Psyllid ID: psy8938

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70-----
Protein Sequence
MEAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK
Secondary Structure (PSIPRED)
cHHHHHHHHcccccccHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHcccccccHHHHHHHHHHHccccccccccHHHHccHHHHHHHHHccEEEEcccHHHHcccccccccc
Coil and Loop (DISEMBL)
MEAERKLKTLKINMDSFTDHEMSIAShlvdpadinvswehiagldgtiKDLKQTVIFPIKHKEMFakskltkapk
Flexible Loop (DISEMBL)
MEAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIkhkemfakskltkapk
Low Complexity Region (SEG)
MEAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK
Disordered region (IsUnstruct)
*******************HEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKE************
Disordered Region (DISOPRED)
****************FTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP*
Disordered Region (DISEMBL)
MEAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFA*********
Disordered Region (DISPRO)
MEAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLT****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK
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	75	2.2.26 [Sep-21-2011]
F6QV99	361	ATPase family AAA domain-	yes	N/A	0.986	0.204	0.486	1e-14
Q505J9	361	ATPase family AAA domain-	yes	N/A	0.986	0.204	0.486	2e-14
Q9D5T0	361	ATPase family AAA domain-	yes	N/A	0.986	0.204	0.486	2e-14
Q8NBU5	361	ATPase family AAA domain-	yes	N/A	0.986	0.204	0.486	2e-14
B4F6J6	360	ATPase family AAA domain-	yes	N/A	0.986	0.205	0.459	7e-14
Q503W7	362	ATPase family AAA domain-	yes	N/A	0.986	0.204	0.418	8e-13
Q7ZZ25	380	ATPase family AAA domain-	no	N/A	0.973	0.192	0.424	2e-11
P28737	362	Protein MSP1 OS=Saccharom	yes	N/A	0.733	0.151	0.4	5e-07
Q9P7J5	355	Uncharacterized AAA domai	yes	N/A	0.786	0.166	0.390	3e-06
Q07590	780	Protein SAV OS=Sulfolobus	yes	N/A	0.866	0.083	0.323	0.0006

>sp|F6QV99|ATAD1_BOVIN ATPase family AAA domain-containing protein 1 OS=Bos taurus GN=ATAD1 PE=2 SV=2

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct: 54  QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query: 62  KEMFAKSKLTKAPK 75
           K +F  S+L + PK
Sbjct: 114 KHLFENSRLLQPPK 127

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.
Bos taurus (taxid: 9913)
EC: 3EC: .EC: 6EC: .EC: 1EC: .EC: 3

>sp|Q505J9|ATAD1_RAT ATPase family AAA domain-containing protein 1 OS=Rattus norvegicus GN=Atad1 PE=1 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct: 54  QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query: 62  KEMFAKSKLTKAPK 75
           K +F  S+L + PK
Sbjct: 114 KHLFENSRLLQPPK 127

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|Q9D5T0|ATAD1_MOUSE ATPase family AAA domain-containing protein 1 OS=Mus musculus GN=Atad1 PE=1 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct: 54  QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query: 62  KEMFAKSKLTKAPK 75
           K +F  S+L + PK
Sbjct: 114 KHLFENSRLLQPPK 127

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|Q8NBU5|ATAD1_HUMAN ATPase family AAA domain-containing protein 1 OS=Homo sapiens GN=ATAD1 PE=1 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct: 54  QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query: 62  KEMFAKSKLTKAPK 75
           K +F  S+L + PK
Sbjct: 114 KHLFENSRLLQPPK 127

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|B4F6J6|ATAD1_XENTR ATPase family AAA domain-containing protein 1 OS=Xenopus tropicalis GN=atad1 PE=2 SV=2

 Score = 75.9 bits (185), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 34/74 (45%), Positives = 50/74 (67%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           +AE+ ++ + +     T++EMSIA+HLVDP  + V+W  IAGLD  I DLK TVI PI+ 
Sbjct: 54  QAEKLMRQIGVKNVKLTEYEMSIAAHLVDPLSMLVTWSDIAGLDDVITDLKDTVILPIRK 113

Query: 62  KEMFAKSKLTKAPK 75
           + +F  S+L + PK
Sbjct: 114 RYLFENSRLLQPPK 127

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR). Required for NMDA-stimulated AMPAR internalization in an ATPase-dependent manner.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|Q503W7|ATD1B_DANRE ATPase family AAA domain-containing protein 1-B OS=Danio rerio GN=atad1b PE=2 SV=2

 Score = 72.4 bits (176), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 31/74 (41%), Positives = 50/74 (67%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           +AE+ ++ + +     +++EMSIA+HLVDP  + ++W  IAGLD  I +LK TVI PI+ 
Sbjct: 58  QAEKLMRQIGVQNVKLSEYEMSIAAHLVDPLTMQITWHDIAGLDEVITELKDTVILPIQK 117

Query: 62  KEMFAKSKLTKAPK 75
           + +F  S+L + PK
Sbjct: 118 RHLFEGSRLLQPPK 131

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR). Required for NMDA-stimulated AMPAR internalization in an ATPase-dependent manner.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|Q7ZZ25|ATD1A_DANRE ATPase family AAA domain-containing protein 1-A OS=Danio rerio GN=atad1a PE=2 SV=2

 Score = 67.4 bits (163), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 31/73 (42%), Positives = 49/73 (67%)

Query: 3   AERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHK 62
           AE+ +K + +   S T++EM+IA+ LVDP  I V+W  +AGLD  I +++ TVI P + +
Sbjct: 58  AEQLMKQIGVEGVSLTEYEMNIATLLVDPRSIKVTWRDVAGLDEIISEMQDTVILPFQKR 117

Query: 63  EMFAKSKLTKAPK 75
            +F+ SKL + PK
Sbjct: 118 HLFSGSKLLQPPK 130

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR). Required for NMDA-stimulated AMPAR internalization in an ATPase-dependent manner.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|P28737|MSP1_YEAST Protein MSP1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MSP1 PE=1 SV=2

 Score = 53.1 bits (126), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 38/55 (69%)

Query: 20  HEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP 74
           +E +I S +V P +IN++++ I GLD  I DL ++VI+P+   E+++ S L +AP
Sbjct: 72  YERTILSSIVTPDEINITFQDIGGLDPLISDLHESVIYPLMMPEVYSNSPLLQAP 126

Involved in intramitochondrial sorting of proteins.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q9P7J5|YJNA_SCHPO Uncharacterized AAA domain-containing protein C24B10.10c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC24B10.10c PE=3 SV=1

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/64 (39%), Positives = 44/64 (68%), Gaps = 5/64 (7%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           E  ++L+TL++N     ++E  +AS LV P++I+VS++ I G+D  +  L Q V+FP+K+
Sbjct: 57  EQVKELETLELN-----EYEQIVASQLVLPSEIDVSFDDIGGMDEHVNQLLQDVLFPLKY 111

Query: 62  KEMF 65
            E+F
Sbjct: 112 PEVF 115

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q07590|SAV_SULAC Protein SAV OS=Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770) GN=sav PE=3 SV=2

 Score = 42.7 bits (99), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 3/68 (4%)

Query: 7   LKTLKINMDSFTDHEMSIASHLVDPADINV---SWEHIAGLDGTIKDLKQTVIFPIKHKE 63
           +K LK++M+ F +   SI   L+    + V   +W  I GLD   + L++ V +P++  E
Sbjct: 452 IKELKVSMNDFLNALKSIQPSLLREVYVEVPKVNWNDIGGLDNVKQQLREAVEWPLRFPE 511

Query: 64  MFAKSKLT 71
           +F KS +T
Sbjct: 512 LFTKSGVT 519

Not yet known, shows ATPase activity.

Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770) (taxid: 330779)

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	75
307177290	378	ATPase family AAA domain-containing prot	0.96	0.190	0.554	1e-16
194857213	384	GG25131 [Drosophila erecta] gi|190660777	0.866	0.169	0.569	1e-16
340729039	375	PREDICTED: LOW QUALITY PROTEIN: ATPase f	0.853	0.170	0.625	2e-16
350401431	536	PREDICTED: ATPase family AAA domain-cont	0.853	0.119	0.609	2e-16
332022435	378	ATPase family AAA domain-containing prot	0.96	0.190	0.540	3e-16
21064183	384	AT28104p [Drosophila melanogaster]	0.866	0.169	0.553	3e-16
356582230	372	ATPase family AAA domain-containing prot	0.893	0.180	0.597	3e-16
383865395	374	PREDICTED: ATPase family AAA domain-cont	0.866	0.173	0.584	3e-16
20129529	384	CG4701 [Drosophila melanogaster] gi|7298	0.866	0.169	0.553	3e-16
380030514	530	PREDICTED: LOW QUALITY PROTEIN: ATPase f	0.853	0.120	0.609	3e-16

>gi|307177290|gb|EFN66468.1| ATPase family AAA domain-containing protein 1-B [Camponotus floridanus]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/74 (55%), Positives = 57/74 (77%), Gaps = 2/74 (2%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           E++R  ++   +MD  TD+EM IA+HLVDP DI +SW +IAGLD  I++LK+TVI PI+ 
Sbjct: 62  ESDRYARSF--DMDQLTDYEMIIANHLVDPNDIKISWNNIAGLDSVIQELKETVILPIQR 119

Query: 62  KEMFAKSKLTKAPK 75
           KE+F  S+LT+APK
Sbjct: 120 KELFEDSQLTQAPK 133

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194857213|ref|XP_001968910.1| GG25131 [Drosophila erecta] gi|190660777|gb|EDV57969.1| GG25131 [Drosophila erecta]

 Score = 90.1 bits (222), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 37/65 (56%), Positives = 53/65 (81%)

Query: 11  KINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
           K     F++HEM IASHLV P DI+VSW  IAGLDGTI++L++TV+ P++H+++F++SKL
Sbjct: 67  KFRARDFSEHEMMIASHLVTPEDIDVSWSDIAGLDGTIQELRETVVLPVRHRKLFSRSKL 126

Query: 71  TKAPK 75
            +APK
Sbjct: 127 WRAPK 131

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340729039|ref|XP_003402817.1| PREDICTED: LOW QUALITY PROTEIN: ATPase family AAA domain-containing protein 1-A-like [Bombus terrestris]

 Score = 90.1 bits (222), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 40/64 (62%), Positives = 53/64 (82%)

Query: 12  INMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLT 71
           I+MD  TD+EM IA+H+VDP DI VSWE+IAGL+  I++LK+TVI PI+ KE+F  S+LT
Sbjct: 70  IDMDQLTDYEMMIANHIVDPKDIRVSWENIAGLEHVIQELKETVILPIQRKELFEDSQLT 129

Query: 72  KAPK 75
           +APK
Sbjct: 130 QAPK 133

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350401431|ref|XP_003486149.1| PREDICTED: ATPase family AAA domain-containing protein 1-A-like [Bombus impatiens]

 Score = 90.1 bits (222), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/64 (60%), Positives = 53/64 (82%)

Query: 12  INMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLT 71
           ++MD  TD+EM IA+H+VDP DI VSWE+IAGL+  I++LK+TVI PI+ KE+F  S+LT
Sbjct: 231 VDMDQLTDYEMMIANHIVDPKDIRVSWENIAGLEHVIQELKETVILPIQRKELFEDSQLT 290

Query: 72  KAPK 75
           +APK
Sbjct: 291 QAPK 294

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332022435|gb|EGI62743.1| ATPase family AAA domain-containing protein 1 [Acromyrmex echinatior]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 40/74 (54%), Positives = 57/74 (77%), Gaps = 2/74 (2%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
           E++R  ++   ++D  TD+EM IA+HL+DP+DI VSW  IAGLD  I++LK+TVI PI+ 
Sbjct: 62  ESDRYARSF--DLDQLTDYEMIIANHLIDPSDIKVSWSSIAGLDSVIQELKETVILPIQR 119

Query: 62  KEMFAKSKLTKAPK 75
           KE+F  S+LT+APK
Sbjct: 120 KELFEDSQLTQAPK 133

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|21064183|gb|AAM29321.1| AT28104p [Drosophila melanogaster]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 52/65 (80%)

Query: 11  KINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
           K     F +HEM IASHLV P DI++SW  IAGLDGTI++L++TV+ P++H+++F++SKL
Sbjct: 67  KFRARDFNEHEMMIASHLVTPEDIDISWSDIAGLDGTIQELRETVVLPVRHRKLFSRSKL 126

Query: 71  TKAPK 75
            +APK
Sbjct: 127 WRAPK 131

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|356582230|ref|NP_001239116.1| ATPase family AAA domain-containing protein 1-A-like [Nasonia vitripennis]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 40/67 (59%), Positives = 54/67 (80%)

Query: 9   TLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKS 68
           T  I+++  TD+EM IASHLVDP DI VSWE+IAGL+  I++L++TVI PI+ KE+F  S
Sbjct: 69  TRTIDLEQLTDYEMMIASHLVDPKDIRVSWENIAGLEHVIQELQETVILPIQRKELFEDS 128

Query: 69  KLTKAPK 75
           +LT+APK
Sbjct: 129 QLTQAPK 135

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383865395|ref|XP_003708159.1| PREDICTED: ATPase family AAA domain-containing protein 1-A-like [Megachile rotundata]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 38/65 (58%), Positives = 54/65 (83%)

Query: 11  KINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
           +++M+  TD+EM IA+H+VDP DI VSWE+IAGL+  I++LK+TVI PI+ KE+F  S+L
Sbjct: 69  RVDMNQLTDYEMMIANHIVDPQDIRVSWENIAGLEHVIQELKETVILPIQRKELFEDSQL 128

Query: 71  TKAPK 75
           T+APK
Sbjct: 129 TQAPK 133

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|20129529|ref|NP_609721.1| CG4701 [Drosophila melanogaster] gi|7298175|gb|AAF53410.1| CG4701 [Drosophila melanogaster] gi|201066133|gb|ACH92476.1| FI08533p [Drosophila melanogaster]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 52/65 (80%)

Query: 11  KINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
           K     F +HEM IASHLV P DI++SW  IAGLDGTI++L++TV+ P++H+++F++SKL
Sbjct: 67  KFRARDFNEHEMMIASHLVTPEDIDISWSDIAGLDGTIQELRETVVLPVRHRKLFSRSKL 126

Query: 71  TKAPK 75
            +APK
Sbjct: 127 WRAPK 131

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380030514|ref|XP_003698891.1| PREDICTED: LOW QUALITY PROTEIN: ATPase family AAA domain-containing protein 1-A-like [Apis florea]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 39/64 (60%), Positives = 53/64 (82%)

Query: 12  INMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLT 71
           ++MD  TD+EM IA+H+VDP DI VSWE+IAGL+  I++LK+TVI PI+ KE+F  S+LT
Sbjct: 224 VDMDQLTDYEMIIANHIVDPKDIRVSWENIAGLEHVIQELKETVILPIQRKELFEDSQLT 283

Query: 72  KAPK 75
           +APK
Sbjct: 284 QAPK 287

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	75
FB|FBgn0028868	384	CG4701 [Drosophila melanogaste	0.866	0.169	0.553	5.6e-17
FB|FBgn0005322	369	nmd "no mitochondrial derivati	0.973	0.197	0.518	1.8e-15
UNIPROTKB|F6QV99	361	ATAD1 "ATPase family AAA domai	0.986	0.204	0.486	1.3e-14
UNIPROTKB|Q8NBU5	361	ATAD1 "ATPase family AAA domai	0.986	0.204	0.486	1.3e-14
MGI|MGI:1915229	361	Atad1 "ATPase family, AAA doma	0.986	0.204	0.486	1.3e-14
RGD|1308570	361	Atad1 "ATPase family, AAA doma	0.986	0.204	0.486	1.3e-14
UNIPROTKB|F2Z5H2	365	ATAD1 "Uncharacterized protein	0.986	0.202	0.486	1.3e-14
UNIPROTKB|E2RHY1	369	ATAD1 "Uncharacterized protein	0.986	0.200	0.486	1.4e-14
UNIPROTKB|F1PX89	418	ATAD1 "Uncharacterized protein	0.986	0.177	0.486	2e-14
UNIPROTKB|F1NT80	363	ATAD1 "Uncharacterized protein	0.986	0.203	0.486	2.9e-14

FB|FBgn0028868 CG4701 [Drosophila melanogaster (taxid:7227)]

 Score = 213 (80.0 bits), Expect = 5.6e-17, P = 5.6e-17
 Identities = 36/65 (55%), Positives = 52/65 (80%)

Query:    11 KINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
             K     F +HEM IASHLV P DI++SW  IAGLDGTI++L++TV+ P++H+++F++SKL
Sbjct:    67 KFRARDFNEHEMMIASHLVTPEDIDISWSDIAGLDGTIQELRETVVLPVRHRKLFSRSKL 126

Query:    71 TKAPK 75
              +APK
Sbjct:   127 WRAPK 131

GO:0005524 "ATP binding" evidence=ISS

GO:0005741 "mitochondrial outer membrane" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

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

FB|FBgn0005322 nmd "no mitochondrial derivative" [Drosophila melanogaster (taxid:7227)]

 Score = 199 (75.1 bits), Expect = 1.8e-15, P = 1.8e-15
 Identities = 41/79 (51%), Positives = 56/79 (70%)

Query:     3 AERKLKTL------KINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVI 56
             AE +LK L      K+    F+D+E+ IASHLV PADI VSW  IAGLD  I++L+++V+
Sbjct:    55 AEEQLKRLAEQEGFKLRGQEFSDYELMIASHLVVPADITVSWADIAGLDSVIQELRESVV 114

Query:    57 FPIKHKEMFAKSKLTKAPK 75
              PI+HK++F  SKL +APK
Sbjct:   115 LPIQHKDLFKHSKLWQAPK 133

GO:0016887 "ATPase activity" evidence=ISS

GO:0005783 "endoplasmic reticulum" evidence=ISS

GO:0007286 "spermatid development" evidence=TAS

GO:0005741 "mitochondrial outer membrane" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0048190 "wing disc dorsal/ventral pattern formation" evidence=IGI

UNIPROTKB|F6QV99 ATAD1 "ATPase family AAA domain-containing protein 1" [Bos taurus (taxid:9913)]

 Score = 191 (72.3 bits), Expect = 1.3e-14, P = 1.3e-14
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct:    54 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   114 KHLFENSRLLQPPK 127

GO:0045211 "postsynaptic membrane" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=ISS

GO:0007613 "memory" evidence=ISS

GO:0007612 "learning" evidence=ISS

GO:0002092 "positive regulation of receptor internalization" evidence=ISS

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|Q8NBU5 ATAD1 "ATPase family AAA domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 191 (72.3 bits), Expect = 1.3e-14, P = 1.3e-14
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct:    54 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   114 KHLFENSRLLQPPK 127

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=ISS

GO:0007612 "learning" evidence=ISS

GO:0007613 "memory" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0045211 "postsynaptic membrane" evidence=ISS

GO:0005778 "peroxisomal membrane" evidence=IDA

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=ISS

MGI|MGI:1915229 Atad1 "ATPase family, AAA domain containing 1" [Mus musculus (taxid:10090)]

 Score = 191 (72.3 bits), Expect = 1.3e-14, P = 1.3e-14
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct:    54 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   114 KHLFENSRLLQPPK 127

GO:0000166 "nucleotide binding" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005777 "peroxisome" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006200 "ATP catabolic process" evidence=IDA

GO:0007612 "learning" evidence=IMP

GO:0007613 "memory" evidence=IMP

GO:0016020 "membrane" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0016887 "ATPase activity" evidence=IDA

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

GO:0030054 "cell junction" evidence=IEA

GO:0045202 "synapse" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IDA

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=IMP

RGD|1308570 Atad1 "ATPase family, AAA domain containing 1" [Rattus norvegicus (taxid:10116)]

 Score = 191 (72.3 bits), Expect = 1.3e-14, P = 1.3e-14
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct:    54 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 113

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   114 KHLFENSRLLQPPK 127

GO:0002092 "positive regulation of receptor internalization" evidence=ISO;ISS

GO:0005515 "protein binding" evidence=IPI

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0005778 "peroxisomal membrane" evidence=IEA;ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006200 "ATP catabolic process" evidence=ISO

GO:0007612 "learning" evidence=ISO;ISS

GO:0007613 "memory" evidence=ISO;ISS

GO:0016887 "ATPase activity" evidence=ISO;ISS

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

GO:0030054 "cell junction" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=ISO;ISS

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=ISO;ISS

UNIPROTKB|F2Z5H2 ATAD1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 191 (72.3 bits), Expect = 1.3e-14, P = 1.3e-14
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct:    58 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 117

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   118 KHLFENSRLLQPPK 131

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007613 "memory" evidence=IEA

GO:0007612 "learning" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|E2RHY1 ATAD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 191 (72.3 bits), Expect = 1.4e-14, P = 1.4e-14
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct:    62 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 121

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   122 KHLFENSRLLQPPK 135

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007613 "memory" evidence=IEA

GO:0007612 "learning" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1PX89 ATAD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 191 (72.3 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 36/74 (48%), Positives = 52/74 (70%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP +++V+W  IAGLD  I DLK TVI PIK 
Sbjct:   111 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKK 170

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   171 KHLFENSRLLQPPK 184

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|F1NT80 ATAD1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 188 (71.2 bits), Expect = 2.9e-14, P = 2.9e-14
 Identities = 36/74 (48%), Positives = 51/74 (68%)

Query:     2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
             +AE+ +K + +     +++EMSIA+HLVDP  ++V+W  IAGLD  I DLK TVI PIK 
Sbjct:    55 QAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLSMHVTWNDIAGLDDVITDLKDTVILPIKK 114

Query:    62 KEMFAKSKLTKAPK 75
             K +F  S+L + PK
Sbjct:   115 KYLFENSRLLQPPK 128

GO:0005524 "ATP binding" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0007612 "learning" evidence=IEA

GO:0007613 "memory" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by 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	75
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-05
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	8e-05
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	2e-04
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	0.001

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

 Score = 41.0 bits (96), Expect = 1e-05
 Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 13/69 (18%)

Query: 7   LKTLKINMDSFTDHEMSIASHLVDPADI--------NVSWEHIAGLDGTIKDLKQTVIFP 58
           LK LK+ M  F +     A  +V+P+ I        NV W  I GL+   ++L++ V +P
Sbjct: 418 LKELKVTMKDFME-----ALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWP 472

Query: 59  IKHKEMFAK 67
           +KH E+F K
Sbjct: 473 LKHPEIFEK 481

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|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score = 38.2 bits (89), Expect = 8e-05
 Identities = 14/33 (42%), Positives = 24/33 (72%)

Query: 35  NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
           NVS+E I GL+  I+++++ V  P+KH E+F +
Sbjct: 118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEE 150

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

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

 Score = 37.5 bits (88), Expect = 2e-04
 Identities = 12/33 (36%), Positives = 23/33 (69%)

Query: 35  NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
           NV++E I GL+  I+++++ V  P+K  E+F +
Sbjct: 127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEE 159

Length = 389

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

 Score = 34.8 bits (80), Expect = 0.001
 Identities = 14/42 (33%), Positives = 24/42 (57%)

Query: 29  VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
           V   D +V+ + I GL+   ++LK+ +  P+K  E+F K  L
Sbjct: 232 VLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGL 273

Length = 494

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	75
KOG0737|consensus	386		99.52
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.36
KOG0730|consensus	693		99.33
KOG0733|consensus	802		99.31
KOG0736|consensus	953		99.13
KOG0726|consensus	440		99.05
KOG0652|consensus	424		98.94
KOG0739|consensus	439		98.9
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.81
KOG0729|consensus	435		98.8
KOG0727|consensus	408		98.78
KOG0738|consensus	491		98.73
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.61
KOG0728|consensus	404		98.58
KOG0732|consensus	1080		98.53
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.53
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.48
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	98.46
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.41
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.34
KOG0735|consensus	952		98.11
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.07
KOG0733|consensus	802		98.07
KOG0731|consensus	774		98.04
KOG0740|consensus	428		98.04
KOG0651|consensus	388		98.02
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.64
KOG0734|consensus	752		97.34
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.87
KOG0730|consensus	693		96.5
CHL00176	638	ftsH cell division protein; Validated	96.48
CHL00195	489	ycf46 Ycf46; Provisional	94.68
CHL00181	287	cbbX CbbX; Provisional	94.37
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	91.2
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	90.98
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	90.24
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	81.34

>KOG0737|consensus

Probab=99.52  E-value=1.5e-14  Score=104.24  Aligned_cols=73  Identities=38%  Similarity=0.629  Sum_probs=65.6

Q ss_pred             HHHHHHhhcC------cccccchHHHHHhccccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938           3 AERKLKTLKI------NMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus         3 ~~~~~~~l~~------~~~~~~~~e~~ia~~~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.+.+++++-      ..+.+++||..+++.+|.|...+|+|+||||++.++++|+|.|.+|+++|++|.+.+|.+|||
T Consensus        50 ~~~~l~~~~~~~s~k~~~i~~ne~E~~i~s~~v~p~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~k  128 (386)
T KOG0737|consen   50 TEELLKNLEAELSLKYRIIQKNEYEKRIASDVVPPSEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPK  128 (386)
T ss_pred             HHHHHHhhhhccchhhhhhhhhHHHHHhhhcccchhhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCc
Confidence            3455566654      378999999999999999999999999999999999999999999999999999988888886

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

Probab=99.36  E-value=6.1e-13  Score=96.17  Aligned_cols=44  Identities=32%  Similarity=0.654  Sum_probs=41.6

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .+.|+|+|+|||||++++++|+|.|++||+||++|..+| +.|||
T Consensus       143 ~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~G-I~PPK  186 (406)
T COG1222         143 EEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELG-IDPPK  186 (406)
T ss_pred             ccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcC-CCCCC
Confidence            345799999999999999999999999999999999999 79997

>KOG0730|consensus

Probab=99.33  E-value=8e-13  Score=100.62  Aligned_cols=44  Identities=41%  Similarity=0.693  Sum_probs=41.1

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      -+.|+|+|+||||++++|.+|+++|.||++||+.|.++| ++|||
T Consensus       426 ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~G-i~ppk  469 (693)
T KOG0730|consen  426 VEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFG-ISPPK  469 (693)
T ss_pred             ccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhc-CCCCc
Confidence            344799999999999999999999999999999999999 69997

>KOG0733|consensus

Probab=99.31  E-value=9.9e-13  Score=100.19  Aligned_cols=58  Identities=26%  Similarity=0.549  Sum_probs=50.3

Q ss_pred             ccccchHHHHHhccccCCCC--------CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          14 MDSFTDHEMSIASHLVDPAD--------INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        14 ~~~~~~~e~~ia~~~v~p~~--------~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      .+.++|||.++.  .|.|+.        |+|+|+|||||++++.+|..+|.+|++||+.|+++| +.+|
T Consensus       480 ~i~~eDF~~Al~--~iQPSakREGF~tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lG-i~~P  545 (802)
T KOG0733|consen  480 SIKFEDFEEALS--KIQPSAKREGFATVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALG-IDAP  545 (802)
T ss_pred             eecHHHHHHHHH--hcCcchhcccceecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhC-CCCC
Confidence            467778888665  466664        799999999999999999999999999999999999 5776

>KOG0736|consensus

Probab=99.13  E-value=3.9e-11  Score=93.20  Aligned_cols=55  Identities=25%  Similarity=0.535  Sum_probs=46.1

Q ss_pred             cccccchHHHHH-------hccccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhc
Q psy8938          13 NMDSFTDHEMSI-------ASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK   67 (75)
Q Consensus        13 ~~~~~~~~e~~i-------a~~~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~   67 (75)
                      ..++.++|.+++       +..+-.|+.|+|+|+||||++++|.++.++|.+||+||++|..
T Consensus       639 ~~l~~edf~kals~~~~~fs~aiGAPKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfss  700 (953)
T KOG0736|consen  639 FLLTEEDFDKALSRLQKEFSDAIGAPKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS  700 (953)
T ss_pred             ceecHHHHHHHHHHHHHhhhhhcCCCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhc
Confidence            345555665554       4556679999999999999999999999999999999999975

>KOG0726|consensus

Probab=99.05  E-value=1.5e-10  Score=83.08  Aligned_cols=43  Identities=28%  Similarity=0.594  Sum_probs=40.3

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ++|.-+|.||||+++++++|+|+|.+||.||++|..+| ++|||
T Consensus       178 KaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemG-ikpPK  220 (440)
T KOG0726|consen  178 KAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMG-IKPPK  220 (440)
T ss_pred             cCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcC-CCCCC
Confidence            45677899999999999999999999999999999999 79997

>KOG0652|consensus

Probab=98.94  E-value=8.4e-10  Score=78.47  Aligned_cols=55  Identities=25%  Similarity=0.513  Sum_probs=47.7

Q ss_pred             hHHHHHhccccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          19 DHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        19 ~~e~~ia~~~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +|+..+....| .+.|+-+|+||||++.++++|-|+|++|+.|++.|..+| ++|||
T Consensus       152 eyDsrVkaMev-DekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lg-i~pPK  206 (424)
T KOG0652|consen  152 EYDSRVKAMEV-DEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLG-IRPPK  206 (424)
T ss_pred             hhhhhcceeee-ccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcC-CCCCC
Confidence            55666655545 466788999999999999999999999999999999999 79997

>KOG0739|consensus

Probab=98.90  E-value=1e-09  Score=78.90  Aligned_cols=47  Identities=34%  Similarity=0.654  Sum_probs=40.3

Q ss_pred             HHHHhccccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcC
Q psy8938          21 EMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKS   68 (75)
Q Consensus        21 e~~ia~~~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~   68 (75)
                      ..++.+. |..+.|+|.|+||.||+..|++|+|+|++|+++|++|.+-
T Consensus       116 r~~L~sA-Iv~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGk  162 (439)
T KOG0739|consen  116 RSALNSA-IVREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGK  162 (439)
T ss_pred             HHHhhhh-hhccCCCCchhhhccchhHHHHHHhheeecccchhhhcCC
Confidence            3345555 4467899999999999999999999999999999999874

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

Probab=98.81  E-value=4.7e-09  Score=76.43  Aligned_cols=44  Identities=20%  Similarity=0.510  Sum_probs=40.9

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .+.|+++|+||||++.+++.|++.|.+|+.+|+.|.++| +.||+
T Consensus       137 ~~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~G-l~~pk  180 (398)
T PTZ00454        137 SEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIG-IDPPR  180 (398)
T ss_pred             cCCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcC-CCCCc
Confidence            467899999999999999999999999999999999999 58875

>KOG0729|consensus

Probab=98.80  E-value=5e-09  Score=74.75  Aligned_cols=43  Identities=26%  Similarity=0.514  Sum_probs=40.8

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+|+|+||||..+.++.|+|.|.+|+.||+.|-.+| +.|||
T Consensus       170 ekpdvty~dvggckeqieklrevve~pll~perfv~lg-idppk  212 (435)
T KOG0729|consen  170 EKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLG-IDPPK  212 (435)
T ss_pred             cCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcC-CCCCC
Confidence            45799999999999999999999999999999999999 69997

>KOG0727|consensus

Probab=98.78  E-value=4.6e-09  Score=74.46  Aligned_cols=43  Identities=23%  Similarity=0.580  Sum_probs=40.7

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+|+|.||||+|-+|++++|+|.+|+.|.++|+..| +.||+
T Consensus       148 ekpdvsy~diggld~qkqeireavelplt~~~ly~qig-idppr  190 (408)
T KOG0727|consen  148 EKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIG-IDPPR  190 (408)
T ss_pred             CCCCccccccccchhhHHHHHHHHhccchHHHHHHHhC-CCCCc
Confidence            35799999999999999999999999999999999999 69996

>KOG0738|consensus

Probab=98.73  E-value=7.2e-09  Score=76.22  Aligned_cols=45  Identities=31%  Similarity=0.547  Sum_probs=39.0

Q ss_pred             HHhccccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcC
Q psy8938          23 SIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKS   68 (75)
Q Consensus        23 ~ia~~~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~   68 (75)
                      ++... |...+|+|.|+||.|++++|+.|+|+|++|+++|++|.++
T Consensus       197 ~lerd-Il~~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~Gi  241 (491)
T KOG0738|consen  197 ALERD-ILQRNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGI  241 (491)
T ss_pred             HHHHH-HhccCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhc
Confidence            34443 4467789999999999999999999999999999999975

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.61  E-value=4.1e-08  Score=73.67  Aligned_cols=49  Identities=31%  Similarity=0.553  Sum_probs=43.5

Q ss_pred             ccccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          26 SHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        26 ~~~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ...+..+.|+++|+||||++.+++.+++.|.+|+.||++|+.+| +.||+
T Consensus       169 ~~l~~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~g-l~~p~  217 (512)
T TIGR03689       169 EDLVLEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYD-LKPPK  217 (512)
T ss_pred             hcceeecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhcc-CCCCc
Confidence            33455677899999999999999999999999999999999999 58775

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.

>KOG0728|consensus

Probab=98.58  E-value=4.4e-08  Score=69.49  Aligned_cols=44  Identities=34%  Similarity=0.633  Sum_probs=39.1

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .+.|+-+|+-|||++.++++++|.|.+|.+||++|..+|+ ..||
T Consensus       139 eKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGI-aQPK  182 (404)
T KOG0728|consen  139 EKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGI-AQPK  182 (404)
T ss_pred             hhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCC-CCCc
Confidence            3457889999999999999999999999999999999995 5443

>KOG0732|consensus

Probab=98.53  E-value=5.4e-08  Score=77.71  Aligned_cols=41  Identities=27%  Similarity=0.593  Sum_probs=39.2

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ..|+|+|||||+.++..|+|+|.+|+.||+.|..++ +.||+
T Consensus       260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~-itpPr  300 (1080)
T KOG0732|consen  260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFN-ITPPR  300 (1080)
T ss_pred             cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcc-cCCCc
Confidence            489999999999999999999999999999999999 69996

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.53  E-value=9.5e-08  Score=69.07  Aligned_cols=44  Identities=32%  Similarity=0.650  Sum_probs=40.4

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .+.|+++|+||||++++++.|++.+.+|+.+|+.|..+| +.||+
T Consensus       123 ~~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g-~~~p~  166 (389)
T PRK03992        123 IESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVG-IEPPK  166 (389)
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcC-CCCCC
Confidence            455799999999999999999999999999999999999 58875

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.48  E-value=8.6e-08  Score=73.78  Aligned_cols=42  Identities=38%  Similarity=0.752  Sum_probs=38.8

Q ss_pred             CCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          33 DINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        33 ~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .++++|+||||++++|+.|++.+.||+.||+.|.++| +.+|+
T Consensus       447 ~~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g-~~~~~  488 (733)
T TIGR01243       447 VPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMG-IRPPK  488 (733)
T ss_pred             ccccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcC-CCCCc
Confidence            4689999999999999999999999999999999999 57774

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.

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

Probab=98.46  E-value=2.4e-07  Score=68.19  Aligned_cols=60  Identities=28%  Similarity=0.397  Sum_probs=48.7

Q ss_pred             cccchHHHHHhcc----ccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          15 DSFTDHEMSIASH----LVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        15 ~~~~~~e~~ia~~----~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ...++++.++..-    .+....++++|+||||++.+++.+++.+.+|+.||+.|.+.| +++|+
T Consensus       214 ~~~~~~~~~l~~~~~~~~~~~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~-~~~~~  277 (494)
T COG0464         214 VTEDDFEEALKKVLPSRGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLG-LRPPK  277 (494)
T ss_pred             ccHHHHHHHHHhcCcccccccCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcC-CCCCC
Confidence            4555666665542    344567899999999999999999999999999999999988 47764

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

Probab=98.41  E-value=2.7e-07  Score=68.15  Aligned_cols=43  Identities=30%  Similarity=0.566  Sum_probs=39.7

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|.++|+||||++++++.|++.+.+|+.+|+.|..+| +.||+
T Consensus       176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~g-i~~p~  218 (438)
T PTZ00361        176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIG-IKPPK  218 (438)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcC-CCCCc
Confidence            55789999999999999999999999999999999999 57774

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.34  E-value=5.6e-07  Score=64.17  Aligned_cols=44  Identities=36%  Similarity=0.714  Sum_probs=40.3

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .+.|+++|+||||++++++.|++.+.+|+.+|+.|..+| +.||+
T Consensus       114 ~~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g-~~~p~  157 (364)
T TIGR01242       114 EERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVG-IEPPK  157 (364)
T ss_pred             ccCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcC-CCCCc
Confidence            356799999999999999999999999999999999999 57775

Many proteins may score above the trusted cutoff because an internal

>KOG0735|consensus

Probab=98.11  E-value=2.4e-06  Score=66.88  Aligned_cols=57  Identities=25%  Similarity=0.364  Sum_probs=43.6

Q ss_pred             ccccchHHHHHhcc------ccCCCC-CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCC
Q psy8938          14 MDSFTDHEMSIASH------LVDPAD-INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL   70 (75)
Q Consensus        14 ~~~~~~~e~~ia~~------~v~p~~-~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl   70 (75)
                      .++-.+|+.++...      -|.-.. .+++|+||||+.++|+.|+|.|.||.+||.+|...+|
T Consensus       635 lltke~f~ksL~~F~P~aLR~ik~~k~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~pl  698 (952)
T KOG0735|consen  635 LLTKELFEKSLKDFVPLALRGIKLVKSTGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPL  698 (952)
T ss_pred             cchHHHHHHHHHhcChHHhhhccccccCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCc
Confidence            55666677765332      122122 2599999999999999999999999999999999874

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.07  E-value=3.7e-06  Score=64.90  Aligned_cols=42  Identities=31%  Similarity=0.586  Sum_probs=38.8

Q ss_pred             CCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          33 DINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        33 ~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .++++|+||||++.+++.+++.+.+|+.||++|.++| +.+|+
T Consensus       172 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~g-i~~~~  213 (733)
T TIGR01243       172 VPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLG-IEPPK  213 (733)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcC-CCCCc
Confidence            4689999999999999999999999999999999999 57774

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.

>KOG0733|consensus

Probab=98.07  E-value=3e-06  Score=65.44  Aligned_cols=40  Identities=40%  Similarity=0.690  Sum_probs=37.9

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .+|+|+||||++.+..+|++.+.. ++||+.|..+| +.|||
T Consensus       185 snv~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lG-v~Ppr  224 (802)
T KOG0733|consen  185 SNVSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLG-VRPPR  224 (802)
T ss_pred             CCcchhhccChHHHHHHHHHHHHH-hcCchhHhhcC-CCCCC
Confidence            389999999999999999999999 99999999999 69996

>KOG0731|consensus

Probab=98.04  E-value=5.3e-06  Score=64.90  Aligned_cols=43  Identities=28%  Similarity=0.522  Sum_probs=39.4

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ....+|+|.||.|++++|++|+|.|.+ |++|+.|.++| +++||
T Consensus       303 ~~~t~V~FkDVAG~deAK~El~E~V~f-LKNP~~Y~~lG-AKiPk  345 (774)
T KOG0731|consen  303 EGNTGVKFKDVAGVDEAKEELMEFVKF-LKNPEQYQELG-AKIPK  345 (774)
T ss_pred             CCCCCCccccccCcHHHHHHHHHHHHH-hcCHHHHHHcC-CcCcC
Confidence            344579999999999999999999999 99999999999 69987

>KOG0740|consensus

Probab=98.04  E-value=3.3e-06  Score=62.39  Aligned_cols=41  Identities=32%  Similarity=0.650  Sum_probs=36.9

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSK   69 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~g   69 (75)
                      |....++|.|+||+|++++++.+.|.++||+.+|++|.++.
T Consensus       143 I~~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr  183 (428)
T KOG0740|consen  143 IGDTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLR  183 (428)
T ss_pred             HhccCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccc
Confidence            44556789999999999999999999999999999999764

>KOG0651|consensus

Probab=98.02  E-value=4.5e-06  Score=60.34  Aligned_cols=43  Identities=30%  Similarity=0.602  Sum_probs=40.1

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ...+++|+.|||+-.++.+++|.|.+|+.+|++|.+.| ++|||
T Consensus       125 ~~~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvg-Ik~Pk  167 (388)
T KOG0651|consen  125 DPRNISFENVGGLFYQIRELREVIELPLTNPELFLRVG-IKPPK  167 (388)
T ss_pred             CccccCHHHhCChHHHHHHHHhheEeeccCchhccccC-CCCCc
Confidence            34489999999999999999999999999999999999 79996

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.64  E-value=7e-05  Score=55.56  Aligned_cols=45  Identities=29%  Similarity=0.524  Sum_probs=39.3

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ..++.++++|+||+|++++++.+++.+.+ +++|+.|...| ..+|+
T Consensus        45 ~~~~~~~~~~~di~g~~~~k~~l~~~~~~-l~~~~~~~~~g-~~~~~   89 (495)
T TIGR01241        45 LNEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLG-AKIPK   89 (495)
T ss_pred             ccCCCCCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHhcC-CCCCC
Confidence            34557899999999999999999999888 99999999988 47664

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.

>KOG0734|consensus

Probab=97.34  E-value=0.00016  Score=55.60  Aligned_cols=45  Identities=36%  Similarity=0.634  Sum_probs=38.5

Q ss_pred             cCCCC-CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          29 VDPAD-INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        29 v~p~~-~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+. .+|+|+||-|+|+.|++|+|.|.| |+.|+.|.++| =+-||
T Consensus       293 v~p~~~~nv~F~dVkG~DEAK~ELeEiVef-LkdP~kftrLG-GKLPK  338 (752)
T KOG0734|consen  293 VDPEQMKNVTFEDVKGVDEAKQELEEIVEF-LKDPTKFTRLG-GKLPK  338 (752)
T ss_pred             cChhhhcccccccccChHHHHHHHHHHHHH-hcCcHHhhhcc-CcCCC
Confidence            45553 499999999999999999999999 99999999988 34444

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

Probab=96.87  E-value=0.00088  Score=51.52  Aligned_cols=43  Identities=26%  Similarity=0.510  Sum_probs=38.5

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +...+|+|.||.|.|++|++|.|.|.+ ++.|..|.++| .+-||
T Consensus       142 ~~~~~v~F~DVAG~dEakeel~EiVdf-Lk~p~ky~~lG-akiPk  184 (596)
T COG0465         142 EDQVKVTFADVAGVDEAKEELSELVDF-LKNPKKYQALG-AKIPK  184 (596)
T ss_pred             ccccCcChhhhcCcHHHHHHHHHHHHH-HhCchhhHhcc-ccccc
Confidence            345789999999999999999999998 99999999999 47775

>KOG0730|consensus

Probab=96.50  E-value=0.0024  Score=49.76  Aligned_cols=40  Identities=25%  Similarity=0.556  Sum_probs=36.7

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.++ +++||+....+.++++|.+|+.||..|..+| ++||+
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g-~~~pr  219 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIG-IKPPR  219 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcC-CCCCC
Confidence            4566 7999999999999999999999999999999 68885

>CHL00176 ftsH cell division protein; Validated

Probab=96.48  E-value=0.0034  Score=48.51  Aligned_cols=43  Identities=30%  Similarity=0.588  Sum_probs=37.1

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .....++|+||+|++++++.+++.+.+ +++|+.|..+| ..+|+
T Consensus       175 ~~~~~~~f~dv~G~~~~k~~l~eiv~~-lk~~~~~~~~g-~~~p~  217 (638)
T CHL00176        175 EADTGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVG-AKIPK  217 (638)
T ss_pred             ccCCCCCHHhccChHHHHHHHHHHHHH-HhCHHHHhhcc-CCCCc
Confidence            445589999999999999999998877 99999999988 46664

>CHL00195 ycf46 Ycf46; Provisional

Probab=94.68  E-value=0.042  Score=41.39  Aligned_cols=38  Identities=21%  Similarity=0.254  Sum_probs=28.9

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ++++|+||||++.+|+.|++...   .++..+..+| +.+||
T Consensus       223 ~~~~~~dvgGl~~lK~~l~~~~~---~~~~~~~~~g-l~~pk  260 (489)
T CHL00195        223 VNEKISDIGGLDNLKDWLKKRST---SFSKQASNYG-LPTPR  260 (489)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHH---HhhHHHHhcC-CCCCc
Confidence            57899999999999999987532   3455667788 47665

>CHL00181 cbbX CbbX; Provisional

Probab=94.37  E-value=0.042  Score=38.51  Aligned_cols=35  Identities=11%  Similarity=0.172  Sum_probs=29.2

Q ss_pred             hhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          38 WEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        38 w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      +.|++|++++|+.+++.+.+ +.++..+.+.|+ .+|
T Consensus        22 ~~~l~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~-~~~   56 (287)
T CHL00181         22 DEELVGLAPVKTRIREIAAL-LLIDRLRKNLGL-TSS   56 (287)
T ss_pred             HHhcCCcHHHHHHHHHHHHH-HHHHHHHHHcCC-CCC
Confidence            46899999999999999988 667788888884 554

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=91.20  E-value=0.26  Score=38.20  Aligned_cols=44  Identities=20%  Similarity=0.427  Sum_probs=36.1

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      ..+.....+|+|++|++..++.+.+.+.+ +.+|+.|..++ ...|
T Consensus       142 ~~~~~~~~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~-~~~~  185 (644)
T PRK10733        142 LTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLG-GKIP  185 (644)
T ss_pred             cCchhhhCcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcC-CCCC
Confidence            44556678899999999999999999988 77888888777 3554

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=90.98  E-value=0.22  Score=34.73  Aligned_cols=33  Identities=9%  Similarity=0.222  Sum_probs=28.5

Q ss_pred             hhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCC
Q psy8938          39 EHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKA   73 (75)
Q Consensus        39 ~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~p   73 (75)
                      ++++|++++|+.+++.+.+ +.+++.+.+.|+ .+
T Consensus        22 ~~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~-~~   54 (284)
T TIGR02880        22 RELIGLKPVKTRIREIAAL-LLVERLRQRLGL-AS   54 (284)
T ss_pred             HhccCHHHHHHHHHHHHHH-HHHHHHHHHhCC-Cc
Confidence            3799999999999999999 788888888884 54

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.

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

Probab=90.24  E-value=0.28  Score=35.47  Aligned_cols=33  Identities=9%  Similarity=0.363  Sum_probs=29.8

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhc
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK   67 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~   67 (75)
                      ++++++||.|+++.|...+-++.| |.+|+.|..
T Consensus       116 ~~it~ddViGqEeAK~kcrli~~y-LenPe~Fg~  148 (368)
T COG1223         116 SDITLDDVIGQEEAKRKCRLIMEY-LENPERFGD  148 (368)
T ss_pred             ccccHhhhhchHHHHHHHHHHHHH-hhChHHhcc
Confidence            489999999999999998888888 999999976

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=81.34  E-value=1.5  Score=29.82  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=20.9

Q ss_pred             hhhccCcHHHHHHHHHHhhccccC
Q psy8938          38 WEHIAGLDGTIKDLKQTVIFPIKH   61 (75)
Q Consensus        38 w~dIgGl~~~k~~L~e~v~~Pl~~   61 (75)
                      .+++.|++.+|+.+++.+.++..+
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~   28 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQIN   28 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHH
Confidence            478999999999999999887554

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	75
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	5e-10
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	2e-09
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	3e-09
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-08
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	3e-08
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-07
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-05
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	3e-07
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	3e-07
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	1e-06
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	6e-06
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	4e-05
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	1e-04

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 52.5 bits (126), Expect = 5e-10
 Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 2/74 (2%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
               + K    N  +   +  ++  + +      V ++ IAG D   + L++ VI P   
Sbjct: 78  TTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLR 137

Query: 62  KEMFAKSKLTKAPK 75
            E+F  + L    +
Sbjct: 138 PELF--TGLRAPAR 149

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 50.8 bits (122), Expect = 2e-09
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 2/53 (3%)

Query: 23 SIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
           +    +      V W  IAG D   + L++ VI P    E+F  + L    K
Sbjct: 5  QLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELF--TGLRAPAK 55

>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 = 50.1 bits (120), Expect = 3e-09
 Identities = 13/74 (17%), Positives = 31/74 (41%), Gaps = 2/74 (2%)

Query: 2   EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
                   +   + +     + +  + +      V+WE IAG++     +K+ V++P+  
Sbjct: 47  GPTEPAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLR 106

Query: 62  KEMFAKSKLTKAPK 75
            ++F  + L   PK
Sbjct: 107 PDIF--TGLRGPPK 118

>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 = 47.6 bits (114), Expect = 2e-08
 Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 1/41 (2%)

Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
           V+WE I GL+   ++L++ V +P++H + F K  +    K
Sbjct: 11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGM-TPSK 50

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 47.2 bits (113), Expect = 3e-08
 Identities = 10/41 (24%), Positives = 20/41 (48%), Gaps = 1/41 (2%)

Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
          NV+W  I  L+   ++L   ++ P+++ + F    L   P 
Sbjct: 6  NVTWADIGALEDIREELTMAILAPVRNPDQFKALGL-VTPA 45

>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 = 44.3 bits (105), Expect = 3e-07
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMF 65
          NV WE +AGL+G  + LK+ VI P+K   +F
Sbjct: 14 NVKWEDVAGLEGAKEALKEAVILPVKFPHLF 44

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 44.3 bits (105), Expect = 3e-07
 Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 2/43 (4%)

Query: 33 DINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
            NV W  +AGL+G  + LK+ VI PIK   +F  +      +
Sbjct: 6  RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPWR 46

>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 = 42.9 bits (101), Expect = 1e-06
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMF 65
          NV WE +AGL+G  + LK+ VI P+K   +F
Sbjct: 47 NVKWEDVAGLEGAKEALKEAVILPVKFPHLF 77

>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 = 41.1 bits (96), Expect = 6e-06
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 31  PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMF 65
               NV W  +AGL+G  + LK+ VI PIK   +F
Sbjct: 126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF 160

>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 = 38.6 bits (90), Expect = 4e-05
 Identities = 8/33 (24%), Positives = 16/33 (48%)

Query: 35  NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
            V ++ I G    +  +K+ V  P++H  +F  
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKA 232

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 37.2 bits (87), Expect = 1e-04
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
          NV +E I GL+  ++++++ V  P+KH E+F K
Sbjct: 13 NVRYEDIGGLEKQMQEIREVVELPLKHPELFEK 45

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	75
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.34
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.19
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.19
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.18
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.13
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.12
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.82
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.8
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	98.63
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.51
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.46
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.0
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.0
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.88
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.73
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.57
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.49
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.46
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.34
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.28
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.27
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.26
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.26
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.98
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.92
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.65
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.44
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.94
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.65
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	95.33
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	83.41

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.34  E-value=3.7e-13  Score=97.04  Aligned_cols=45  Identities=27%  Similarity=0.528  Sum_probs=41.5

Q ss_pred             CCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          30 DPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        30 ~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ..+.|+|+|+||||++++|++|+|+|.||++||++|.++| +.|||
T Consensus       139 ~~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~g-i~~pr  183 (405)
T 4b4t_J          139 VEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLG-IAQPK  183 (405)
T ss_dssp             EECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHT-CCCCC
T ss_pred             ccCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCC
Confidence            3456899999999999999999999999999999999999 68886

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.19  E-value=7.2e-12  Score=90.88  Aligned_cols=43  Identities=28%  Similarity=0.641  Sum_probs=40.4

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+|+|+||||++++|++|++.|.+|++||++|.++| +.|||
T Consensus       174 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g-~~~pr  216 (437)
T 4b4t_L          174 EQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVG-IKPPK  216 (437)
T ss_dssp             ESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHC-CCCCC
T ss_pred             cCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCC
Confidence            45799999999999999999999999999999999999 69886

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.19  E-value=7.1e-12  Score=91.77  Aligned_cols=43  Identities=26%  Similarity=0.485  Sum_probs=40.6

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+|+|+||||++++|++|+|.|.+|+.||++|.++| +.|||
T Consensus       202 e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~G-i~ppr  244 (467)
T 4b4t_H          202 EKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLG-IDPPK  244 (467)
T ss_dssp             SSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHT-CCCCS
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCC-CCCCC
Confidence            45799999999999999999999999999999999999 68886

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.18  E-value=7.7e-12  Score=90.99  Aligned_cols=44  Identities=30%  Similarity=0.610  Sum_probs=41.0

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .+.|+|+|+||||++++|++|+|.|.+|++||+.|+++| +.|||
T Consensus       174 ~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~G-i~~pr  217 (437)
T 4b4t_I          174 DKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMG-IKPPK  217 (437)
T ss_dssp             ESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHT-CCCCS
T ss_pred             ccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCC
Confidence            356899999999999999999999999999999999999 68886

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.13  E-value=2.7e-11  Score=87.68  Aligned_cols=43  Identities=16%  Similarity=0.518  Sum_probs=40.4

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+|+|+||||++++|+.|++.|.+|++||+.|.++| +.|||
T Consensus       165 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g-~~~pr  207 (428)
T 4b4t_K          165 EKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIG-IDPPR  207 (428)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHC-CCCCC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCc
Confidence            45799999999999999999999999999999999999 68886

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.12  E-value=2.4e-11  Score=88.12  Aligned_cols=43  Identities=26%  Similarity=0.589  Sum_probs=40.3

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+++|+||||++++|++|++.|.+|++||++|+++| +.|||
T Consensus       174 ~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g-~~~pr  216 (434)
T 4b4t_M          174 EKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMG-IRAPK  216 (434)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHC-CCCCC
T ss_pred             CCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCC
Confidence            45799999999999999999999999999999999999 58886

>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=98.82  E-value=1.5e-09  Score=83.54  Aligned_cols=60  Identities=23%  Similarity=0.450  Sum_probs=47.6

Q ss_pred             cccchHHHHHhcc------ccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          15 DSFTDHEMSIASH------LVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        15 ~~~~~~e~~ia~~------~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +..+||+.++...      .+..+.|+|+|+||||++++|++|++.|.||++||+.|.++| ++||+
T Consensus       447 v~~~Df~~Al~~~~ps~~r~~~~~~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g-~~~~~  512 (806)
T 3cf2_A          447 VTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFG-MTPSK  512 (806)
T ss_dssp             ECTTHHHHHHSSSSCCCCCCCCCBCCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSC-CCCCS
T ss_pred             eeHHHHHHHHHhCCCcccccccccCCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcC-CCCCc
Confidence            4455666655321      123445799999999999999999999999999999999999 58875

>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=98.80  E-value=1.2e-09  Score=84.02  Aligned_cols=42  Identities=24%  Similarity=0.515  Sum_probs=39.8

Q ss_pred             CCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          33 DINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        33 ~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      .++|+|+||||+++++++|+|.|.+|++||++|.++| ++|||
T Consensus       198 ~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g-~~~p~  239 (806)
T 3cf2_A          198 LNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIG-VKPPR  239 (806)
T ss_dssp             SSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCC-CCCCC
T ss_pred             CCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcC-CCCCC
Confidence            4689999999999999999999999999999999999 69986

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=98.63  E-value=1.1e-08  Score=69.27  Aligned_cols=43  Identities=21%  Similarity=0.481  Sum_probs=31.7

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+++|+||||++++|+.|++.|.+|+.+|+.|..++ +.+|+
T Consensus         3 ~~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~-l~~~~   45 (274)
T 2x8a_A            3 TVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALG-LVTPA   45 (274)
T ss_dssp             ---------CCHHHHHHHHHHHHHTHHHHSHHHHHHTT-CCCCS
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcC-CCCCC
Confidence            35689999999999999999999999999999999999 47764

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.51  E-value=5.3e-08  Score=66.19  Aligned_cols=46  Identities=28%  Similarity=0.540  Sum_probs=40.5

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +..+.|+++|+||||++++++.|++.+.+|+.+|+.|.++| +.+|+
T Consensus         5 ~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~-~~~~~   50 (301)
T 3cf0_A            5 TVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFG-MTPSK   50 (301)
T ss_dssp             CCEECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHC-CCCCS
T ss_pred             ccccCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcC-CCCCc
Confidence            34567899999999999999999999999999999999988 46653

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.46  E-value=6.3e-08  Score=66.70  Aligned_cols=42  Identities=36%  Similarity=0.631  Sum_probs=36.6

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      .+.|+++|+||||++++|+.|++.|.+|++||++|.+.  ..||
T Consensus         4 ~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~--~~~~   45 (322)
T 1xwi_A            4 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK--RTPW   45 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTT--CCCC
T ss_pred             ecCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCC--CCCC
Confidence            45678999999999999999999999999999999852  3554

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.00  E-value=2.4e-06  Score=59.48  Aligned_cols=40  Identities=38%  Similarity=0.728  Sum_probs=32.2

Q ss_pred             ccCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhc
Q psy8938          28 LVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK   67 (75)
Q Consensus        28 ~v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~   67 (75)
                      .+..+.++++|+||+|++.+++.|++.+.+|+.+|++|.+
T Consensus        40 ~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~   79 (355)
T 2qp9_X           40 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG   79 (355)
T ss_dssp             -------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS
T ss_pred             hhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc
Confidence            3456678999999999999999999999999999999987

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.00  E-value=2.5e-06  Score=58.23  Aligned_cols=40  Identities=38%  Similarity=0.745  Sum_probs=36.0

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKS   68 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~   68 (75)
                      +..+.|+++|+||+|++.+++.|++.+.+|+.+|+.|...
T Consensus         8 ~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~   47 (322)
T 3eie_A            8 ILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN   47 (322)
T ss_dssp             SEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTT
T ss_pred             eeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcC
Confidence            3456789999999999999999999999999999999874

>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=97.88  E-value=5.5e-06  Score=59.29  Aligned_cols=39  Identities=38%  Similarity=0.721  Sum_probs=35.7

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhc
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK   67 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~   67 (75)
                      +..+.|+++|+||+|++.+++.|++.+.+|+.+|++|.+
T Consensus       124 i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~  162 (444)
T 2zan_A          124 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG  162 (444)
T ss_dssp             CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG
T ss_pred             eeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc
Confidence            445678999999999999999999999999999999975

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.73  E-value=2.2e-05  Score=51.90  Aligned_cols=43  Identities=33%  Similarity=0.673  Sum_probs=38.4

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      .+.++++|+||+|++.+++.|++.+.+|+.+|+.|..+| +.+|
T Consensus         9 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~   51 (285)
T 3h4m_A            9 DERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVG-IEPP   51 (285)
T ss_dssp             ESSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHC-CCCC
T ss_pred             cCCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcC-CCCC
Confidence            355689999999999999999999999999999999988 4655

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.57  E-value=4.9e-05  Score=50.58  Aligned_cols=41  Identities=29%  Similarity=0.525  Sum_probs=36.1

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSK   69 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~g   69 (75)
                      +..+.++++|+||+|.+.+++.|++.+.+|+.+|++|.+.+
T Consensus        11 ~~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~   51 (297)
T 3b9p_A           11 IVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR   51 (297)
T ss_dssp             TBCCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG
T ss_pred             hccCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC
Confidence            34566789999999999999999999999999999997654

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.46  E-value=5.6e-05  Score=49.12  Aligned_cols=39  Identities=26%  Similarity=0.503  Sum_probs=28.9

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      |+++|+||+|++++++.|++.+.+ +.+|+.|..+| +.+|
T Consensus         1 ~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g-~~~~   39 (262)
T 2qz4_A            1 MGVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLG-AKVP   39 (262)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCCC-------CCCC
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcC-CCCC
Confidence            468999999999999999999887 89999999888 4555

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.34  E-value=0.00013  Score=53.25  Aligned_cols=41  Identities=24%  Similarity=0.560  Sum_probs=36.9

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ..++|+||+|++.+++.|++.+.+|+.+|+.|..+| +.+|+
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g-~~~~~  239 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIG-VKPPR  239 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHT-CCCCC
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcC-CCCCC
Confidence            367899999999999999999999999999999998 46653

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=97.28  E-value=0.00011  Score=50.85  Aligned_cols=40  Identities=25%  Similarity=0.522  Sum_probs=35.1

Q ss_pred             CCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCC
Q psy8938          30 DPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSK   69 (75)
Q Consensus        30 ~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~g   69 (75)
                      ....+.++|+||+|++.+++.|++.+.+|+.+|+.|.+.+
T Consensus        75 ~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~  114 (357)
T 3d8b_A           75 MDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR  114 (357)
T ss_dssp             BCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG
T ss_pred             ccCCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc
Confidence            3455689999999999999999999999999999987654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.27  E-value=0.00011  Score=48.23  Aligned_cols=44  Identities=25%  Similarity=0.434  Sum_probs=37.2

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      ++++.+.++|+||+|++.+++.|++.+.+ +.+|+.|..+| ..+|
T Consensus         1 i~~~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~-~~~~   44 (268)
T 2r62_A            1 INAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLG-AKIP   44 (268)
T ss_dssp             CCCCCCCCCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHS-CCCC
T ss_pred             CCccCCCCCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCC-CCCC
Confidence            35677889999999999999999998876 99999998876 3544

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.26  E-value=0.00031  Score=51.23  Aligned_cols=45  Identities=27%  Similarity=0.586  Sum_probs=38.8

Q ss_pred             cCCC-CCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          29 VDPA-DINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        29 v~p~-~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ..++ .++++|+||+|+++++++|++.+.+ +.+|+.|..+| .++|+
T Consensus         5 ~~~~~~~~~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g-~~~p~   50 (476)
T 2ce7_A            5 YKPSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIG-ARMPK   50 (476)
T ss_dssp             CCCCCSCCCCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTT-CCCCS
T ss_pred             eccCCCCCCCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcC-CCCCC
Confidence            4455 6789999999999999999999887 88999999998 47764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.26  E-value=0.00012  Score=47.86  Aligned_cols=43  Identities=23%  Similarity=0.448  Sum_probs=32.3

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ++.+.++|+||+|++.+++.|++.+.+ +.+|+.|..+| ..+|+
T Consensus         4 ~~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~-~~~~~   46 (257)
T 1lv7_A            4 EDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLG-GKIPK   46 (257)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC------CCCC
T ss_pred             ccCCCCCHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcC-CCCCC
Confidence            455688999999999999999998877 89999998887 35553

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.92  E-value=0.0012  Score=43.04  Aligned_cols=44  Identities=25%  Similarity=0.447  Sum_probs=36.0

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      +.++.|+++|+||+|+++++.++++.+.+ +.++..|...+ +..|
T Consensus         6 ~~~~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~-~~~~   49 (254)
T 1ixz_A            6 VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMG-ARIP   49 (254)
T ss_dssp             --CCCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTT-CCCC
T ss_pred             cccCCCCCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcC-CCCC
Confidence            45677899999999999999999998776 78888998887 3655

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.65  E-value=0.00095  Score=46.46  Aligned_cols=39  Identities=28%  Similarity=0.454  Sum_probs=35.1

Q ss_pred             CCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCC
Q psy8938          31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSK   69 (75)
Q Consensus        31 p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~g   69 (75)
                      ...+.++|+||+|++.+++.|.+.+.+|+.+|+.|.+.+
T Consensus       107 ~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~  145 (389)
T 3vfd_A          107 DNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR  145 (389)
T ss_dssp             CCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG
T ss_pred             ccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccC
Confidence            455688999999999999999999999999999998765

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.44  E-value=0.0022  Score=46.99  Aligned_cols=40  Identities=28%  Similarity=0.524  Sum_probs=35.6

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      ++++|+||+|+++++..+++.+.+ +.+|+.|..+| +++|+
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~-l~~~~~~~~lg-~~ip~   65 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMG-ARIPK   65 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCGGGTTTTS-CCCCS
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHH-hhchhhhhhcc-CCCCc
Confidence            799999999999999999999877 88999999988 47664

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.94  E-value=0.011  Score=38.99  Aligned_cols=44  Identities=25%  Similarity=0.447  Sum_probs=35.6

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAP   74 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~pp   74 (75)
                      +....++++|+||+|++++++.+++.+.+ +.++..|...+ +..|
T Consensus        30 ~~~~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~l~~~~-~~~~   73 (278)
T 1iy2_A           30 VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMG-ARIP   73 (278)
T ss_dssp             CBCCCCCCCGGGSSSCHHHHHHHHHHHHH-HHCHHHHHHTT-CCCC
T ss_pred             cccCCCCCCHHHhCChHHHHHHHHHHHHH-HHCHHHHHHcC-CCCC
Confidence            34555899999999999999999998765 77888888877 3554

>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=95.65  E-value=0.0017  Score=53.59  Aligned_cols=36  Identities=11%  Similarity=0.037  Sum_probs=22.4

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccC----------HHHHhc
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKH----------KEMFAK   67 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~----------p~~f~~   67 (75)
                      +.+.++|+||||++++|+.+.+.+.||+.+          |+.|+.
T Consensus      1013 ~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1058 (1706)
T 3cmw_A         1013 SASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSM 1058 (1706)
T ss_dssp             -----------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGG
T ss_pred             ccCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhc
Confidence            445799999999999999999999999955          778876

>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=95.33  E-value=0.0038  Score=45.45  Aligned_cols=32  Identities=19%  Similarity=0.278  Sum_probs=9.6

Q ss_pred             cccchHHHHHh------ccccCCCCCCcchhhccCcHH
Q psy8938          15 DSFTDHEMSIA------SHLVDPADINVSWEHIAGLDG   46 (75)
Q Consensus        15 ~~~~~~e~~ia------~~~v~p~~~~v~w~dIgGl~~   46 (75)
                      ++.++|+.++.      ...+..+.|+|+|+||||..+
T Consensus       447 vt~edf~~Al~~~~ps~~re~~~e~p~v~W~dig~~~~  484 (489)
T 3hu3_A          447 VTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGRSH  484 (489)
T ss_dssp             BCHHHHHHHHTSHHHHHHHGGGC---------------
T ss_pred             CCHHHHHHHHHhCCchhhhcccccCCCCCHHHcCCCcc
Confidence            45667777653      233556788999999999864

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=83.41  E-value=0.72  Score=30.20  Aligned_cols=31  Identities=13%  Similarity=0.133  Sum_probs=25.6

Q ss_pred             hhhccCcHHHHHHHHHHhhccccCHHHHhcCC
Q psy8938          38 WEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSK   69 (75)
Q Consensus        38 w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~g   69 (75)
                      |.||+|++.+++.|.+.+.++. .+..+.++|
T Consensus        30 ~~~i~G~~~~~~~l~~~~~~~~-~~~~~~~~g   60 (309)
T 3syl_A           30 DRELIGLKPVKDRIRETAALLL-VERARQKLG   60 (309)
T ss_dssp             HHHSSSCHHHHHHHHHHHHHHH-HHHHHHHHT
T ss_pred             HHHccChHHHHHHHHHHHHHHH-hHHHHHHcC
Confidence            5589999999999999998855 477776666

---

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	75
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	8e-07
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	1e-06
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-05
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	9e-05

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

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 = 42.1 bits (98), Expect = 8e-07
 Identities = 12/36 (33%), Positives = 23/36 (63%)

Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKL 70
           V+WE I GL+   ++L++ V +P++H + F K  +
Sbjct: 3  QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGM 38

>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 = 41.5 bits (96), Expect = 1e-06
 Identities = 7/32 (21%), Positives = 16/32 (50%)

Query: 36 VSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
          V ++ + G    +  +K+ V  P++H  +F  
Sbjct: 1  VGYDDVGGCRKQLAQIKEMVELPLRHPALFKA 32

>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 = 38.7 bits (90), Expect = 1e-05
 Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 2/48 (4%)

Query: 28 LVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
          ++    I  ++  +AG D   +++ + V + ++    F K    K PK
Sbjct: 1  MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGG-KIPK 46

>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 = 36.4 bits (84), Expect = 9e-05
 Identities = 11/41 (26%), Positives = 23/41 (56%), Gaps = 2/41 (4%)

Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
           V+++ +AG +   ++LK+ V F +K+   F +    + PK
Sbjct: 5  KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGA-RIPK 43

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	75
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.94
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.71
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.7
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.54
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	91.61
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	88.54

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.94  E-value=1.9e-10  Score=75.84  Aligned_cols=39  Identities=23%  Similarity=0.597  Sum_probs=36.8

Q ss_pred             cchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          36 VSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        36 v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      |+|+||||++++|+.|++.|.+|+++|+.|.++| +.+|+
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g-~~~~~   39 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIG-VKPPR   39 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCC-CCCCC
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCC-CCCCc
Confidence            6899999999999999999999999999999999 58875

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.71  E-value=5.4e-09  Score=68.79  Aligned_cols=42  Identities=26%  Similarity=0.497  Sum_probs=37.2

Q ss_pred             CCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          32 ADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        32 ~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.|+|+|+||||++++|+.|++.+.+ +.+|+.|.++| ..+|+
T Consensus         2 ~~p~~~~~di~G~~~~k~~l~~~i~~-l~~~~~~~~~g-~~~~~   43 (247)
T d1ixza_           2 EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMG-ARIPK   43 (247)
T ss_dssp             CCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTT-CCCCS
T ss_pred             CCCCCcHHHHccHHHHHHHHHHHHHH-HHCHHHHHHcC-CCCCc
Confidence            57899999999999999999997765 99999999999 57764

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.70  E-value=2.3e-09  Score=71.04  Aligned_cols=45  Identities=22%  Similarity=0.441  Sum_probs=35.1

Q ss_pred             cCCCCCCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        29 v~p~~~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      +.+..++|+|+||||++++|++|++.|.+ +.+|+.|.++| ..+|+
T Consensus         2 ~~~~~~~~t~~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g-~~~~~   46 (256)
T d1lv7a_           2 LTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLG-GKIPK   46 (256)
T ss_dssp             EEECSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC------CCCC
T ss_pred             CCCCCCCCCHHHHhchHHHHHHHHHHHHH-HHCHHHHHHcC-CCCCC
Confidence            34567899999999999999999999876 99999999999 57765

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.54  E-value=3.9e-09  Score=69.77  Aligned_cols=41  Identities=32%  Similarity=0.667  Sum_probs=38.0

Q ss_pred             CCcchhhccCcHHHHHHHHHHhhccccCHHHHhcCCCCCCCC
Q psy8938          34 INVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK   75 (75)
Q Consensus        34 ~~v~w~dIgGl~~~k~~L~e~v~~Pl~~p~~f~~~gl~~ppk   75 (75)
                      |+++|+||||++++|++|++.|.+|+.+|+.|..+| +.+|+
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g-~~~~~   42 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFG-MTPSK   42 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCC-CCCCC
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCC-CCCCC
Confidence            689999999999999999999999999999999999 46664

>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=91.61  E-value=0.016  Score=35.62  Aligned_cols=23  Identities=17%  Similarity=0.185  Sum_probs=20.4

Q ss_pred             chhhccCcHHHHHHHHHHhhccc
Q psy8938          37 SWEHIAGLDGTIKDLKQTVIFPI   59 (75)
Q Consensus        37 ~w~dIgGl~~~k~~L~e~v~~Pl   59 (75)
                      +|+||.|++++++.|++++..+.
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~   29 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAK   29 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHH
T ss_pred             cHHHcCChHHHHHHHHHHHHHHH
Confidence            59999999999999999987654

>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=88.54  E-value=0.044  Score=33.53  Aligned_cols=23  Identities=9%  Similarity=0.089  Sum_probs=20.4

Q ss_pred             chhhccCcHHHHHHHHHHhhccc
Q psy8938          37 SWEHIAGLDGTIKDLKQTVIFPI   59 (75)
Q Consensus        37 ~w~dIgGl~~~k~~L~e~v~~Pl   59 (75)
                      +|+||.|++++++.|++++.+..
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~   29 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAK   29 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHT
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHH
Confidence            59999999999999999987643