>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=98.84  E-value=3.8e-10  Score=72.73  Aligned_cols=46  Identities=20%  Similarity=0.315  Sum_probs=40.2

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |+|++..+.+++   +.+|..+-|.||+|+|||||+++++..+......
T Consensus        10 k~yg~~~vl~~vs~~v~~Gei~glvG~nGaGKSTLl~~l~G~~~p~~G~   58 (238)
T d1vpla_          10 KRIGKKEILKGISFEIEEGEIFGLIGPNGAGKTTTLRIISTLIKPSSGI   58 (238)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEECCEEEEccceeEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCE
Confidence            468888899988   8899999999999999999999999988765443

>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=98.83  E-value=4.1e-10  Score=72.69  Aligned_cols=46  Identities=22%  Similarity=0.325  Sum_probs=39.6

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|++..+.+++   ++.|..+.|.||+|+|||||+++++..+......
T Consensus        14 k~yg~~~al~~vs~~i~~Gei~~liGpnGaGKSTl~~~i~Gl~~p~~G~   62 (240)
T d1ji0a_          14 VYYGAIHAIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGK   62 (240)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEECCEEEEeeeeEEECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccE
Confidence            468887888888   8899999999999999999999999888765444

>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=98.83  E-value=4.6e-10  Score=73.12  Aligned_cols=44  Identities=14%  Similarity=0.256  Sum_probs=38.2

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      |+|++..+.+++   +..|..+.|.||+|||||||+++++.......
T Consensus        10 k~yg~~~al~~vs~~i~~GEi~~iiG~sGsGKSTLl~~i~Gl~~p~~   56 (258)
T d1b0ua_          10 KRYGGHEVLKGVSLQARAGDVISIIGSSGSGKSTFLRCINFLEKPSE   56 (258)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSSCCSE
T ss_pred             EEECCEEEEcceeeEEcCCCEEEEECCCCCcHHHHHHHHHcCccCCC
Confidence            468888888888   89999999999999999999999998765443

>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=98.81  E-value=1.4e-09  Score=66.80  Aligned_cols=31  Identities=23%  Similarity=0.402  Sum_probs=27.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .|+|.|||||||||+++.||..++.+++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is~g   32 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHISTG   32 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceeeHH
Confidence            3789999999999999999999999887653

>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=98.81  E-value=3.3e-09  Score=72.04  Aligned_cols=35  Identities=34%  Similarity=0.587  Sum_probs=30.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      +...+++.||+|+|||.+|++||..++.++...+.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~~~~~ir~D~  101 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDA  101 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEG
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhcccceeehhh
Confidence            45679999999999999999999999988876554

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.81  E-value=1.4e-09  Score=65.71  Aligned_cols=27  Identities=44%  Similarity=0.746  Sum_probs=24.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++|+|+||||||||||++.+++.+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            679999999999999999999998543

>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=98.81  E-value=1.3e-09  Score=66.20  Aligned_cols=29  Identities=34%  Similarity=0.667  Sum_probs=25.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      .++|.||||||||||+++++..++.....
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~~~g~   30 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGKRAIG   30 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGEEE
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCCCcce
Confidence            48999999999999999999999876543

>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=98.81  E-value=1.4e-09  Score=66.62  Aligned_cols=32  Identities=41%  Similarity=0.596  Sum_probs=28.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .++|.|||||||||+++.||..++..++....
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~~~~   33 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQISTGE   33 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEchHH
Confidence            47899999999999999999999998877543

>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=98.80  E-value=1.5e-09  Score=67.11  Aligned_cols=32  Identities=28%  Similarity=0.526  Sum_probs=28.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..|+|.|||||||||.|+.||+.++..++..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g~~~i~~   32 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLSA   32 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCceEcH
Confidence            35689999999999999999999999887643

>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=98.79  E-value=6.1e-10  Score=72.36  Aligned_cols=46  Identities=24%  Similarity=0.376  Sum_probs=39.4

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |+|++..+.+++   +.+|..+.|.||+|||||||+++++..+......
T Consensus        12 k~yg~~~aL~~vs~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G~   60 (254)
T d1g6ha_          12 KYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGR   60 (254)
T ss_dssp             EEETTEEEEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEECCeEEEcceEEEECCCCEEEEECCCCCcHHHHHHHHHCCCcCCCcE
Confidence            468888888888   8899999999999999999999999887755443

>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=98.79  E-value=1.4e-09  Score=67.55  Aligned_cols=31  Identities=16%  Similarity=0.469  Sum_probs=28.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++|.|||||||||+++.||..++..+++..
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~is~g   38 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHLSSG   38 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEEcHH
Confidence            5888999999999999999999999888764

>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=98.77  E-value=1e-09  Score=70.80  Aligned_cols=46  Identities=22%  Similarity=0.349  Sum_probs=37.4

Q ss_pred             CCCc--cccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFS--HSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~--~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|.  +..+++++   +++|..+.|+||+|||||||+++++..+......
T Consensus         9 f~Y~~~~~~vL~~isl~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G~   59 (241)
T d2pmka1           9 FRYKPDSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENGQ   59 (241)
T ss_dssp             EESSTTSCEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEeCCCCcceEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhcCCCCCCE
Confidence            3563  34477888   8999999999999999999999999988765443

>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=98.77  E-value=1.4e-09  Score=70.51  Aligned_cols=46  Identities=17%  Similarity=0.291  Sum_probs=37.3

Q ss_pred             CCCccc---cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHS---KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~---~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|.+.   .+++++   +++|..+.|+||+|||||||++.++.........
T Consensus        19 f~Y~~~~~~~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~li~gl~~p~~G~   70 (251)
T d1jj7a_          19 FAYPNRPDVLVLQGLTFTLRPGEVTALVGPNGSGKSTVAALLQNLYQPTGGQ   70 (251)
T ss_dssp             ECCTTSTTCCSEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EECCCCCCCEeEeceEEEEcCCCEEEEECCCCCcHHHHHHHHhcccCCCcCE
Confidence            356442   377777   8999999999999999999999999888765443

>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=98.76  E-value=2e-09  Score=65.99  Aligned_cols=31  Identities=23%  Similarity=0.463  Sum_probs=27.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++|.|||||||||+++.||..++.+++...
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~~~   34 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLATG   34 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEecc
Confidence            4778899999999999999999999887764

>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=98.76  E-value=2.6e-09  Score=66.74  Aligned_cols=32  Identities=41%  Similarity=0.744  Sum_probs=28.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .+.|.|.|||||||||+++.||+.++.++++.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~gl~~iSt   34 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQWHLLDS   34 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCcEECH
Confidence            34788999999999999999999999988764

>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=98.75  E-value=9.8e-10  Score=70.38  Aligned_cols=45  Identities=20%  Similarity=0.256  Sum_probs=36.4

Q ss_pred             CCCccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |+|++. +.+++   +.+|..+.|.||+|||||||+++++........+
T Consensus         9 k~y~~~-aL~~vs~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~~p~sG~   56 (229)
T d3d31a2           9 RKWKNF-SLDNLSLKVESGEYFVILGPTGAGKTLFLELIAGFHVPDSGR   56 (229)
T ss_dssp             EECSSC-EEEEEEEEECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEEE
T ss_pred             EEeCCE-EEeeeEEEECCCCEEEEECCCCCcHHHHHHHHhcCcCCCCCE
Confidence            457654 55666   8899999999999999999999999987655433

>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=98.75  E-value=2.4e-09  Score=65.43  Aligned_cols=31  Identities=23%  Similarity=0.367  Sum_probs=27.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++|.|||||||||.++.||+.++..++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~~~   32 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQISTG   32 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceechh
Confidence            4788999999999999999999998887654

>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=98.74  E-value=2.3e-09  Score=65.70  Aligned_cols=84  Identities=12%  Similarity=0.071  Sum_probs=50.9

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccccee------------eecccCCEEEEEeeCCCCCCCHHhhc---c-
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI------------FFKKYPNVLIFTTSNLTGAIDLAFLD---R-   77 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~------------~~~~~~~~~~~~~~n~~~~~d~~~~~---r-   77 (105)
                      +.+..++++|+|||||||+++.++...+...++.+.+            .+..+.. +++..||....--..+++   . 
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~l~~g~~-vIiD~t~~~~~~R~~~~~~a~~~   90 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVSSCQAALRQGKR-VVIDNTNPDVPSRARYIQCAKDA   90 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEEEEHHHHCSHHHHHHHHHHHHHTTCC-EEEESCCCSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEEEchHHHHHHHHHHHHHHHHHHCCCC-ceeeCcCCCHHHHHHHHHHHHhc
Confidence            4567899999999999999999999888776665541            2333333 446666643211111221   1 


Q ss_pred             -cc-eEEEeCCCCHHHHHHHHHH
Q psy4924          78 -AD-IKQYIGFPSAAAIFNIFSS   98 (105)
Q Consensus        78 -~~-~~~~~~~~~~~~~~~i~~~   98 (105)
                       .. ..+++..|.+.++.+...|
T Consensus        91 ~~~~~~v~l~~~~e~~~~Rn~~R  113 (172)
T d1yj5a2          91 GVPCRCFNFCATIEQARHNNRFR  113 (172)
T ss_dssp             TCCEEEEEECCCHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCHHHHHHHHHHh
Confidence             12 3456666655555555554

>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=98.73  E-value=2.2e-09  Score=69.70  Aligned_cols=46  Identities=22%  Similarity=0.363  Sum_probs=37.3

Q ss_pred             CCCccc--cccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSHS--KVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~~--~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |.|.+.  .+++++   +++|..+.|+||+|||||||++.++.........
T Consensus        21 f~Y~~~~~~~L~~isl~i~~Ge~iaivG~sGsGKSTLl~ll~gl~~p~~G~   71 (253)
T d3b60a1          21 FTYPGREVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGH   71 (253)
T ss_dssp             ECSSSSSCCSEEEEEEEECTTCEEEEEECTTSSHHHHHHHHTTTTCCSEEE
T ss_pred             EEeCCCCCceeeceEEEEcCCCEEEEECCCCChHHHHHHHHhcccCCCccE
Confidence            356443  477777   8999999999999999999999999887765444

>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=98.73  E-value=2.9e-08  Score=60.60  Aligned_cols=28  Identities=29%  Similarity=0.360  Sum_probs=23.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .|.|.||+||||||+|+.|+..++....
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~~~~   51 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLREQGI   51 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccccc
Confidence            4669999999999999999998775543

>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=98.73  E-value=4.1e-09  Score=62.40  Aligned_cols=24  Identities=29%  Similarity=0.600  Sum_probs=21.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +.|+|+|||||||||+|+.++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            568999999999999999987654

>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=98.72  E-value=2.4e-09  Score=70.46  Aligned_cols=43  Identities=28%  Similarity=0.361  Sum_probs=36.5

Q ss_pred             Cccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924           3 FSHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus         3 ~~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      |..+++++++   +.+|..+.|+||+|||||||+++++..+...-.
T Consensus        46 ~~g~pvL~~isl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~~G   91 (281)
T d1r0wa_          46 LVGNPVLKNINLNIEKGEMLAITGSTGSGKTSLLMLILGELEASEG   91 (281)
T ss_dssp             HTTCEEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCCCeEEeCeEEEEcCCCEEEEECCCCChHHHHHHHHhCCCcCCCc
Confidence            3456788888   899999999999999999999999988776543

>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=98.71  E-value=8.1e-10  Score=71.29  Aligned_cols=46  Identities=22%  Similarity=0.245  Sum_probs=36.9

Q ss_pred             CC--ccccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924           2 KF--SHSKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus         2 ~~--~~~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|  ++..+.+++   +..|..+.|.||+|||||||+++++........++
T Consensus        12 ~y~~g~~~aL~~vsl~i~~Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I   62 (242)
T d1oxxk2          12 VFKKGKVVALDNVNINIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGEL   62 (242)
T ss_dssp             EEGGGTEEEEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEE
T ss_pred             EECCCCEEEEeceEEEECCCCEEEEECCCCCcHHHHHHHHHcCcCCCCceE
Confidence            46  334566776   88999999999999999999999999877655443

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=98.71  E-value=5.7e-09  Score=63.18  Aligned_cols=30  Identities=27%  Similarity=0.430  Sum_probs=26.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +.|+|.|||||||||+++.|+..++.....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~~~   31 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVN   31 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence            679999999999999999999998776544

>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=98.70  E-value=2e-09  Score=68.95  Aligned_cols=39  Identities=21%  Similarity=0.291  Sum_probs=32.6

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +.+++   +..|..+.|.||+|||||||+++++.........
T Consensus        20 al~~isl~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~~p~sG~   61 (230)
T d1l2ta_          20 ALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEGE   61 (230)
T ss_dssp             EEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEeceEEEEcCCCEEEEECCCCCCcchhhHhccCCCCCCcce
Confidence            46655   8899999999999999999999999877654443

>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=98.69  E-value=1.4e-07  Score=58.81  Aligned_cols=28  Identities=25%  Similarity=0.450  Sum_probs=24.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      |-.|.|.||+||||||+++.|+..++..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            3457899999999999999999998754

>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=98.69  E-value=5.1e-09  Score=65.68  Aligned_cols=30  Identities=20%  Similarity=0.520  Sum_probs=26.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .|.+-|||||||||.|+.||.+++.++++.
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg~~~ist   34 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFGFTYLDT   34 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEECH
Confidence            466789999999999999999999987763

>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=98.69  E-value=2.1e-09  Score=69.26  Aligned_cols=39  Identities=18%  Similarity=0.254  Sum_probs=32.9

Q ss_pred             ccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           8 VKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         8 ~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +.+++   +..|..+.|.||+|||||||+++++.........
T Consensus        20 al~~vsl~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~~p~sG~   61 (240)
T d3dhwc1          20 ALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLERPTEGS   61 (240)
T ss_dssp             EEEEEEEEECSSCEEEEEESTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EeeceeEEEcCCCEEEEECCCCCCHHHHHHHHcCCccccCCc
Confidence            56666   8899999999999999999999999887655443

>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=98.65  E-value=2.4e-09  Score=69.52  Aligned_cols=46  Identities=17%  Similarity=0.351  Sum_probs=37.8

Q ss_pred             CCCcc--ccccccc---ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924           1 MKFSH--SKVKSNI---ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus         1 ~~~~~--~~~~~~~---~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      |+|.+  ..+++++   +.+|..+.|+||+|||||||++.++.........
T Consensus        24 f~Y~~~~~~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~   74 (255)
T d2hyda1          24 FQYNDNEAPILKDINLSIEKGETVAFVGMSGGGKSTLINLIPRFYDVTSGQ   74 (255)
T ss_dssp             ECSCSSSCCSEEEEEEEECTTCEEEEECSTTSSHHHHHTTTTTSSCCSEEE
T ss_pred             EEeCCCCCcceeceEEEEcCCCEEEEECCCCCcHHHHHHHHHhcCCccccc
Confidence            45754  4588888   8999999999999999999999999877765443

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.65  E-value=1.2e-08  Score=63.77  Aligned_cols=27  Identities=33%  Similarity=0.569  Sum_probs=23.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+++|+||||+|||++++.+|..+.
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri~   68 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHHH
Confidence            345899999999999999999998664

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.64  E-value=8.5e-09  Score=63.86  Aligned_cols=32  Identities=22%  Similarity=0.359  Sum_probs=26.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      +..++++|.|||||||+|++||+.++....+.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~~~~   33 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPT   33 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCCCC
Confidence            45689999999999999999999887654433

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=98.62  E-value=1.4e-08  Score=60.82  Aligned_cols=27  Identities=33%  Similarity=0.436  Sum_probs=23.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.+.++|++|||||||++.+++.+...
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            468999999999999999999886544

>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=98.55  E-value=1.2e-08  Score=65.69  Aligned_cols=31  Identities=23%  Similarity=0.358  Sum_probs=25.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +..+.|.||+|||||||+++++..+......
T Consensus        24 ~e~~~liGpnGaGKSTll~~i~Gl~~p~~G~   54 (240)
T d2onka1          24 RDYCVLLGPTGAGKSVFLELIAGIVKPDRGE   54 (240)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             CEEEEEECCCCChHHHHHHHHHcCCCCCceE
Confidence            3577899999999999999999988755433

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=98.55  E-value=2.4e-08  Score=60.55  Aligned_cols=30  Identities=23%  Similarity=0.416  Sum_probs=26.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +.++|.|+|||||||+++.|+..++...+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~   31 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGIN   31 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence            567899999999999999999999876543

>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=98.51  E-value=3.7e-08  Score=60.93  Aligned_cols=27  Identities=44%  Similarity=0.634  Sum_probs=23.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++|+|+|||||||||+++.|+...+..
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~   27 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSI   27 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCc
Confidence            468999999999999999999987644

>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=98.51  E-value=4.9e-08  Score=59.72  Aligned_cols=26  Identities=31%  Similarity=0.759  Sum_probs=23.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      |+.++|.|||||||||+++.++....
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            67899999999999999999998864

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.50  E-value=2.5e-08  Score=63.52  Aligned_cols=33  Identities=24%  Similarity=0.256  Sum_probs=28.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTP   47 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~   47 (105)
                      .++.++|+||+|+|||+|++.++...+..+..+
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i   60 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIKIGINELNLPYIYL   60 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEE
T ss_pred             cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEE
Confidence            467899999999999999999999998766443

>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=98.50  E-value=3.9e-08  Score=60.54  Aligned_cols=27  Identities=33%  Similarity=0.607  Sum_probs=23.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +.|+|+||||||||||++.|+++....
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~   28 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDS   28 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcc
Confidence            569999999999999999999987643

>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=98.46  E-value=9.2e-07  Score=58.57  Aligned_cols=26  Identities=19%  Similarity=0.378  Sum_probs=23.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +-.|.|.|++||||||+++.|+..+.
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            45788999999999999999999886

>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=98.37  E-value=1.6e-07  Score=57.43  Aligned_cols=32  Identities=25%  Similarity=0.438  Sum_probs=27.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      +++|..++|+||||+|||+++..+|.......
T Consensus        20 i~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~   51 (242)
T d1n0wa_          20 IETGSITEMFGEFRTGKTQICHTLAVTCQLPI   51 (242)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHTTSCG
T ss_pred             CcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhh
Confidence            67799999999999999999999998765543

>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=98.36  E-value=7.1e-07  Score=55.53  Aligned_cols=73  Identities=7%  Similarity=0.000  Sum_probs=52.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC------ccccce---------------------------------------
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR------LQTPQA---------------------------------------   49 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~------~~~~~~---------------------------------------   49 (105)
                      .+..++++||||+|||++|..+++.+...      +..+..                                       
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~KviIId~ad~l~~   93 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQ   93 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCCCEEEEEeCccccch
Confidence            46689999999999999999999977532      111111                                       


Q ss_pred             -------eeecc-cCCEEEEEeeCCCCCCCHHhhcccceEEEeCCCC
Q psy4924          50 -------IFFKK-YPNVLIFTTSNLTGAIDLAFLDRADIKQYIGFPS   88 (105)
Q Consensus        50 -------~~~~~-~~~~~~~~~~n~~~~~d~~~~~r~~~~~~~~~~~   88 (105)
                             -.+++ ..+..++.+|+.++.+.+.+.+|+. .+.+..|.
T Consensus        94 ~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~-~i~~~~p~  139 (198)
T d2gnoa2          94 QAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVF-RVVVNVPK  139 (198)
T ss_dssp             HHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSE-EEECCCCH
T ss_pred             hhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceE-EEeCCCch
Confidence                   03333 4567788888988999999999984 44555553

>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=98.36  E-value=4.1e-07  Score=57.41  Aligned_cols=27  Identities=33%  Similarity=0.495  Sum_probs=23.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+..++|+||+|+||||.+..+|..+.
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~   36 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFV   36 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456789999999999999888887764

>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=98.34  E-value=2e-07  Score=58.53  Aligned_cols=26  Identities=23%  Similarity=0.431  Sum_probs=23.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+..|.|.|.|||||||+++.|+..+
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46689999999999999999999766

>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=98.33  E-value=4.4e-07  Score=56.99  Aligned_cols=27  Identities=26%  Similarity=0.293  Sum_probs=23.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .++.++|+||+|+||||.+..||..+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~   35 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK   35 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            466789999999999999999988775

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.33  E-value=2.6e-07  Score=62.98  Aligned_cols=32  Identities=22%  Similarity=0.272  Sum_probs=24.1

Q ss_pred             CCHHhhcccceEEEeCCCCHHHHHHHHHHHHHH
Q psy4924          70 IDLAFLDRADIKQYIGFPSAAAIFNIFSSCVEE  102 (105)
Q Consensus        70 ~d~~~~~r~~~~~~~~~~~~~~~~~i~~~~~~~  102 (105)
                      -|.++.+||..+ .++.|+.+....|+......
T Consensus       168 ~d~al~rrF~~v-~v~ep~~~~~~~il~~~~~~  199 (387)
T d1qvra2         168 KDPALERRFQPV-YVDEPTVEETISILRGLKEK  199 (387)
T ss_dssp             TCTTTCSCCCCE-EECCCCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHhcccc-cCCCCcHHHHHHHHHHHHHH
Confidence            477888899855 67999888888877765443

>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=98.33  E-value=3.1e-07  Score=57.74  Aligned_cols=28  Identities=32%  Similarity=0.387  Sum_probs=24.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .++.++|+||+|+||||.+-.||..+..
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~   32 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQN   32 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999998888887753

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=98.32  E-value=1.6e-07  Score=56.42  Aligned_cols=32  Identities=19%  Similarity=0.029  Sum_probs=25.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      +.+-+.|++|||||||+..++.++....+.+.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g~~v~   33 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVG   33 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCCCeEE
Confidence            45779999999999999999998876544433

>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=98.31  E-value=8e-07  Score=54.35  Aligned_cols=31  Identities=13%  Similarity=0.268  Sum_probs=24.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      -.+-|+|++||||||+|+.+. +.|.++++.+
T Consensus         4 ~IIgitG~~gSGKstva~~l~-~~g~~~~~~D   34 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLR-SWGYPVLDLD   34 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH-HTTCCEEEHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH-HCCCeEEEcc
Confidence            456799999999999999994 5787765543

>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=98.28  E-value=5e-07  Score=56.91  Aligned_cols=27  Identities=30%  Similarity=0.364  Sum_probs=19.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+..++|+||+|+||||.+-.||..+.
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~   37 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYK   37 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            356789999999999999888887775

>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=98.28  E-value=5.2e-07  Score=56.81  Aligned_cols=27  Identities=30%  Similarity=0.434  Sum_probs=23.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..++|+||+|+||||.+..+|..+..
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~   35 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQ   35 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            567899999999999999989987753

>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=98.27  E-value=3.5e-07  Score=57.23  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=23.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      |+.++|+||||+|||||.+.|.....
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            67899999999999999999998864

>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=98.26  E-value=3.8e-07  Score=55.83  Aligned_cols=27  Identities=19%  Similarity=0.375  Sum_probs=23.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.++|+||+|+|||||++.|......
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~~~   29 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKHPD   29 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCc
Confidence            468999999999999999999977654

>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=98.25  E-value=1.8e-07  Score=59.68  Aligned_cols=28  Identities=29%  Similarity=0.479  Sum_probs=25.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +.+|..+.|.||+|||||||+++++...
T Consensus        22 I~~Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          22 VRAGEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EETTCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            7789999999999999999999999843

>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=98.25  E-value=2.2e-07  Score=58.25  Aligned_cols=28  Identities=29%  Similarity=0.447  Sum_probs=25.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ++.++.++|+||||||||+++..++...
T Consensus        31 i~~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          31 VETGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EESSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             CcCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            7789999999999999999999887654

>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=98.22  E-value=3.8e-07  Score=57.55  Aligned_cols=30  Identities=27%  Similarity=0.418  Sum_probs=26.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ++.+..++|+||||||||+|+-.++.....
T Consensus        33 lp~G~~~li~G~pGsGKT~~~lq~~~~~~~   62 (254)
T d1pzna2          33 IETQAITEVFGEFGSGKTQLAHTLAVMVQL   62 (254)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             ccCCEEEEEEcCCCCCHHHHHHHHHHHhhc
Confidence            778999999999999999999999877653

>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=98.21  E-value=5.9e-07  Score=56.56  Aligned_cols=29  Identities=24%  Similarity=0.216  Sum_probs=26.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++.+..++|+||||||||+++..++....
T Consensus        34 ip~G~~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          34 IESMAITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            78899999999999999999999987653

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=98.19  E-value=5.3e-07  Score=56.81  Aligned_cols=29  Identities=28%  Similarity=0.424  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ++++..++|+||||+|||+++..+|....
T Consensus        23 i~~gsl~li~G~pGsGKT~l~~qia~~~~   51 (242)
T d1tf7a2          23 FFKDSIILATGATGTGKTLLVSRFVENAC   51 (242)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            67899999999999999999999988863

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=98.18  E-value=3.6e-06  Score=54.49  Aligned_cols=75  Identities=16%  Similarity=0.208  Sum_probs=47.5

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCCEEEEEeeCCCCCCCHHhhccc----ceEEEeCCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRA----DIKQYIGFPS   88 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~d~~~~~r~----~~~~~~~~~~   88 (105)
                      ++.++.+.|+||||||||+++-.+|.....+           +..++.+.+.+.   .++....++    +..+.....+
T Consensus        51 i~~g~itei~G~~gsGKTtl~l~~~~~~q~~-----------g~~~vyidtE~~---~~~~~a~~~Gvd~d~v~~~~~~~  116 (263)
T d1u94a1          51 LPMGRIVEIYGPESSGKTTLTLQVIAAAQRE-----------GKTCAFIDAEHA---LDPIYARKLGVDIDNLLCSQPDT  116 (263)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHT-----------TCCEEEEESSCC---CCHHHHHHTTCCGGGCEEECCSS
T ss_pred             ccCceEEEEecCCCcHHHHHHHHHHHHHHcC-----------CCEEEEEccccc---cCHHHHHHhCCCHHHEEEecCCC
Confidence            5567899999999999999999888877533           244555665543   233333221    2334445446


Q ss_pred             HHHHHHHHHHHHH
Q psy4924          89 AAAIFNIFSSCVE  101 (105)
Q Consensus        89 ~~~~~~i~~~~~~  101 (105)
                      .++...++..+.+
T Consensus       117 ~E~~~~~i~~l~~  129 (263)
T d1u94a1         117 GEQALEICDALAR  129 (263)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            6777776665543

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=98.16  E-value=5e-06  Score=53.93  Aligned_cols=74  Identities=19%  Similarity=0.215  Sum_probs=49.8

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCCEEEEEeeCCCCCCCHHhhccc----ceEEEeCCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRA----DIKQYIGFPS   88 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~d~~~~~r~----~~~~~~~~~~   88 (105)
                      ++.++...++||+|||||+++..++.....           .+..++.+.+.+   .+++..++++    +..++....+
T Consensus        54 ip~g~itei~G~~~sGKT~l~l~~~~~aqk-----------~g~~v~yiDtE~---~~~~~~a~~~Gvd~d~i~~~~~~~  119 (268)
T d1xp8a1          54 IPRGRITEIYGPESGGKTTLALAIVAQAQK-----------AGGTCAFIDAEH---ALDPVYARALGVNTDELLVSQPDN  119 (268)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHH-----------TTCCEEEEESSC---CCCHHHHHHTTCCGGGCEEECCSS
T ss_pred             ccCceEEEEecCCccchHHHHHHHHHHHHh-----------CCCEEEEEECCc---cCCHHHHHHhCCCchhEEEEcCCC
Confidence            566889999999999999999998887642           234566666654   3445454443    2234445556


Q ss_pred             HHHHHHHHHHHH
Q psy4924          89 AAAIFNIFSSCV  100 (105)
Q Consensus        89 ~~~~~~i~~~~~  100 (105)
                      .++.+++++.+.
T Consensus       120 ~E~~~~~~~~l~  131 (268)
T d1xp8a1         120 GEQALEIMELLV  131 (268)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777776654

>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=98.15  E-value=1.1e-06  Score=52.91  Aligned_cols=31  Identities=29%  Similarity=0.384  Sum_probs=27.5

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .++..++|.|+=|+||||++|.+++.++.+-
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~   61 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQG   61 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCCS
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhccccc
Confidence            4566899999999999999999999999753

>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=98.11  E-value=2.5e-06  Score=52.89  Aligned_cols=31  Identities=29%  Similarity=0.481  Sum_probs=25.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+-|+|+.||||||+++.+. +.|.++++.+.
T Consensus         4 iIgITG~igSGKStv~~~l~-~~G~~vidaD~   34 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLFT-DLGVPLVDADV   34 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHHH-TTTCCEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH-HCCCeEEEchH
Confidence            46799999999999999886 57888776554

>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=98.08  E-value=3.5e-07  Score=60.95  Aligned_cols=30  Identities=27%  Similarity=0.479  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..++.+++.||+||||||++++++...+.
T Consensus       163 v~~~~nili~G~tgSGKTT~l~al~~~i~~  192 (323)
T d1g6oa_         163 IAIGKNVIVCGGTGSGKTTYIKSIMEFIPK  192 (323)
T ss_dssp             HHHTCCEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             HHhCCCEEEEeeccccchHHHHHHhhhccc
Confidence            455778999999999999999999988864

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.08  E-value=1.3e-05  Score=51.99  Aligned_cols=75  Identities=13%  Similarity=0.182  Sum_probs=48.0

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCCEEEEEeeCCCCCCCHHhhccc----ceEEEeCCCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLTGAIDLAFLDRA----DIKQYIGFPS   88 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~d~~~~~r~----~~~~~~~~~~   88 (105)
                      ++.++...++||+|||||+++..++.....           .+..++++.+.+.   +++...+++    +..+.+...+
T Consensus        57 ~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~-----------~g~~~vyIDtE~~---~~~e~a~~~GvD~d~il~~~~~~  122 (269)
T d1mo6a1          57 LPRGRVIEIYGPESSGKTTVALHAVANAQA-----------AGGVAAFIDAEHA---LDPDYAKKLGVDTDSLLVSQPDT  122 (269)
T ss_dssp             BCSSSEEEEECSSSSSHHHHHHHHHHHHHH-----------TTCEEEEEESSCC---CCHHHHHHHTCCGGGCEEECCSS
T ss_pred             cccceeEEEecCCCcHHHHHHHHHHHHHhc-----------CCCEEEEEECCcc---CCHHHHHHhCCCHHHeEEecCCC
Confidence            667889999999999999999887765542           2234555665543   334333321    2234555556


Q ss_pred             HHHHHHHHHHHHH
Q psy4924          89 AAAIFNIFSSCVE  101 (105)
Q Consensus        89 ~~~~~~i~~~~~~  101 (105)
                      .++.+++++.+.+
T Consensus       123 ~E~~~~~~~~l~~  135 (269)
T d1mo6a1         123 GEQALEIADMLIR  135 (269)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777766543

>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=98.07  E-value=1.2e-06  Score=54.62  Aligned_cols=32  Identities=22%  Similarity=0.235  Sum_probs=28.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ++.+..++|.|+||+|||+++..+|.......
T Consensus        31 l~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~   62 (258)
T d2i1qa2          31 LESQSVTEFAGVFGSGKTQIMHQSCVNLQNPE   62 (258)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHTTCGG
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC
Confidence            67789999999999999999999998876543

>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=98.06  E-value=6.7e-06  Score=51.07  Aligned_cols=31  Identities=32%  Similarity=0.536  Sum_probs=25.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+.|+|++||||||+++.+. ..|.++++.+.
T Consensus         5 iIgitG~igSGKStv~~~l~-~~G~~vidaD~   35 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA-DLGINVIDADI   35 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH-HTTCEEEEHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH-HCCCcEEEchH
Confidence            57799999999999999886 77888776543

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=98.05  E-value=1.6e-06  Score=54.36  Aligned_cols=24  Identities=33%  Similarity=0.609  Sum_probs=21.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+++.||+|||||||++.+.+.+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            478999999999999999987664

>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=98.05  E-value=1.4e-06  Score=54.07  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.9

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      +++|..++|+|+||+|||+|+..++.
T Consensus        23 i~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          23 LPIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            67899999999999999999976654

>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=98.03  E-value=1.9e-06  Score=50.55  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .++|.|+||+|||||++.++..-
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48899999999999999987653

>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=98.01  E-value=3.1e-06  Score=51.78  Aligned_cols=35  Identities=26%  Similarity=0.439  Sum_probs=28.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccccee
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~   50 (105)
                      .++.++|.|+||+||||++-.+... +..++.-+..
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~-g~~lv~DD~~   47 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR-GHRLIADDRV   47 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT-TCEEEEEEEE
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc-CCeEEecCeE
Confidence            4789999999999999999888865 7666655543

>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=97.98  E-value=5.9e-06  Score=50.55  Aligned_cols=35  Identities=29%  Similarity=0.358  Sum_probs=27.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCcccccee
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAI   50 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~   50 (105)
                      .+.+++|.||+|+|||+++-.+... +..++.-|..
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~-G~~lvaDD~v   48 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK-NHLFVGDDAI   48 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT-TCEEEEEEEE
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc-CCceecCCeE
Confidence            5789999999999999999888754 6665554443

>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=97.97  E-value=1.5e-06  Score=53.23  Aligned_cols=28  Identities=25%  Similarity=0.265  Sum_probs=24.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      +-.|.|-|+.||||||+++.|++.++..
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~~l~~~   36 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEKYKNDI   36 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGGTTTE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCc
Confidence            4469999999999999999999998653

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.95  E-value=3.3e-06  Score=52.31  Aligned_cols=26  Identities=27%  Similarity=0.544  Sum_probs=23.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      |+-|.+-|+.||||||+++.|++.+.
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~   27 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLE   27 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            67789999999999999999998774

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.95  E-value=2.5e-06  Score=53.30  Aligned_cols=29  Identities=17%  Similarity=0.375  Sum_probs=24.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|..|.|.|+.||||||+++.|++.+...
T Consensus         2 rG~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            36778888999999999999999987543

>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=97.93  E-value=3.4e-06  Score=52.66  Aligned_cols=32  Identities=16%  Similarity=0.263  Sum_probs=28.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+..+.++|+|||++|||+++.++++.++...
T Consensus        50 ~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~v   81 (205)
T d1tuea_          50 TPKKNCLVFCGPANTGKSYFGMSFIHFIQGAV   81 (205)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHHTCEE
T ss_pred             CCCceEEEEECCCCccHHHHHHHHHHHhCCEE
Confidence            56678999999999999999999999997554

>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=97.92  E-value=3.7e-06  Score=49.16  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++|+|+||+|||||+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998864

>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=97.92  E-value=6e-06  Score=50.18  Aligned_cols=37  Identities=22%  Similarity=0.373  Sum_probs=28.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeee
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFF   52 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~   52 (105)
                      .+.+++|.|++|+|||+++-.+... +..++.-+...+
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~-g~~li~DD~~~~   50 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR-GHRLVADDNVEI   50 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT-TCEEEESSEEEE
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc-CCeEEeCCeEEE
Confidence            4789999999999999999877766 666655554433

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=97.92  E-value=3.9e-06  Score=53.66  Aligned_cols=32  Identities=28%  Similarity=0.470  Sum_probs=26.1

Q ss_pred             ccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924           9 KSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus         9 ~~~~~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+++ +...+|+|++|+|||+|+..+|..+.
T Consensus        23 i~G~~p-g~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          23 LPNMVA-GTVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             ETTEET-TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             hCCccC-CcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            344455 88999999999999999998887653

>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=97.86  E-value=5.1e-06  Score=51.18  Aligned_cols=23  Identities=35%  Similarity=0.372  Sum_probs=20.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      +.|+|.|++|+|||||++++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            56999999999999999999864

>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=97.84  E-value=9.1e-07  Score=53.45  Aligned_cols=27  Identities=30%  Similarity=0.331  Sum_probs=23.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ...+|+||+||||||++.+|...+...
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L~g~   51 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTALIPD   51 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHSCC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            467899999999999999999887543

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.84  E-value=7.1e-06  Score=50.22  Aligned_cols=27  Identities=26%  Similarity=0.444  Sum_probs=22.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      ...|+|+|+||+|||||+.++...--.
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~   29 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVR   29 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            357999999999999999999876433

>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=97.83  E-value=8e-06  Score=47.98  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.++|+|.||+|||||++++...
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998764

>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=97.81  E-value=5.1e-06  Score=49.62  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=21.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ....++|+|++|+|||||++++...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457999999999999999998653

>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=97.81  E-value=8.5e-06  Score=52.75  Aligned_cols=25  Identities=28%  Similarity=0.526  Sum_probs=21.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+.|+|..|+||||||+.+.+..
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhh
Confidence            4578899999999999999998764

>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=97.81  E-value=7.2e-06  Score=51.48  Aligned_cols=28  Identities=18%  Similarity=0.302  Sum_probs=25.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++.|++-|+-||||||+++.|++.++..
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~   29 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEW   29 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTS
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            5789999999999999999999998754

>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=97.80  E-value=4.9e-06  Score=49.41  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||||++.+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            5899999999999999998653

>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=97.80  E-value=9e-06  Score=54.07  Aligned_cols=29  Identities=24%  Similarity=0.311  Sum_probs=24.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ...|-|.||||+|||||...++..+....
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~~~~~~g   82 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGMLLIREG   82 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHHHHHhcC
Confidence            45699999999999999999988775443

>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=97.80  E-value=5.4e-06  Score=52.54  Aligned_cols=34  Identities=26%  Similarity=0.455  Sum_probs=25.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++..+|.|+||+|||||+.+|.........+++
T Consensus        94 ~~kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs  127 (225)
T d1u0la2          94 KGKISTMAGLSGVGKSSLLNAINPGLKLRVSEVS  127 (225)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTCCCC-----
T ss_pred             cCCeEEEECCCCCCHHHHHHhhcchhhhhccCcc
Confidence            4788999999999999999999876665554443

>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=97.79  E-value=1e-05  Score=50.56  Aligned_cols=29  Identities=31%  Similarity=0.559  Sum_probs=26.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|+.|.+-|+-||||||+++.|++.+...
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            47889999999999999999999998653

>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=97.79  E-value=5.9e-06  Score=53.52  Aligned_cols=26  Identities=31%  Similarity=0.563  Sum_probs=22.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +.-+|+||+|||||++++|++..++.
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~~lg~   50 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKWVFGE   50 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHHTSCC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            46799999999999999999887654

>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=97.79  E-value=3e-06  Score=53.05  Aligned_cols=27  Identities=15%  Similarity=0.228  Sum_probs=24.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.|.|-|+-||||||+++.|++.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            578999999999999999999998853

>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=97.77  E-value=1.1e-05  Score=53.96  Aligned_cols=27  Identities=26%  Similarity=0.564  Sum_probs=23.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..-+|+||+|||||+++.||+..++.
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~~~lg~   51 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAISFVLGV   51 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            445789999999999999999987754

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=97.76  E-value=7.5e-06  Score=48.94  Aligned_cols=23  Identities=35%  Similarity=0.621  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|.+.|++|+|||||++++...-
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~   24 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999997543

>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=97.76  E-value=8.5e-05  Score=43.95  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=20.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...|++.|++|+|||+|++.+...
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhC
Confidence            457999999999999999998753

>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=97.75  E-value=7.4e-06  Score=50.28  Aligned_cols=25  Identities=20%  Similarity=0.489  Sum_probs=21.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .|.|.|+-||||||+++.|++.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~   26 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3788999999999999999988743

>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=97.75  E-value=7.9e-06  Score=48.77  Aligned_cols=25  Identities=20%  Similarity=0.302  Sum_probs=21.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..-.++++|.+|||||||++.+...
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999998753

>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=97.74  E-value=1.7e-05  Score=53.99  Aligned_cols=31  Identities=29%  Similarity=0.419  Sum_probs=26.3

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+...+++.||+||||||++.++.++++.+.
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~  186 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQELNSSE  186 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCCTT
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhhhcCCC
Confidence            3456799999999999999999999987653

>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=97.74  E-value=9.5e-06  Score=51.01  Aligned_cols=30  Identities=17%  Similarity=0.288  Sum_probs=26.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCccc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +.|.|+|+.||||||+|+.++...|...++
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~g~~~i~   31 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNYSAVKYQ   31 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSCEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhCCCeEEc
Confidence            468899999999999999999998877766

>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=97.72  E-value=1.2e-05  Score=47.75  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.+...
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            5889999999999999998754

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.71  E-value=1.3e-05  Score=48.09  Aligned_cols=22  Identities=27%  Similarity=0.449  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++++|++|+|||+|++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4889999999999999988754

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.71  E-value=1.3e-05  Score=47.57  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.+...
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999988753

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.71  E-value=1.4e-05  Score=51.11  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=23.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ....+++|+||+|||||++|+++....
T Consensus        21 ~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2          21 CAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             TCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            346789999999999999999997544

>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=97.70  E-value=1.4e-05  Score=53.65  Aligned_cols=22  Identities=36%  Similarity=0.690  Sum_probs=18.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVA   37 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la   37 (105)
                      .+..+|.||||||||+++..+.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHH
Confidence            6789999999999999875543

>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=97.70  E-value=9.4e-06  Score=49.48  Aligned_cols=21  Identities=24%  Similarity=0.441  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .|.|.|+||+|||||.+++.+
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            599999999999999999975

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=97.69  E-value=1e-05  Score=47.67  Aligned_cols=23  Identities=39%  Similarity=0.626  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      -.+++.|++|+|||||++++...
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999999854

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=97.68  E-value=1.9e-05  Score=50.56  Aligned_cols=28  Identities=18%  Similarity=0.349  Sum_probs=24.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +.+|..++|.|+||+|||+++..++...
T Consensus        32 ~~~G~l~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          32 ARGGEVIMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             BCTTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHhh
Confidence            5678899999999999999998888654

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.68  E-value=1.8e-05  Score=51.72  Aligned_cols=23  Identities=26%  Similarity=0.585  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|-|.|++||||||++..|...+
T Consensus        29 iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          29 FIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHH
Confidence            56689999999999999887665

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=97.68  E-value=7e-06  Score=53.76  Aligned_cols=26  Identities=15%  Similarity=0.419  Sum_probs=19.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...|.+.|++||||||+++++...++
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~i~~   29 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQIFR   29 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHh
Confidence            34799999999999999999988765

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.68  E-value=1.5e-05  Score=47.54  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4899999999999999998764

>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=97.67  E-value=1.5e-05  Score=51.27  Aligned_cols=24  Identities=25%  Similarity=0.380  Sum_probs=17.7

Q ss_pred             CceEEEEcCCCCCHHHH-HHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSL-CKAVAQK   39 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l-~~~la~~   39 (105)
                      ..+++|.|||||||||. +..++..
T Consensus        14 ~~~~lI~g~aGTGKTt~l~~rv~~l   38 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVITNKIAHL   38 (306)
T ss_dssp             SSEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEeeCCccHHHHHHHHHHHH
Confidence            45689999999999985 4444443

>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=97.67  E-value=1.5e-05  Score=48.16  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+++.|++|+|||||++.+..
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            489999999999999998874

>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=97.66  E-value=2e-05  Score=52.27  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=22.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...+-|.||||+|||||...++..+.
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~~   76 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLLT   76 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHHh
Confidence            45699999999999999999998754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.66  E-value=9.7e-06  Score=48.70  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|+|+|+||+|||||.++|.++
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999753

>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=97.65  E-value=1.6e-05  Score=47.49  Aligned_cols=22  Identities=36%  Similarity=0.582  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.++..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999999863

>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=97.65  E-value=1.9e-05  Score=47.21  Aligned_cols=22  Identities=36%  Similarity=0.548  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++++|++|+|||||++.+...
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4899999999999999998753

>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=97.65  E-value=1.9e-05  Score=46.94  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++++|.+|+|||+|++.+...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998764

>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=97.65  E-value=1.8e-05  Score=46.99  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++|.|.+|+|||+|++.+...
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998754

>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=97.64  E-value=2.4e-05  Score=50.60  Aligned_cols=30  Identities=30%  Similarity=0.565  Sum_probs=26.3

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+....++|+||+++|||+++.++++.++.
T Consensus       101 ~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~  130 (267)
T d1u0ja_         101 FGKRNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             STTCCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCccEEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            355678999999999999999999999864

>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=97.63  E-value=2e-05  Score=47.29  Aligned_cols=21  Identities=33%  Similarity=0.550  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+++.|++|+|||||++.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999999865

>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=97.62  E-value=2.1e-05  Score=46.89  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.++..
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998864

>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=97.62  E-value=1.9e-05  Score=46.92  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.++..
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998764

>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=97.61  E-value=2e-05  Score=46.81  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|+..+...
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998864

>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=97.60  E-value=2.2e-05  Score=46.88  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++|.|.+|+|||+|++.+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6999999999999999988753

>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=97.58  E-value=1.9e-05  Score=47.13  Aligned_cols=22  Identities=41%  Similarity=0.508  Sum_probs=19.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      -.++++|++|+|||||++.+..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3699999999999999998854

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.57  E-value=2.7e-05  Score=46.01  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998753

>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=97.57  E-value=2.3e-05  Score=46.62  Aligned_cols=21  Identities=33%  Similarity=0.482  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+++.|.+|+|||+|++.+..
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999998875

>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=97.57  E-value=2.4e-05  Score=46.94  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..+++.|.+|+|||+|+..+...
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            46899999999999999988764

>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=97.57  E-value=2.9e-05  Score=46.15  Aligned_cols=21  Identities=38%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .++|.|.+|+|||+|++.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999998875

>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=97.56  E-value=3.1e-05  Score=49.15  Aligned_cols=23  Identities=26%  Similarity=0.546  Sum_probs=20.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+.++|.||+.+|||+++|.++-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            56799999999999999998753

>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=97.56  E-value=2.7e-05  Score=50.58  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=18.7

Q ss_pred             CceEEEEcCCCCCHHHH-HHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSL-CKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l-~~~la~~~   40 (105)
                      +.++++.|+|||||||. ++.++..+
T Consensus        24 ~g~~lV~g~aGSGKTt~l~~ri~~ll   49 (318)
T d1pjra1          24 EGPLLIMAGAGSGKTRVLTHRIAYLM   49 (318)
T ss_dssp             SSCEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEecCCccHHHHHHHHHHHHH
Confidence            45699999999999974 44555544

>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=97.56  E-value=2.9e-05  Score=46.86  Aligned_cols=22  Identities=41%  Similarity=0.597  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++++|.+|+|||||++.+...
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998763

>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=97.56  E-value=2.9e-05  Score=46.26  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998854

>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=97.55  E-value=2.6e-05  Score=46.60  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4999999999999999998753

>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=97.54  E-value=3.2e-05  Score=46.26  Aligned_cols=21  Identities=38%  Similarity=0.529  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .++++|++|+|||+|++.+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999988875

>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=97.54  E-value=2.6e-05  Score=46.80  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..|.|+|.+|+|||||++++.+.
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            36999999999999999999865

>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=97.53  E-value=3.1e-05  Score=46.37  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            6999999999999999988753

>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=97.52  E-value=3e-05  Score=46.21  Aligned_cols=22  Identities=41%  Similarity=0.691  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            4889999999999999988754

>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=97.52  E-value=3.6e-05  Score=45.69  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998764

>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=97.52  E-value=3.5e-05  Score=46.23  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+++.|.+|+|||+|++.+..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            599999999999999999875

>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=97.51  E-value=4.8e-06  Score=52.95  Aligned_cols=34  Identities=26%  Similarity=0.509  Sum_probs=21.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .++..+|.|+||+|||||+.+|..........++
T Consensus        96 ~~~~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs  129 (231)
T d1t9ha2          96 QDKTTVFAGQSGVGKSSLLNAISPELGLRTNEIS  129 (231)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC----------
T ss_pred             ccceEEEECCCCccHHHHHHhhccHhHhhhcccc
Confidence            4677889999999999999999877666554444

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.51  E-value=3.3e-05  Score=45.67  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998753

>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=97.49  E-value=4e-05  Score=45.63  Aligned_cols=22  Identities=36%  Similarity=0.478  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.+...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5999999999999999988763

>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=97.49  E-value=1.6e-05  Score=47.59  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      -.++++|++|+|||||++.++.
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4699999999999999998864

>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=97.48  E-value=2.5e-05  Score=44.52  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=19.5

Q ss_pred             ccccCCceEEEEcCCCCCHHHHH
Q psy4924          11 NIISWNRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus        11 ~~~~~~~~ill~Gp~GsGKT~l~   33 (105)
                      .++..++.++|.+|+|||||..+
T Consensus         2 ~~l~~~~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           2 HMLKKGMTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             CTTSTTCEEEECCCTTSSTTTTH
T ss_pred             hHHHcCCcEEEEcCCCCChhHHH
Confidence            35677899999999999999655

>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=97.47  E-value=3.8e-05  Score=46.82  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||||++.+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4899999999999999998753

>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=97.46  E-value=4.5e-05  Score=45.24  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++++|.+|+|||+|++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998754

>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=97.46  E-value=4.4e-05  Score=45.99  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6999999999999999988764

>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=97.46  E-value=4.4e-05  Score=45.65  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.++..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999988753

>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=97.45  E-value=4.8e-05  Score=45.32  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+++.|.+|+|||+|++.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999999875

>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=97.44  E-value=2.3e-05  Score=47.16  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      -.+++.|++|+|||||++.+..
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3699999999999999998753

>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=97.44  E-value=5.1e-05  Score=45.10  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5889999999999999988754

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.44  E-value=3.8e-05  Score=45.78  Aligned_cols=23  Identities=22%  Similarity=0.469  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ..|.|.|.+|+|||||.+++.+.
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999853

>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=97.44  E-value=2.8e-05  Score=46.87  Aligned_cols=21  Identities=38%  Similarity=0.463  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .|.|+|+|++|||||++++.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999864

>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=97.42  E-value=2.3e-05  Score=46.72  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=20.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      ...|.|+|+|++|||||.+++..
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45799999999999999998854

>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=97.41  E-value=5.2e-05  Score=45.85  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4899999999999999998753

>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=97.41  E-value=5.9e-05  Score=44.93  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5889999999999999998864

>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=97.41  E-value=6.1e-05  Score=45.21  Aligned_cols=25  Identities=32%  Similarity=0.461  Sum_probs=21.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .-.|.+.|.+|+|||||+.++.+.-
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCC
Confidence            4468999999999999999998643

>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=97.40  E-value=2.7e-05  Score=46.56  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=9.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|++.|.+|+|||+|++.+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988753

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.40  E-value=1.2e-05  Score=47.32  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=20.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+.|.|.|++|||||++++...-
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999998764

>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=97.39  E-value=0.0012  Score=39.47  Aligned_cols=24  Identities=21%  Similarity=0.167  Sum_probs=20.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+++.|.+|+|||+|++.+...-
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            368999999999999999887653

>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=97.37  E-value=6e-05  Score=45.39  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|.+|+|||+|++.+...
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4799999999999999988764

>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=97.36  E-value=0.00011  Score=42.20  Aligned_cols=30  Identities=27%  Similarity=0.394  Sum_probs=23.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ..+..+|.+|.|||||+++-.+....+...
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~~~~~v   36 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAAQGYKV   36 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHTTTCCE
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHcCCcE
Confidence            356789999999999998876666655443

>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=97.36  E-value=2.5e-05  Score=46.73  Aligned_cols=22  Identities=36%  Similarity=0.477  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.++..
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999987653

>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=97.36  E-value=6.4e-05  Score=45.61  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+++.|++|+|||+|++.+...
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999988754

>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=97.33  E-value=8.5e-05  Score=46.78  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=19.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+.++|.||+.+|||+++|.++-
T Consensus        35 ~~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          35 HELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHH
T ss_pred             CcEEEEECCCccccchhhhhhHH
Confidence            45789999999999999997653

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=97.33  E-value=4.2e-05  Score=45.87  Aligned_cols=21  Identities=43%  Similarity=0.547  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHH
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~   39 (105)
                      |.|+|.|++|||||++++.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999999643

>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=97.32  E-value=9.7e-05  Score=48.23  Aligned_cols=30  Identities=33%  Similarity=0.506  Sum_probs=26.2

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      +..|..++|+|++|+|||+|+..+++....
T Consensus        40 igrGQr~~I~g~~g~GKT~l~~~i~~~~~~   69 (289)
T d1xpua3          40 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAY   69 (289)
T ss_dssp             CBTTCEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             ccCCCeeeEeCCCCCCHHHHHHHHHHHHhh
Confidence            567889999999999999999999986653

>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=97.30  E-value=7.6e-05  Score=45.11  Aligned_cols=20  Identities=30%  Similarity=0.514  Sum_probs=18.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVA   37 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la   37 (105)
                      .+++.|.+|+|||+|++.+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            58999999999999999983

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=97.24  E-value=7.3e-05  Score=47.76  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=21.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .-.|+|+|.+|+||||++..|.++-
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCCC
Confidence            4479999999999999999998653

>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=97.23  E-value=0.00011  Score=45.81  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=21.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -..++|.|.+|+|||||++.+...-
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3579999999999999999986543

>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=97.21  E-value=9.1e-05  Score=46.39  Aligned_cols=24  Identities=38%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...+|.|.-|||||||++.+.+..
T Consensus         4 Pv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           4 AVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CEEEEeeCCCCCHHHHHHHHHhcC
Confidence            457999999999999999988753

>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=97.17  E-value=0.00012  Score=49.32  Aligned_cols=25  Identities=36%  Similarity=0.539  Sum_probs=20.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .++++++|++|||||++++.+..+.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHH
Confidence            4679999999999999987665443

>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=97.14  E-value=0.00025  Score=45.26  Aligned_cols=28  Identities=32%  Similarity=0.411  Sum_probs=24.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .++.+++.|.-|+||||++-.+|..+..
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~   34 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAE   34 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHH
Confidence            4788999999999999999988888753

>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=97.11  E-value=0.00017  Score=43.32  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .+++.|.+|+|||+|++.+...-
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999997664

>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=97.08  E-value=0.00015  Score=46.43  Aligned_cols=23  Identities=30%  Similarity=0.583  Sum_probs=20.0

Q ss_pred             ccccccCCceEEEEcCCCCCHHH
Q psy4924           9 KSNIISWNRVVLLHGPPGTGKTS   31 (105)
Q Consensus         9 ~~~~~~~~~~ill~Gp~GsGKT~   31 (105)
                      .++++.+++.+++.+|+|||||+
T Consensus         2 ~~~~~~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           2 EDDIFRKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             CSSSSSTTCEEEECCCTTSSTTT
T ss_pred             hhHHhhcCCcEEEEECCCCCHHH
Confidence            35667789999999999999996

>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=97.06  E-value=0.00017  Score=47.85  Aligned_cols=26  Identities=27%  Similarity=0.307  Sum_probs=23.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      -.|+|-|+-|+||||+++.+++.++.
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEEECCccCCHHHHHHHHHHHhcc
Confidence            46899999999999999999998764

>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=96.98  E-value=0.00023  Score=42.72  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|.++|.|.+|||||+++|.+.
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5899999999999999999853

>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=96.93  E-value=0.00029  Score=42.05  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++|.|..|+|||+|++.+...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            5899999999999999988644

>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=96.89  E-value=0.0003  Score=46.65  Aligned_cols=26  Identities=27%  Similarity=0.478  Sum_probs=23.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|.|-|+-|+||||+++.+++.++..
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~   32 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAIT   32 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            58999999999999999999988754

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.86  E-value=0.00068  Score=42.89  Aligned_cols=29  Identities=24%  Similarity=0.329  Sum_probs=24.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      +.|.++|.-|+||||++-.+|..+.....
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~   30 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGK   30 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCC
Confidence            56888999999999999999988875543

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=96.84  E-value=0.00045  Score=44.44  Aligned_cols=26  Identities=42%  Similarity=0.566  Sum_probs=22.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      |.+.+.|..|+|||||+.++....+.
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~   28 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGA   28 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCC
Confidence            67899999999999999999776654

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.82  E-value=0.00051  Score=44.42  Aligned_cols=27  Identities=15%  Similarity=0.065  Sum_probs=23.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      -|.+.+.|..|+|||||+.++....+.
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g~   32 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTGR   32 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHTS
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcCc
Confidence            467999999999999999999877664

>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=96.81  E-value=0.00097  Score=40.85  Aligned_cols=29  Identities=28%  Similarity=0.350  Sum_probs=23.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      .+..++..|+|+|||.++-.++.+++.+.
T Consensus        85 ~~~~ll~~~tG~GKT~~a~~~~~~~~~~~  113 (206)
T d2fz4a1          85 DKRGCIVLPTGSGKTHVAMAAINELSTPT  113 (206)
T ss_dssp             TSEEEEEESSSTTHHHHHHHHHHHSCSCE
T ss_pred             CCCcEEEeCCCCCceehHHhHHHHhcCce
Confidence            34567889999999999988888887554

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00066  Score=43.01  Aligned_cols=28  Identities=32%  Similarity=0.560  Sum_probs=22.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.+++.|.-|+||||++-.+|..+...
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~   47 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADM   47 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4567888999999999888887777543

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.73  E-value=0.00058  Score=44.18  Aligned_cols=28  Identities=25%  Similarity=0.313  Sum_probs=24.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..|..+.|+|++|+|||+|+..++...
T Consensus        65 igkGQr~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          65 YAKGGKIGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ccCCCEEEeeCCCCCCHHHHHHHHHHHH
Confidence            4568889999999999999999998764

>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=96.72  E-value=0.00026  Score=46.92  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ..|.|-|+=|+||||+++.+++.+.
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC---
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHhC
Confidence            4589999999999999999998765

>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=96.70  E-value=0.00068  Score=40.89  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=17.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+..++++|+|+|||.++-.++.
T Consensus        23 ~~n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          23 ETNCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             GSCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCeEEEeCCCCcHHHHHHHHHH
Confidence            34588999999999986665554

>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=96.68  E-value=0.00055  Score=41.53  Aligned_cols=30  Identities=20%  Similarity=0.138  Sum_probs=24.4

Q ss_pred             ceEEEEcCC-CCCHHHHHHHHHHHhCCCccc
Q psy4924          17 RVVLLHGPP-GTGKTSLCKAVAQKLSIRLQT   46 (105)
Q Consensus        17 ~~ill~Gp~-GsGKT~l~~~la~~~~~~~~~   46 (105)
                      +.+++.|-. |+||||++-.||..+....+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~r   32 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYR   32 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCe
Confidence            679999995 999999999888888655433

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=96.55  E-value=0.00062  Score=44.85  Aligned_cols=20  Identities=40%  Similarity=0.581  Sum_probs=17.1

Q ss_pred             CCceEEEEcCCCCCHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCK   34 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~   34 (105)
                      .+...+++|.+|||||||..
T Consensus        13 ~~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          13 EGDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             TCCEEEEEECTTSCHHHHTC
T ss_pred             CCCEEEEEccCCCCcccccc
Confidence            36789999999999999654

>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=96.54  E-value=0.00069  Score=45.79  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      +-.|.++|.||+|||||.++|..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45699999999999999999975

>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=96.48  E-value=0.00035  Score=42.57  Aligned_cols=20  Identities=35%  Similarity=0.464  Sum_probs=17.2

Q ss_pred             CCceEEEEcCCCCCHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCK   34 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~   34 (105)
                      .++.+++..|+|||||+.+.
T Consensus        39 ~~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          39 SGKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             TCSCEEEECSSHHHHHHHHH
T ss_pred             cCCCEEEEcCCCCchhHHHH
Confidence            46789999999999998763

>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=96.46  E-value=0.00089  Score=43.96  Aligned_cols=20  Identities=40%  Similarity=0.594  Sum_probs=17.2

Q ss_pred             CCceEEEEcCCCCCHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCK   34 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~   34 (105)
                      .+...+++|.+|||||||..
T Consensus        13 ~~~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          13 KGDVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             TSCEEEEECSTTSSHHHHHC
T ss_pred             CCCEEEEEccCCCCccccee
Confidence            46788999999999999763

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=96.41  E-value=0.0012  Score=40.94  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .|.+.|.+.+|||||+.+|....
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCccHHHHHHHHHhhc
Confidence            38999999999999999997654

>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=96.37  E-value=0.0019  Score=36.75  Aligned_cols=27  Identities=11%  Similarity=0.096  Sum_probs=23.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      |-.+++.|-+|+||+++|+++...+..
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            557999999999999999999877754

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=96.28  E-value=0.0022  Score=40.91  Aligned_cols=28  Identities=21%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .+.|.++|.-|+||||++--+|..+...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~   29 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEM   29 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3567789999999999888777766543

>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=96.28  E-value=0.0009  Score=41.65  Aligned_cols=25  Identities=28%  Similarity=0.314  Sum_probs=19.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|+.+++.+|+|+|||..+-..+..
T Consensus        57 ~g~~~~i~apTGsGKT~~~~~~~~~   81 (237)
T d1gkub1          57 RKESFAATAPTGVGKTSFGLAMSLF   81 (237)
T ss_dssp             TTCCEECCCCBTSCSHHHHHHHHHH
T ss_pred             CCCCEEEEecCCChHHHHHHHHHHH
Confidence            4788999999999999876555443

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=96.24  E-value=0.0014  Score=43.17  Aligned_cols=19  Identities=42%  Similarity=0.635  Sum_probs=16.9

Q ss_pred             CCceEEEEcCCCCCHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~   33 (105)
                      .+...+++|-+|||||||.
T Consensus        13 ~gd~alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          13 QGDVTVFFGLSGTGKTTLS   31 (323)
T ss_dssp             TCCEEEEECCTTSSHHHHH
T ss_pred             CCCEEEEEccCCCCcccce
Confidence            4677899999999999987

>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=96.22  E-value=0.0019  Score=39.15  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHH
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~   39 (105)
                      +++.|+..||||.+|+.++..
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            689999999999999998743

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.06  E-value=0.0024  Score=39.15  Aligned_cols=25  Identities=28%  Similarity=0.175  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      -.+.+.|-+++|||||+.+|-...+
T Consensus         4 ini~iiGhvd~GKSTL~~~Ll~~~g   28 (204)
T d2c78a3           4 VNVGTIGHVDHGKTTLTAALTYVAA   28 (204)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCcHHHHHHHHHHHhh
Confidence            3588999999999999999965544

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.06  E-value=0.0022  Score=41.54  Aligned_cols=27  Identities=30%  Similarity=0.315  Sum_probs=22.7

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      +..|..+.|+|++|+|||+++..++..
T Consensus        65 ig~GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          65 IGRGQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CBTTCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             ccCCCEEEeecCCCCChHHHHHHHHHh
Confidence            556888999999999999998877644

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=95.91  E-value=0.0023  Score=41.24  Aligned_cols=29  Identities=21%  Similarity=0.272  Sum_probs=23.4

Q ss_pred             ccCCceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      +..|..+.|+|++|+|||+++..++....
T Consensus        64 ig~GQr~~Ifg~~g~GKt~l~~~~~~~~~   92 (276)
T d1fx0a3          64 VGRGQRELIIGDRQTGKTAVATDTILNQQ   92 (276)
T ss_dssp             CBTTCBCBEEESSSSSHHHHHHHHHHTCC
T ss_pred             ccCCceEeeccCCCCChHHHHHHHHhhhc
Confidence            55688899999999999999987654443

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=95.81  E-value=0.004  Score=44.75  Aligned_cols=26  Identities=38%  Similarity=0.632  Sum_probs=22.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...|++.|.+|||||+-++.+.+.+.
T Consensus        86 ~QsIiisGeSGsGKTe~~k~il~yL~  111 (684)
T d1lkxa_          86 NQCVIISGESGAGKTEASKKIMQFLT  111 (684)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            55899999999999999998876663

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.81  E-value=0.0051  Score=37.53  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             eEEE-EcCCCCCHHHHHHHHHHHhCCC
Q psy4924          18 VVLL-HGPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        18 ~ill-~Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      .|.+ .|..|+||||++..+|..+...
T Consensus         3 vIav~s~KGGvGKTtia~nlA~~la~~   29 (232)
T d1hyqa_           3 TITVASGKGGTGKTTITANLGVALAQL   29 (232)
T ss_dssp             EEEEEESSSCSCHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHhC
Confidence            4444 4889999999999988888644

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.79  E-value=0.0046  Score=37.77  Aligned_cols=28  Identities=32%  Similarity=0.527  Sum_probs=22.0

Q ss_pred             CceEEEE-cCCCCCHHHHHHHHHHHhCCC
Q psy4924          16 NRVVLLH-GPPGTGKTSLCKAVAQKLSIR   43 (105)
Q Consensus        16 ~~~ill~-Gp~GsGKT~l~~~la~~~~~~   43 (105)
                      ++.|.++ +-.|+||||++..+|..+...
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~~   30 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGDR   30 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHhC
Confidence            5667677 778999999999888877643

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=95.75  E-value=0.0044  Score=44.77  Aligned_cols=25  Identities=44%  Similarity=0.605  Sum_probs=21.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...|++.|.+|||||.-++.+.+.+
T Consensus       125 nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         125 NQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CceEEEeCCCCCCHHHHHHHHHHHH
Confidence            5689999999999999888776655

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=95.64  E-value=0.0051  Score=44.37  Aligned_cols=25  Identities=40%  Similarity=0.543  Sum_probs=21.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...|++.|.+|||||+-++.+.+.+
T Consensus        91 ~Q~IiisGeSGaGKTe~~k~il~yL  115 (710)
T d1br2a2          91 DQSILCTGESGAGKTENTKKVIQYL  115 (710)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5679999999999999888776665

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=95.57  E-value=0.0052  Score=44.85  Aligned_cols=25  Identities=40%  Similarity=0.577  Sum_probs=20.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      ...|++.|.+|||||.-++.+...+
T Consensus       123 ~QsIiisGeSGaGKTe~~K~il~yL  147 (794)
T d2mysa2         123 NQSILITGESGAGKTVNTKRVIQYF  147 (794)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            5579999999999998777666555

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=95.48  E-value=0.0054  Score=44.75  Aligned_cols=26  Identities=38%  Similarity=0.525  Sum_probs=21.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      ...|++.|.+|||||.-++.+...+.
T Consensus       121 nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2         121 NQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            45899999999999998887766654

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=95.45  E-value=0.0065  Score=43.90  Aligned_cols=25  Identities=28%  Similarity=0.494  Sum_probs=21.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..|++.|.+|||||.-.+.+.+.+
T Consensus        94 ~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          94 NQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5689999999999999888887765

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=95.43  E-value=0.0093  Score=37.40  Aligned_cols=25  Identities=28%  Similarity=0.209  Sum_probs=19.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +-..+|+|..|||||-++-..+...
T Consensus        76 ~~~~LL~GdvGsGKT~V~~~a~~~~  100 (233)
T d2eyqa3          76 AMDRLVCGDVGFGKTEVAMRAAFLA  100 (233)
T ss_dssp             CCEEEEECCCCTTTHHHHHHHHHHH
T ss_pred             ccCeEEEcCCCCCcHHHHHHHHHHH
Confidence            3468999999999999877666544

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=95.37  E-value=0.012  Score=37.39  Aligned_cols=48  Identities=21%  Similarity=0.258  Sum_probs=29.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce-----eeecccCCEEEEEe
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA-----IFFKKYPNVLIFTT   63 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~-----~~~~~~~~~~~~~~   63 (105)
                      +-.++++|-|.+|||||+.++.+.-.........     +.+...+++.++.|
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~~i~~~~~~~l~DT  164 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWVKVGKELELLDT  164 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCC------------CCEEETTTEEEEEC
T ss_pred             ceEEEEEecCccchhhhhhhhhccceEEECCcccccccceEEECCCCeEEecC
Confidence            4569999999999999999998765443333222     23333455555554

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.31  E-value=0.0056  Score=40.49  Aligned_cols=28  Identities=21%  Similarity=0.259  Sum_probs=24.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .=|.+.+.|..++|||||+.++....+.
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~   43 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGI   43 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBC
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCC
Confidence            3467999999999999999999876664

>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=94.94  E-value=0.008  Score=39.17  Aligned_cols=20  Identities=25%  Similarity=0.469  Sum_probs=17.0

Q ss_pred             CCceEEEEcCCCCCHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCK   34 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~   34 (105)
                      ..-.++-||+.|||||+.+.
T Consensus        75 ~n~~i~aYGqtgSGKTyT~~   94 (323)
T d1bg2a_          75 YNGTIFAYGQTSSGKTHTME   94 (323)
T ss_dssp             CCEEEEEECSTTSSHHHHHT
T ss_pred             CCcceeeecccCCCCceecc
Confidence            35579999999999999874

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.90  E-value=0.0055  Score=39.36  Aligned_cols=25  Identities=36%  Similarity=0.296  Sum_probs=20.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -..|-+.||.+||||+|+..+....
T Consensus        32 v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          32 MVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHcCCC
Confidence            3468899999999999999987543

>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=94.89  E-value=0.008  Score=38.32  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++++|.-++|||||+.++.+.
T Consensus        28 ~ivvvG~~SsGKSsliNaLlg~   49 (299)
T d2akab1          28 QIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             EEEEEEBTTSCHHHHHHHHHTS
T ss_pred             eEEEEcCCCCCHHHHHHHHhCC
Confidence            5889999999999999999853

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=94.87  E-value=0.0088  Score=38.34  Aligned_cols=23  Identities=17%  Similarity=0.400  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      .++++|..++|||||+.+|.+.-
T Consensus        26 ~ivVvG~~ssGKSSliNaLlG~~   48 (306)
T d1jwyb_          26 QIVVVGSQSSGKSSVLENIVGRD   48 (306)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTSC
T ss_pred             eEEEEeCCCCCHHHHHHHHhCCC
Confidence            58899999999999999998533

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=94.83  E-value=0.013  Score=37.58  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+-|+|.|.+|||||-.++...
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999999854

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=94.81  E-value=0.0083  Score=38.71  Aligned_cols=21  Identities=24%  Similarity=0.420  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHHHH
Q psy4924          19 VLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        19 ill~Gp~GsGKT~l~~~la~~   39 (105)
                      |-|+|-|.+|||||..++.+.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            779999999999999999653

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=94.72  E-value=0.017  Score=35.70  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=21.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+++.|-..+|||||+.+|....+.
T Consensus        11 ~i~viGHVd~GKSTL~~~Ll~~~g~   35 (222)
T d1zunb3          11 RFLTCGNVDDGKSTLIGRLLHDSKM   35 (222)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            4789999999999999999776664

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.71  E-value=0.014  Score=37.23  Aligned_cols=74  Identities=15%  Similarity=0.104  Sum_probs=40.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccceeeecccCCEEEEEeeCCC-CCCCHHhhccc-----ceEEEeCCCCH
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQAIFFKKYPNVLIFTTSNLT-GAIDLAFLDRA-----DIKQYIGFPSA   89 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~-~~~d~~~~~r~-----~~~~~~~~~~~   89 (105)
                      +-.-+|.|..|||||-.+-..+...           +..+.++.+++.|... ...-..+..+|     ...++.+....
T Consensus       104 ~m~rLL~GdvGSGKT~Va~~a~~~~-----------~~~g~q~~~m~Pt~~La~Qh~~~~~~~f~~~~~~v~~l~~~~~~  172 (264)
T d1gm5a3         104 PMNRLLQGDVGSGKTVVAQLAILDN-----------YEAGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTP  172 (264)
T ss_dssp             CCCCEEECCSSSSHHHHHHHHHHHH-----------HHHTSCEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCH
T ss_pred             cceeeeeccccccccHHHHHHHHHH-----------HhcccceeEEeehHhhhHHHHHHHHHhhhhccccceeeccccch
Confidence            3357999999999999877666433           2233445544433211 11111122333     23344455566


Q ss_pred             HHHHHHHHHHH
Q psy4924          90 AAIFNIFSSCV  100 (105)
Q Consensus        90 ~~~~~i~~~~~  100 (105)
                      .++..+|....
T Consensus       173 ~~r~~~~~~~~  183 (264)
T d1gm5a3         173 SEKEKIKSGLR  183 (264)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            67777776653

>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=94.62  E-value=0.0095  Score=38.93  Aligned_cols=19  Identities=26%  Similarity=0.245  Sum_probs=16.0

Q ss_pred             CceEEEEcCCCCCHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCK   34 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~   34 (105)
                      .-.++-||..|||||+.+.
T Consensus        85 n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          85 VCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             EEEEEEECCTTSSHHHHHH
T ss_pred             CeEEEeeeccccccceeee
Confidence            3468999999999999863

>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=94.60  E-value=0.0093  Score=39.34  Aligned_cols=18  Identities=33%  Similarity=0.477  Sum_probs=15.5

Q ss_pred             CceEEEEcCCCCCHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~   33 (105)
                      .-.++-||++|||||+.+
T Consensus        80 n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          80 NGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             CEEEEEECSTTSSHHHHH
T ss_pred             ceeEEecccCCCCcceee
Confidence            446999999999999875

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), 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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.48  E-value=0.012  Score=39.30  Aligned_cols=28  Identities=25%  Similarity=0.268  Sum_probs=20.1

Q ss_pred             ccCCceEEEEcCCCCCHHHHH-HHHHHHh
Q psy4924          13 ISWNRVVLLHGPPGTGKTSLC-KAVAQKL   40 (105)
Q Consensus        13 ~~~~~~ill~Gp~GsGKT~l~-~~la~~~   40 (105)
                      .+....+++.+.+|||||+.+ ..++..+
T Consensus        13 ~p~~g~~lv~A~AGsGKT~~l~~r~~~ll   41 (485)
T d1w36b1          13 LPLQGERLIEASAGTGKTFTIAALYLRLL   41 (485)
T ss_dssp             CCCSSCEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEcCchHHHHHHHHHHHHHH
Confidence            344567899999999999854 4455544

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=94.44  E-value=0.015  Score=34.82  Aligned_cols=21  Identities=33%  Similarity=0.400  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~   38 (105)
                      .+.+.|-..+|||||+.+|..
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            578999999999999999964

>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=94.39  E-value=0.011  Score=39.19  Aligned_cols=18  Identities=33%  Similarity=0.468  Sum_probs=15.6

Q ss_pred             CceEEEEcCCCCCHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~   33 (105)
                      .-.++-||++|||||+.+
T Consensus        75 n~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          75 NVCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             EEEEEEECSTTSSHHHHH
T ss_pred             ceeeeccccCCCCccccc
Confidence            446899999999999985

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=94.38  E-value=0.02  Score=35.21  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLS   41 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~   41 (105)
                      .+.+.|-.++|||||+..|....+
T Consensus         5 Ni~viGHVd~GKTTL~~~Ll~~~g   28 (224)
T d1jnya3           5 NLIVIGHVDHGKSTLVGRLLMDRG   28 (224)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHB
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcC
Confidence            588999999999999998866555

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=94.33  E-value=0.018  Score=34.89  Aligned_cols=24  Identities=33%  Similarity=0.296  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      -.+.+.|-..+|||||+.+|...+
T Consensus         4 ini~iiGHvd~GKSTL~~~l~~~~   27 (196)
T d1d2ea3           4 VNVGTIGHVDHGKTTLTAAITKIL   27 (196)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHH
Confidence            468999999999999999887643

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=94.27  E-value=0.019  Score=36.40  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .+=|+|-|.+|||||-.++.+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5779999999999999999854

>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {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: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.24  E-value=0.012  Score=38.99  Aligned_cols=18  Identities=33%  Similarity=0.480  Sum_probs=15.6

Q ss_pred             CceEEEEcCCCCCHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~   33 (105)
                      ...++-||+.|||||+.+
T Consensus       125 n~ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_         125 NICIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             EEEEEEECSTTSSHHHHH
T ss_pred             ceeEEeeccCCCccceEe
Confidence            447999999999999875

>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]}

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 motor Ncd (non-claret disjunctional)
species: Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]

Probab=94.17  E-value=0.018  Score=37.72  Aligned_cols=20  Identities=30%  Similarity=0.458  Sum_probs=16.3

Q ss_pred             CCceEEEEcCCCCCHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCK   34 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~   34 (105)
                      ..-.++-||..|||||+.+-
T Consensus        82 ~n~~i~aYGqtgSGKT~T~~  101 (342)
T d1f9va_          82 YNVCIFAYGQTGSGKTFTML  101 (342)
T ss_dssp             CCEEEEEECCTTSSHHHHHH
T ss_pred             cccceeeeeccCCccccccc
Confidence            34468889999999999763

>d1x88a1 c.37.1.9 (A:18-362) Kinesin {Human (Homo sapiens), mitotic kinesin eg5 [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), mitotic kinesin eg5 [TaxId: 9606]

Probab=94.14  E-value=0.012  Score=38.55  Aligned_cols=18  Identities=39%  Similarity=0.486  Sum_probs=15.5

Q ss_pred             CceEEEEcCCCCCHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~   33 (105)
                      .-.++-||+.|||||+.+
T Consensus        81 n~~i~aYGqtgSGKTyTm   98 (345)
T d1x88a1          81 NCTIFAYGQTGTGKTFTM   98 (345)
T ss_dssp             EEEEEEEECTTSSHHHHH
T ss_pred             CceEEeeeeccccceEEe
Confidence            446899999999999876

>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090]}

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: Mouse (Mus musculus), kif1a [TaxId: 10090]

Probab=94.07  E-value=0.014  Score=38.36  Aligned_cols=18  Identities=28%  Similarity=0.453  Sum_probs=16.1

Q ss_pred             CceEEEEcCCCCCHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLC   33 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~   33 (105)
                      .-.++-||..|||||+.+
T Consensus        87 n~ti~aYGqTgSGKT~Tm  104 (349)
T d2zfia1          87 NVCIFAYGQTGAGKSYTM  104 (349)
T ss_dssp             CEEEEEECSTTSSHHHHH
T ss_pred             CceeeeeccCCCCCceee
Confidence            457999999999999987

>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=94.01  E-value=0.014  Score=35.49  Aligned_cols=17  Identities=35%  Similarity=0.431  Sum_probs=15.4

Q ss_pred             CCceEEEEcCCCCCHHH
Q psy4924          15 WNRVVLLHGPPGTGKTS   31 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~   31 (105)
                      .|+.+++..|+|||||.
T Consensus        37 ~g~dvl~~A~TGsGKTl   53 (207)
T d1t6na_          37 LGMDVLCQAKSGMGKTA   53 (207)
T ss_dssp             TTCCEEEECCTTSCHHH
T ss_pred             cCCCeEEEecccccccc
Confidence            47889999999999987

>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=93.99  E-value=0.0067  Score=36.72  Aligned_cols=17  Identities=29%  Similarity=0.392  Sum_probs=15.4

Q ss_pred             CCceEEEEcCCCCCHHH
Q psy4924          15 WNRVVLLHGPPGTGKTS   31 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~   31 (105)
                      .|+.+++..|+|||||.
T Consensus        37 ~G~dvii~a~TGSGKTl   53 (209)
T d1q0ua_          37 RGESMVGQSQTGTGKTH   53 (209)
T ss_dssp             HTCCEEEECCSSHHHHH
T ss_pred             CCCCeEeecccccccce
Confidence            37889999999999997

>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=93.97  E-value=0.0086  Score=36.10  Aligned_cols=25  Identities=28%  Similarity=0.231  Sum_probs=19.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .++.+++.-|+|||||.........
T Consensus        39 ~g~~vlv~apTGsGKT~~~~~~~~~   63 (206)
T d1oywa2          39 SGRDCLVVMPTGGGKSLCYQIPALL   63 (206)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEcCCCCCCcchhhhhhhh
Confidence            3678999999999999876554443

>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090]}

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: Mouse (Mus musculus), kif2c [TaxId: 10090]

Probab=93.93  E-value=0.014  Score=38.66  Aligned_cols=19  Identities=26%  Similarity=0.391  Sum_probs=15.8

Q ss_pred             CceEEEEcCCCCCHHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTSLCK   34 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~   34 (105)
                      .-.++-||.+|||||+.+.
T Consensus       114 n~tifaYGqTGSGKTyTm~  132 (362)
T d1v8ka_         114 KATCFAYGQTGSGKTHTMG  132 (362)
T ss_dssp             EEEEEEEESTTSSHHHHHH
T ss_pred             CceEEeeccCCCCCceeee
Confidence            4468889999999998763

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.82  E-value=0.032  Score=34.79  Aligned_cols=25  Identities=20%  Similarity=0.187  Sum_probs=22.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.+.|-.++|||||+..|....+.
T Consensus         8 Ni~iiGHvD~GKsTl~~~ll~~~g~   32 (239)
T d1f60a3           8 NVVVIGHVDSGKSTTTGHLIYKCGG   32 (239)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHcCC
Confidence            6899999999999999999877664

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=93.78  E-value=0.028  Score=33.87  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHH
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQ   38 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~   38 (105)
                      -.+.+.|...+|||||+.+|..
T Consensus         9 ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           9 VNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHS
T ss_pred             eEEEEEEccCCcHHHHHHHHHh
Confidence            3699999999999999999964

>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=93.52  E-value=0.019  Score=35.08  Aligned_cols=18  Identities=39%  Similarity=0.416  Sum_probs=16.0

Q ss_pred             CCceEEEEcCCCCCHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSL   32 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l   32 (105)
                      .|+.+++..|+|||||..
T Consensus        46 ~g~dvl~~a~TGsGKT~a   63 (212)
T d1qdea_          46 EGHDVLAQAQSGTGKTGT   63 (212)
T ss_dssp             TTCCEEEECCTTSSHHHH
T ss_pred             cCCCEEeecccccchhhh
Confidence            478899999999999983

>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=93.48  E-value=0.019  Score=34.72  Aligned_cols=17  Identities=41%  Similarity=0.524  Sum_probs=15.2

Q ss_pred             CCceEEEEcCCCCCHHH
Q psy4924          15 WNRVVLLHGPPGTGKTS   31 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~   31 (105)
                      .|+.+++..|+|||||.
T Consensus        37 ~g~dvi~~a~tGsGKTl   53 (206)
T d1s2ma1          37 TGRDILARAKNGTGKTA   53 (206)
T ss_dssp             HTCCEEEECCTTSCHHH
T ss_pred             cCCCEEEecCCcchhhh
Confidence            37889999999999995

>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=93.42  E-value=0.019  Score=35.24  Aligned_cols=18  Identities=33%  Similarity=0.377  Sum_probs=15.9

Q ss_pred             CCceEEEEcCCCCCHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSL   32 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l   32 (105)
                      .++.+++..|+|||||..
T Consensus        48 ~g~dvl~~a~TGsGKTla   65 (218)
T d2g9na1          48 KGYDVIAQAQSGTGKTAT   65 (218)
T ss_dssp             HTCCEEEECCTTSSHHHH
T ss_pred             cCCCEEEEcccchhhhhh
Confidence            378899999999999983

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=93.25  E-value=0.022  Score=38.50  Aligned_cols=34  Identities=24%  Similarity=0.177  Sum_probs=28.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCccccce
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQA   49 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~~   49 (105)
                      .+..+|.|-+|||||.++..+++..+.|...+..
T Consensus        31 ~~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~   64 (413)
T d1t5la1          31 VKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAH   64 (413)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHTCCEEEECS
T ss_pred             CCcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeC
Confidence            3568999999999999999999999988765543

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=93.17  E-value=0.047  Score=36.75  Aligned_cols=30  Identities=37%  Similarity=0.407  Sum_probs=25.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCcc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQ   45 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~~   45 (105)
                      .+..+|.|.+||+|+.++.+++...+.|..
T Consensus        28 ~~~~~L~GlsgS~ka~~~A~l~~~~~rp~L   57 (408)
T d1c4oa1          28 ERFVTLLGATGTGKTVTMAKVIEALGRPAL   57 (408)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHTCCEE
T ss_pred             CCcEEEecCCCCHHHHHHHHHHHHhCCCEE
Confidence            346899999999999999999999986654

>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=93.14  E-value=0.021  Score=34.64  Aligned_cols=17  Identities=35%  Similarity=0.495  Sum_probs=15.5

Q ss_pred             CCceEEEEcCCCCCHHH
Q psy4924          15 WNRVVLLHGPPGTGKTS   31 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~   31 (105)
                      .|+.+++..|+|||||.
T Consensus        39 ~g~dvl~~a~TGsGKTl   55 (206)
T d1veca_          39 SGRDILARAKNGTGKSG   55 (206)
T ss_dssp             TTCCEEEECCSSSTTHH
T ss_pred             cCCCEEeeccCcccccc
Confidence            47889999999999996

>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=93.04  E-value=0.025  Score=35.16  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=18.6

Q ss_pred             CCceEEEEcCCCCCHHH--HHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTS--LCKAVAQ   38 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~--l~~~la~   38 (105)
                      .|+.+++..|+|||||.  ++-.+.+
T Consensus        57 ~g~dvvi~a~TGsGKTlayllp~l~~   82 (238)
T d1wrba1          57 EHRDIMACAQTGSGKTAAFLIPIINH   82 (238)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCCcceeeHHHHHHH
Confidence            37889999999999998  4444443

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=92.65  E-value=0.038  Score=34.54  Aligned_cols=25  Identities=16%  Similarity=0.256  Sum_probs=21.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSI   42 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~   42 (105)
                      .+.+.|-..+|||||+..|....+.
T Consensus        26 Ni~iiGHVD~GKSTL~~~Ll~~~g~   50 (245)
T d1r5ba3          26 NIVFIGHVDAGKSTLGGNILFLTGM   50 (245)
T ss_dssp             EEEEEECGGGTHHHHHHHHHHHTTS
T ss_pred             EEEEEeeCCCCHHHHHHHHHHHcCC
Confidence            4889999999999999999665553

>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=92.64  E-value=0.031  Score=34.45  Aligned_cols=17  Identities=41%  Similarity=0.550  Sum_probs=15.5

Q ss_pred             CCceEEEEcCCCCCHHH
Q psy4924          15 WNRVVLLHGPPGTGKTS   31 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~   31 (105)
                      .|+.+++..|+|||||.
T Consensus        53 ~g~dvi~~a~TGSGKTl   69 (222)
T d2j0sa1          53 KGRDVIAQSQSGTGKTA   69 (222)
T ss_dssp             TTCCEEEECCTTSSHHH
T ss_pred             CCCCeEEEcCcchhhhh
Confidence            37889999999999997

>d1khba1 c.91.1.1 (A:260-622) Cytosolic phosphoenolpyruvate carboxykinase (GTP-hydrolyzing) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Cytosolic phosphoenolpyruvate carboxykinase (GTP-hydrolyzing)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.28  E-value=0.045  Score=36.23  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=19.3

Q ss_pred             cCCceEEEEc--CCCCCHHHHHHHH
Q psy4924          14 SWNRVVLLHG--PPGTGKTSLCKAV   36 (105)
Q Consensus        14 ~~~~~ill~G--p~GsGKT~l~~~l   36 (105)
                      +.++..++.|  ||+||||.||...
T Consensus        14 P~g~~~yvaaAFPSaCGKTnlAMl~   38 (363)
T d1khba1          14 PEGEKKYLAAAFPSACGKTNLAMMN   38 (363)
T ss_dssp             TTSCEEEEEEECCTTSCHHHHHTCC
T ss_pred             CCCCEEEEEEecCccccchhHHHhC
Confidence            4577889998  9999999999853

>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=92.07  E-value=0.14  Score=30.84  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=19.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..+++..|+|+|||...-..+.+.
T Consensus        42 ~~d~iv~a~TGsGKT~~~~l~~~~~   66 (208)
T d1hv8a1          42 EYNIVAQARTGSGKTASFAIPLIEL   66 (208)
T ss_dssp             CSEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             CCCeeeechhcccccceeecccccc
Confidence            3479999999999999766555443

>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=91.68  E-value=0.075  Score=33.75  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=18.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          17 RVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        17 ~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      +..++.-|.|+|||.++-.++..+
T Consensus       129 ~~~il~~pTGsGKT~i~~~i~~~~  152 (282)
T d1rifa_         129 RRRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCceeEEEcccCccHHHHHHHHHh
Confidence            446777899999998887777543

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.39  E-value=0.14  Score=28.98  Aligned_cols=25  Identities=16%  Similarity=0.336  Sum_probs=18.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKL   40 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~   40 (105)
                      |..-+++||-.|||||-+-..+...
T Consensus         2 G~L~li~GpMfsGKTt~Li~~~~~~   26 (133)
T d1xbta1           2 GQIQVILGPMFSGKSTELMRRVRRF   26 (133)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEEEEecccCHHHHHHHHHHHHH
Confidence            4556889999999999555544443

>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=90.78  E-value=0.13  Score=30.85  Aligned_cols=28  Identities=14%  Similarity=0.381  Sum_probs=22.6

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ...++++|.||   ||+++.+.|.......+
T Consensus         7 ~~~Rpivi~Gp---~K~ti~~~L~~~~p~~f   34 (199)
T d1kjwa2           7 HYARPIIILGP---TKDRANDDLLSEFPDKF   34 (199)
T ss_dssp             CSCCCEEEEST---THHHHHHHHHHHCTTTE
T ss_pred             CCCCCEEEECc---CHHHHHHHHHHhCccce
Confidence            34788999998   59999999999865443

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=90.34  E-value=0.19  Score=28.69  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=18.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          15 WNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        15 ~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      .|..=+++||-.|||||-+-..+..
T Consensus         6 ~G~l~lI~GpMfSGKTteLi~~~~~   30 (141)
T d1xx6a1           6 HGWVEVIVGPMYSGKSEELIRRIRR   30 (141)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceeEEEEEeccccHHHHHHHHHHHH
Confidence            4666789999999999955444433

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=89.40  E-value=0.23  Score=28.19  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=17.0

Q ss_pred             CceEEEEcCCCCCHHH-HHHHHH
Q psy4924          16 NRVVLLHGPPGTGKTS-LCKAVA   37 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~-l~~~la   37 (105)
                      |..-+++||-.||||| |++.+-
T Consensus         2 G~L~~i~GpMfsGKTteLi~~~~   24 (139)
T d2b8ta1           2 GWIEFITGPMFAGKTAELIRRLH   24 (139)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEEccccCHHHHHHHHHHH
Confidence            4456889999999999 666553

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=88.56  E-value=0.38  Score=25.49  Aligned_cols=26  Identities=12%  Similarity=0.257  Sum_probs=22.0

Q ss_pred             cCCceEEEEcCCCCCHHHHHHHHHHH
Q psy4924          14 SWNRVVLLHGPPGTGKTSLCKAVAQK   39 (105)
Q Consensus        14 ~~~~~ill~Gp~GsGKT~l~~~la~~   39 (105)
                      ...+.+++.|=-|+|-+.||+.+...
T Consensus         6 ~~~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           6 RRVQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             TTCCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             hhCCEEEEEEECHHHHHHHHHHHHhC
Confidence            34678999999999999999887753

>d2axpa1 c.37.1.1 (A:2-165) Hypothetical protein YorR {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: Nucleotide and nucleoside kinases
domain: Hypothetical protein YorR
species: Bacillus subtilis [TaxId: 1423]

Probab=82.76  E-value=0.91  Score=24.98  Aligned_cols=31  Identities=16%  Similarity=0.359  Sum_probs=27.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCccccc
Q psy4924          18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQTPQ   48 (105)
Q Consensus        18 ~ill~Gp~GsGKT~l~~~la~~~~~~~~~~~   48 (105)
                      .+++-||-.|=|||.+..+++++..|.+.-+
T Consensus         2 liilegpdccfkstvaaklskelkypiikgs   32 (164)
T d2axpa1           2 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   32 (164)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHTCCEEECC
T ss_pred             eEEEeCCchhhHHHHHHHHHhhhcCceecCc
Confidence            4789999999999999999999998876544

>d1gg4a4 c.72.2.1 (A:99-312) UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF
species: Escherichia coli [TaxId: 562]

Probab=81.11  E-value=1.1  Score=26.13  Aligned_cols=27  Identities=44%  Similarity=0.407  Sum_probs=20.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHHHHhCCCc
Q psy4924          16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRL   44 (105)
Q Consensus        16 ~~~ill~Gp~GsGKT~l~~~la~~~~~~~   44 (105)
                      ++.|.+.|-+  ||||....++..+....
T Consensus         2 ~kvI~VTGTn--GKTTt~~mi~~iL~~~g   28 (214)
T d1gg4a4           2 ARVVALTGSS--GKTSVKEMTAAILSQCG   28 (214)
T ss_dssp             CEEEEEECSS--CHHHHHHHHHHHHTTTS
T ss_pred             CCEEEEeCCC--cHHHHHHHHHHHHHhCC
Confidence            4566677765  69999999999887654