Psyllid ID: psy4539

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80----
Protein Sequence
MDVDMPSGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKDK
Secondary Structure (PSIPRED)
cccccccccccccccccHHHHHcccccHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcHcccHHHHcccccccccc
Coil and Loop (DISEMBL)
mdvdmpsgprgkelepelederYKGIDKVMIERIENEimdqgkpvtwddiagLTFAKQTIQEVIvwpmlrpdiftglrrppkdk
Flexible Loop (DISEMBL)
mdvdmpsgprgkelepelederykgIDKVMIERIENeimdqgkpvTWDDIAGLTFAKQTIqevivwpmlrpdiftglrrppkdk
Low Complexity Region (SEG)
MDVDMPSGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKDK
Disordered region (IsUnstruct)
************************GIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGL*******
Disordered Region (DISOPRED)
******************************IERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPP***
Disordered Region (DISEMBL)
*****************LEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKDK
Disordered Region (DISPRO)
*****************LEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDVDMPSGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKDK
Positional Conservation
no confident homologs detected

---

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	84	2.2.26 [Sep-21-2011]
A4IHT0	656	Fidgetin-like protein 1 O	yes	N/A	0.75	0.096	0.714	2e-21
Q6GX84	677	Fidgetin-like protein 1 O	yes	N/A	0.916	0.113	0.589	2e-21
Q6DDU8	655	Fidgetin-like protein 1 O	N/A	N/A	0.75	0.096	0.698	1e-20
Q6PIW4	674	Fidgetin-like protein 1 O	yes	N/A	0.75	0.093	0.698	1e-20
Q8BPY9	683	Fidgetin-like protein 1 O	yes	N/A	0.869	0.106	0.608	3e-20
Q54KQ7	655	Spastin OS=Dictyostelium	yes	N/A	0.702	0.090	0.593	3e-15
Q5HY92	759	Fidgetin OS=Homo sapiens	no	N/A	0.75	0.083	0.476	4e-12
Q9ERZ6	759	Fidgetin OS=Mus musculus	no	N/A	0.75	0.083	0.476	6e-12
Q503S1	736	Fidgetin OS=Danio rerio G	no	N/A	0.75	0.085	0.460	6e-12
Q60QD1	591	Fidgetin-like protein 1 O	N/A	N/A	0.976	0.138	0.402	5e-11

>sp|A4IHT0|FIGL1_XENTR Fidgetin-like protein 1 OS=Xenopus tropicalis GN=fignl1 PE=2 SV=1

 Score =  101 bits (251), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 45/63 (71%), Positives = 51/63 (80%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DER K I+  MIE I +EIMD G P+ WDDIAGL FAK TI+E++VWPMLRPDIFTGLR 
Sbjct: 355 DERLKNIEPKMIELIMSEIMDHGPPLNWDDIAGLEFAKTTIKEIVVWPMLRPDIFTGLRG 414

Query: 80  PPK 82
           PPK
Sbjct: 415 PPK 417

Xenopus tropicalis (taxid: 8364)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: -

>sp|Q6GX84|FIGL1_RAT Fidgetin-like protein 1 OS=Rattus norvegicus GN=Fignl1 PE=2 SV=1

 Score =  100 bits (249), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 46/78 (58%), Positives = 56/78 (71%), Gaps = 1/78 (1%)

Query: 6   PSGPRGKELEP-ELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVI 64
           P   R    EP  L D+R K ++  M+E I NEIMD G PV W+DIAG+ FAK TI+E++
Sbjct: 361 PKSSRAGSAEPAHLTDDRLKNVEPRMVELIMNEIMDHGPPVHWEDIAGVEFAKATIKEIV 420

Query: 65  VWPMLRPDIFTGLRRPPK 82
           VWPM+RPDIFTGLR PPK
Sbjct: 421 VWPMMRPDIFTGLRGPPK 438

May regulate osteoblast proliferation and differentiation.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|Q6DDU8|FIGL1_XENLA Fidgetin-like protein 1 OS=Xenopus laevis GN=fignl1 PE=2 SV=1

 Score = 98.6 bits (244), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 44/63 (69%), Positives = 50/63 (79%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DE  K I+  MIE I +EIMD G P+ WDDIAGL FAK TI+E++VWPMLRPDIFTGLR 
Sbjct: 354 DEHLKNIEPKMIELIMSEIMDHGPPLNWDDIAGLEFAKTTIKEIVVWPMLRPDIFTGLRG 413

Query: 80  PPK 82
           PPK
Sbjct: 414 PPK 416

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|Q6PIW4|FIGL1_HUMAN Fidgetin-like protein 1 OS=Homo sapiens GN=FIGNL1 PE=1 SV=2

 Score = 98.2 bits (243), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 44/63 (69%), Positives = 51/63 (80%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DER K ++  MIE I NEIMD G PV W+DIAG+ FAK TI+E++VWPMLRPDIFTGLR 
Sbjct: 373 DERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRG 432

Query: 80  PPK 82
           PPK
Sbjct: 433 PPK 435

May regulate osteoblast proliferation and differentiation.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|Q8BPY9|FIGL1_MOUSE Fidgetin-like protein 1 OS=Mus musculus GN=Fignl1 PE=2 SV=1

 Score = 97.1 bits (240), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 45/74 (60%), Positives = 54/74 (72%), Gaps = 1/74 (1%)

Query: 10  RGKELEP-ELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPM 68
           R    EP  L D+  K ++  M+E I NEIMD G PV WDDIAG+ FAK TI+E++VWPM
Sbjct: 371 RAGSAEPAHLTDDCLKNVEPRMVELIMNEIMDHGPPVHWDDIAGVEFAKATIKEIVVWPM 430

Query: 69  LRPDIFTGLRRPPK 82
           +RPDIFTGLR PPK
Sbjct: 431 MRPDIFTGLRGPPK 444

May regulate osteoblast proliferation and differentiation.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|Q54KQ7|SPAST_DICDI Spastin OS=Dictyostelium discoideum GN=DDB_G0287165 PE=3 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 35/59 (59%), Positives = 43/59 (72%)

Query: 24  KGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK 82
           KGIDK M+  I NEIMD+  PV WDD+ GL   KQ++ E ++ P LRPD+FTGLR PPK
Sbjct: 360 KGIDKSMVTLIMNEIMDRKNPVKWDDVVGLDKVKQSLMESVILPNLRPDVFTGLRAPPK 418

ATP-dependent microtubule severing protein. Microtubule severing may promote reorganization of cellular microtubule arrays and the release of microtubules from the microtubule organizing center following nucleation.

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 3

>sp|Q5HY92|FIGN_HUMAN Fidgetin OS=Homo sapiens GN=FIGN PE=2 SV=2

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 30/63 (47%), Positives = 42/63 (66%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DE+ K  D  +I+ + NEI+ QG PV W+DIAGL   K  I+E ++WP+LR D F+GL  
Sbjct: 458 DEQLKNTDTHLIDLVTNEIITQGPPVDWNDIAGLDLVKAVIKEEVLWPVLRSDAFSGLTA 517

Query: 80  PPK 82
            P+
Sbjct: 518 LPR 520

Homo sapiens (taxid: 9606)

>sp|Q9ERZ6|FIGN_MOUSE Fidgetin OS=Mus musculus GN=Fign PE=1 SV=1

 Score = 69.3 bits (168), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 30/63 (47%), Positives = 41/63 (65%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DE+ K  D  +I+ + NEI+ QG PV W DIAGL   K  I+E ++WP+LR D F+GL  
Sbjct: 458 DEQLKNTDTHLIDLVTNEIITQGPPVDWSDIAGLDLVKAVIKEEVLWPVLRSDAFSGLTA 517

Query: 80  PPK 82
            P+
Sbjct: 518 LPR 520

Mus musculus (taxid: 10090)

>sp|Q503S1|FIGN_DANRE Fidgetin OS=Danio rerio GN=fign PE=2 SV=1

 Score = 69.3 bits (168), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 29/63 (46%), Positives = 43/63 (68%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           +E+ K  D  ++E +  EI+ Q  PV W DIAGL  AK TI++ ++WP+LRPD+F+GL  
Sbjct: 436 EEQLKNSDANLVEMVTTEILQQTSPVDWSDIAGLEMAKATIKDEVLWPILRPDMFSGLAT 495

Query: 80  PPK 82
            P+
Sbjct: 496 LPR 498

Danio rerio (taxid: 7955)

>sp|Q60QD1|FIGL1_CAEBR Fidgetin-like protein 1 OS=Caenorhabditis briggsae GN=figl-1 PE=3 SV=1

 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 49/82 (59%)

Query: 1   MDVDMPSGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTI 60
           M +D   G + + ++    +   K  D+ +I  IE+EIM     + W D+AGL  AK+ +
Sbjct: 269 MGMDTDGGGKDERMDGLRSEPTLKHFDENIISLIESEIMSVNNQIGWADVAGLEGAKKAL 328

Query: 61  QEVIVWPMLRPDIFTGLRRPPK 82
           +E++V P  RPDIFTGLR PPK
Sbjct: 329 KEIVVLPFQRPDIFTGLRAPPK 350

Has a role in spindle assembly which acts in the progression through mitosis during embryogenesis. Required for fertility.

Caenorhabditis briggsae (taxid: 6238)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

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	84
242013724	563	Katanin p60 ATPase-containing subunit, p	0.785	0.117	0.712	9e-21
321464991	617	hypothetical protein DAPPUDRAFT_322816 [	0.75	0.102	0.746	1e-20
405969351	1706	Fidgetin-like protein 1 [Crassostrea gig	0.880	0.043	0.666	1e-20
410900546	619	PREDICTED: fidgetin-like protein 1-like	0.857	0.116	0.652	2e-20
291234534	687	PREDICTED: fidgetin-like protein 1-like	0.845	0.103	0.661	2e-20
307207298	664	Fidgetin-like protein 1 [Harpegnathos sa	0.857	0.108	0.680	4e-20
327274995	688	PREDICTED: fidgetin-like protein 1-like	0.75	0.091	0.698	4e-20
387915892	724	fidgetin-like protein 1-like protein [Ca	0.75	0.087	0.698	4e-20
322796137	642	hypothetical protein SINV_04239 [Solenop	0.785	0.102	0.696	4e-20
440892952	683	Fidgetin-like protein 1, partial [Bos gr	0.75	0.092	0.714	5e-20

>gi|242013724|ref|XP_002427552.1| Katanin p60 ATPase-containing subunit, putative [Pediculus humanus corporis] gi|212511954|gb|EEB14814.1| Katanin p60 ATPase-containing subunit, putative [Pediculus humanus corporis]

 Score =  104 bits (259), Expect = 9e-21,   Method: Composition-based stats.
 Identities = 47/66 (71%), Positives = 54/66 (81%)

Query: 17  ELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTG 76
           E+ DER K ID  MIE I++EIMD G  +TW+DIAGL  AK TIQE++VWPMLRPDIFTG
Sbjct: 256 EVVDERLKNIDPAMIELIKSEIMDCGSKITWNDIAGLELAKSTIQEIVVWPMLRPDIFTG 315

Query: 77  LRRPPK 82
           LRRPPK
Sbjct: 316 LRRPPK 321

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321464991|gb|EFX75995.1| hypothetical protein DAPPUDRAFT_322816 [Daphnia pulex]

 Score =  103 bits (257), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 47/63 (74%), Positives = 53/63 (84%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DER K I+  M+E IENEIMD G PV WDDIAGL FAK+TIQE++VWPMLRPDIFTGLR 
Sbjct: 315 DERLKNIEPRMVELIENEIMDNGSPVNWDDIAGLEFAKKTIQEIVVWPMLRPDIFTGLRG 374

Query: 80  PPK 82
           PP+
Sbjct: 375 PPR 377

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|405969351|gb|EKC34327.1| Fidgetin-like protein 1 [Crassostrea gigas]

 Score =  103 bits (257), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 50/75 (66%), Positives = 60/75 (80%), Gaps = 1/75 (1%)

Query: 8   GPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWP 67
           G  G++ E E+ DER KGI+  MIE I NEIMD G  ++WDDIAGL FAK+TI+E++VWP
Sbjct: 380 GKNGEKGE-EVTDERLKGIEPKMIELIMNEIMDHGPQLSWDDIAGLEFAKKTIKEIVVWP 438

Query: 68  MLRPDIFTGLRRPPK 82
           MLRPDIFTGLR PPK
Sbjct: 439 MLRPDIFTGLRGPPK 453

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|410900546|ref|XP_003963757.1| PREDICTED: fidgetin-like protein 1-like [Takifugu rubripes]

 Score =  103 bits (256), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 47/72 (65%), Positives = 55/72 (76%)

Query: 11  GKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLR 70
           G   EP++ DER K  +  +IE I +EIMD G PV WDDIAGL FAK TI+E++VWPMLR
Sbjct: 309 GSNKEPQILDERLKNFEPKIIELIMSEIMDHGPPVVWDDIAGLEFAKTTIKEIVVWPMLR 368

Query: 71  PDIFTGLRRPPK 82
           PDIFTGLR PPK
Sbjct: 369 PDIFTGLRGPPK 380

Source: Takifugu rubripes

Species: Takifugu rubripes

Genus: Takifugu

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|291234534|ref|XP_002737206.1| PREDICTED: fidgetin-like protein 1-like [Saccoglossus kowalevskii]

 Score =  102 bits (255), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 47/71 (66%), Positives = 54/71 (76%)

Query: 12  KELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRP 71
           K+   E+ DER K I+  MIE I NEIMD G PV WDDIAGL FAK TI+E+++WPMLRP
Sbjct: 377 KDESDEIVDERLKNIEPKMIELISNEIMDHGAPVAWDDIAGLQFAKSTIKEIVIWPMLRP 436

Query: 72  DIFTGLRRPPK 82
           DIF GLR PPK
Sbjct: 437 DIFNGLRGPPK 447

Source: Saccoglossus kowalevskii

Species: Saccoglossus kowalevskii

Genus: Saccoglossus

Family: Harrimaniidae

Class: Enteropneusta

Phylum: Hemichordata

Superkingdom: Eukaryota

>gi|307207298|gb|EFN85048.1| Fidgetin-like protein 1 [Harpegnathos saltator]

 Score =  102 bits (253), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 49/72 (68%), Positives = 55/72 (76%)

Query: 11  GKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLR 70
           G     E+EDER K ID  MIE I NEIMD  K VTWDDIAGL + K+ I+EV+V+PMLR
Sbjct: 348 GANSTEEVEDERLKNIDPNMIELIRNEIMDSDKSVTWDDIAGLEYTKKIIKEVVVFPMLR 407

Query: 71  PDIFTGLRRPPK 82
           PDIFTGLRRPPK
Sbjct: 408 PDIFTGLRRPPK 419

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|327274995|ref|XP_003222259.1| PREDICTED: fidgetin-like protein 1-like [Anolis carolinensis]

 Score =  102 bits (253), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 44/63 (69%), Positives = 52/63 (82%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DER K I+  +IE + NEIMD G P+TWDDIAG+ FAK TI+E++VWPMLRPDIFTGLR 
Sbjct: 387 DERLKNIEPKLIELVMNEIMDHGPPITWDDIAGVEFAKATIKEIVVWPMLRPDIFTGLRG 446

Query: 80  PPK 82
           PPK
Sbjct: 447 PPK 449

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Phylum: Chordata

Superkingdom: Eukaryota

>gi|387915892|gb|AFK11555.1| fidgetin-like protein 1-like protein [Callorhinchus milii]

 Score =  101 bits (252), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 44/63 (69%), Positives = 51/63 (80%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DER K ++  MI+ I +EIMD G PV WDDIAGL FAK TI+E++VWPMLRPDIFTGLR 
Sbjct: 423 DERLKNLEPKMIQLIMSEIMDHGPPVNWDDIAGLEFAKSTIKEIVVWPMLRPDIFTGLRG 482

Query: 80  PPK 82
           PPK
Sbjct: 483 PPK 485

Source: Callorhinchus milii

Species: Callorhinchus milii

Genus: Callorhinchus

Family: Callorhinchidae

Order: Chimaeriformes

Class: Chondrichthyes

Phylum: Chordata

Superkingdom: Eukaryota

>gi|322796137|gb|EFZ18713.1| hypothetical protein SINV_04239 [Solenopsis invicta]

 Score =  101 bits (252), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 46/66 (69%), Positives = 56/66 (84%)

Query: 17  ELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTG 76
           E+EDER + ID  MIE I+NEIMD GK +TWDDIAGL + K+ ++EV+V+PMLRPDIFTG
Sbjct: 336 EVEDERLRNIDPNMIELIKNEIMDSGKTITWDDIAGLEYIKKIVKEVVVFPMLRPDIFTG 395

Query: 77  LRRPPK 82
           LRRPPK
Sbjct: 396 LRRPPK 401

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|440892952|gb|ELR45929.1| Fidgetin-like protein 1, partial [Bos grunniens mutus]

 Score =  101 bits (252), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 45/63 (71%), Positives = 52/63 (82%)

Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DER K ++  MIE I NEIMDQG PV W+DIAG+ FAK TI+E++VWPMLRPDIFTGLR 
Sbjct: 382 DERLKNLEPRMIELIMNEIMDQGPPVNWEDIAGVEFAKTTIKEIVVWPMLRPDIFTGLRG 441

Query: 80  PPK 82
           PPK
Sbjct: 442 PPK 444

Source: Bos grunniens mutus

Species: Bos grunniens

Genus: Bos

Family: Bovidae

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	84
RGD|1307112	677	Fignl1 "fidgetin-like 1" [Ratt	0.916	0.113	0.589	5.1e-20
UNIPROTKB|F1MNE5	683	FIGNL1 "Uncharacterized protei	0.75	0.092	0.714	8.4e-20
UNIPROTKB|A4IHT0	656	fignl1 "Fidgetin-like protein	0.75	0.096	0.714	1.6e-19
ZFIN|ZDB-GENE-030131-1862	661	fignl1 "fidgetin-like 1" [Dani	0.821	0.104	0.647	1.7e-19
UNIPROTKB|Q6PIW4	674	FIGNL1 "Fidgetin-like protein	0.75	0.093	0.698	2.2e-19
UNIPROTKB|J9P4P7	676	FIGNL1 "Uncharacterized protei	0.75	0.093	0.682	3.7e-19
UNIPROTKB|Q6DDU8	655	fignl1 "Fidgetin-like protein	0.75	0.096	0.698	5.7e-19
UNIPROTKB|I3LS61	675	FIGNL1 "Uncharacterized protei	0.75	0.093	0.682	6e-19
UNIPROTKB|D2H7A7	676	FIGNL1 "Uncharacterized protei	0.75	0.093	0.666	6e-19
MGI|MGI:1890648	683	Fignl1 "fidgetin-like 1" [Mus	0.869	0.106	0.608	6.1e-19

RGD|1307112 Fignl1 "fidgetin-like 1" [Rattus norvegicus (taxid:10116)]

 Score = 247 (92.0 bits), Expect = 5.1e-20, P = 5.1e-20
 Identities = 46/78 (58%), Positives = 56/78 (71%)

Query:     6 PSGPRGKELEP-ELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVI 64
             P   R    EP  L D+R K ++  M+E I NEIMD G PV W+DIAG+ FAK TI+E++
Sbjct:   361 PKSSRAGSAEPAHLTDDRLKNVEPRMVELIMNEIMDHGPPVHWEDIAGVEFAKATIKEIV 420

Query:    65 VWPMLRPDIFTGLRRPPK 82
             VWPM+RPDIFTGLR PPK
Sbjct:   421 VWPMMRPDIFTGLRGPPK 438

GO:0000287 "magnesium ion binding" evidence=ISS

GO:0001649 "osteoblast differentiation" evidence=ISO;ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO;ISS

GO:0005737 "cytoplasm" evidence=ISO;ISS

GO:0016787 "hydrolase activity" evidence=ISS

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

GO:0033687 "osteoblast proliferation" evidence=ISO;ISS

GO:0043066 "negative regulation of apoptotic process" evidence=ISO;ISS

GO:0046034 "ATP metabolic process" evidence=ISS

GO:0051726 "regulation of cell cycle" evidence=ISO;ISS

UNIPROTKB|F1MNE5 FIGNL1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 245 (91.3 bits), Expect = 8.4e-20, P = 8.4e-20
 Identities = 45/63 (71%), Positives = 52/63 (82%)

Query:    20 DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
             DER K ++  MIE I NEIMDQG PV W+DIAG+ FAK TI+E++VWPMLRPDIFTGLR 
Sbjct:   382 DERLKNLEPRMIELIMNEIMDQGPPVNWEDIAGVEFAKTTIKEIVVWPMLRPDIFTGLRG 441

Query:    80 PPK 82
             PPK
Sbjct:   442 PPK 444

GO:0051726 "regulation of cell cycle" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0033687 "osteoblast proliferation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|A4IHT0 fignl1 "Fidgetin-like protein 1" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 242 (90.2 bits), Expect = 1.6e-19, P = 1.6e-19
 Identities = 45/63 (71%), Positives = 51/63 (80%)

Query:    20 DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
             DER K I+  MIE I +EIMD G P+ WDDIAGL FAK TI+E++VWPMLRPDIFTGLR 
Sbjct:   355 DERLKNIEPKMIELIMSEIMDHGPPLNWDDIAGLEFAKTTIKEIVVWPMLRPDIFTGLRG 414

Query:    80 PPK 82
             PPK
Sbjct:   415 PPK 417

GO:0000287 "magnesium ion binding" evidence=ISS

GO:0016787 "hydrolase activity" evidence=ISS

GO:0046034 "ATP metabolic process" evidence=ISS

ZFIN|ZDB-GENE-030131-1862 fignl1 "fidgetin-like 1" [Danio rerio (taxid:7955)]

 Score = 242 (90.2 bits), Expect = 1.7e-19, P = 1.7e-19
 Identities = 46/71 (64%), Positives = 55/71 (77%)

Query:    12 KELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRP 71
             K+++P   DER K  +  +IE I +EIMD G PV WDDIAGL FAK TI+E++VWPMLRP
Sbjct:   354 KDMQPV--DERLKNFEPKIIELIMSEIMDHGPPVAWDDIAGLEFAKATIKEIVVWPMLRP 411

Query:    72 DIFTGLRRPPK 82
             DIFTGLR PPK
Sbjct:   412 DIFTGLRGPPK 422

GO:0005524 "ATP binding" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q6PIW4 FIGNL1 "Fidgetin-like protein 1" [Homo sapiens (taxid:9606)]

 Score = 241 (89.9 bits), Expect = 2.2e-19, P = 2.2e-19
 Identities = 44/63 (69%), Positives = 51/63 (80%)

Query:    20 DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
             DER K ++  MIE I NEIMD G PV W+DIAG+ FAK TI+E++VWPMLRPDIFTGLR 
Sbjct:   373 DERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRG 432

Query:    80 PPK 82
             PPK
Sbjct:   433 PPK 435

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

GO:0005524 "ATP binding" evidence=IEA

GO:0000287 "magnesium ion binding" evidence=ISS

GO:0016787 "hydrolase activity" evidence=ISS

GO:0046034 "ATP metabolic process" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0051726 "regulation of cell cycle" evidence=ISS

GO:0033687 "osteoblast proliferation" evidence=ISS

GO:0001649 "osteoblast differentiation" evidence=ISS

GO:0043066 "negative regulation of apoptotic process" evidence=ISS

UNIPROTKB|J9P4P7 FIGNL1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 239 (89.2 bits), Expect = 3.7e-19, P = 3.7e-19
 Identities = 43/63 (68%), Positives = 51/63 (80%)

Query:    20 DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
             DER K ++  MIE I NEIMD G PV W+DIAG+ FAK TI+E++VWPM+RPDIFTGLR 
Sbjct:   375 DERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMMRPDIFTGLRG 434

Query:    80 PPK 82
             PPK
Sbjct:   435 PPK 437

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q6DDU8 fignl1 "Fidgetin-like protein 1" [Xenopus laevis (taxid:8355)]

 Score = 237 (88.5 bits), Expect = 5.7e-19, P = 5.7e-19
 Identities = 44/63 (69%), Positives = 50/63 (79%)

Query:    20 DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
             DE  K I+  MIE I +EIMD G P+ WDDIAGL FAK TI+E++VWPMLRPDIFTGLR 
Sbjct:   354 DEHLKNIEPKMIELIMSEIMDHGPPLNWDDIAGLEFAKTTIKEIVVWPMLRPDIFTGLRG 413

Query:    80 PPK 82
             PPK
Sbjct:   414 PPK 416

GO:0000287 "magnesium ion binding" evidence=ISS

GO:0016787 "hydrolase activity" evidence=ISS

GO:0046034 "ATP metabolic process" evidence=ISS

UNIPROTKB|I3LS61 FIGNL1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 237 (88.5 bits), Expect = 6.0e-19, P = 6.0e-19
 Identities = 43/63 (68%), Positives = 51/63 (80%)

Query:    20 DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
             DER K ++  MIE I NEIMD G PV W+DIAG+ FAK TI+E++VWPM+RPDIFTGLR 
Sbjct:   374 DERLKSLEPKMIELIMNEIMDHGPPVHWEDIAGVEFAKATIKEIVVWPMMRPDIFTGLRG 433

Query:    80 PPK 82
             PPK
Sbjct:   434 PPK 436

GO:0051726 "regulation of cell cycle" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0033687 "osteoblast proliferation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|D2H7A7 FIGNL1 "Uncharacterized protein" [Ailuropoda melanoleuca (taxid:9646)]

 Score = 237 (88.5 bits), Expect = 6.0e-19, P = 6.0e-19
 Identities = 42/63 (66%), Positives = 52/63 (82%)

Query:    20 DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
             DER + ++  MIE I NEIMD G PV+W+DIAG+ FAK TI+E++VWPM+RPDIFTGLR 
Sbjct:   375 DERLRNLEPKMIELIMNEIMDHGPPVSWEDIAGVEFAKATIKEIVVWPMMRPDIFTGLRG 434

Query:    80 PPK 82
             PPK
Sbjct:   435 PPK 437

GO:0001649 "osteoblast differentiation" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0033687 "osteoblast proliferation" evidence=ISS

GO:0043066 "negative regulation of apoptotic process" evidence=ISS

GO:0051726 "regulation of cell cycle" evidence=ISS

MGI|MGI:1890648 Fignl1 "fidgetin-like 1" [Mus musculus (taxid:10090)]

 Score = 237 (88.5 bits), Expect = 6.1e-19, P = 6.1e-19
 Identities = 45/74 (60%), Positives = 54/74 (72%)

Query:    10 RGKELEP-ELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPM 68
             R    EP  L D+  K ++  M+E I NEIMD G PV WDDIAG+ FAK TI+E++VWPM
Sbjct:   371 RAGSAEPAHLTDDCLKNVEPRMVELIMNEIMDHGPPVHWDDIAGVEFAKATIKEIVVWPM 430

Query:    69 LRPDIFTGLRRPPK 82
             +RPDIFTGLR PPK
Sbjct:   431 MRPDIFTGLRGPPK 444

GO:0000166 "nucleotide binding" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IMP

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0033687 "osteoblast proliferation" evidence=IMP

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

GO:0051726 "regulation of cell cycle" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q54KQ7	SPAST_DICDI	3, ., 6, ., 4, ., 3	0.5932	0.7023	0.0900	yes	N/A
A4IHT0	FIGL1_XENTR	3, ., 6, ., 4, ., -	0.7142	0.75	0.0960	yes	N/A
Q6PIW4	FIGL1_HUMAN	3, ., 6, ., 4, ., -	0.6984	0.75	0.0934	yes	N/A
Q9VQN8	FIGL1_DROME	3, ., 6, ., 4, ., -	0.5087	0.6785	0.1089	yes	N/A
Q6GX84	FIGL1_RAT	3, ., 6, ., 4, ., -	0.5897	0.9166	0.1137	yes	N/A
Q8BPY9	FIGL1_MOUSE	3, ., 6, ., 4, ., -	0.6081	0.8690	0.1068	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	84
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-07
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	7e-05
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	3e-04
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	0.001

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

 Score = 46.7 bits (111), Expect = 1e-07
 Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 4/71 (5%)

Query: 13  ELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPD 72
           E     ED+  + + KV+  R      +    VT DDI GL  AK+ ++E I  P+ RP+
Sbjct: 210 EYIGVTEDDFEEALKKVLPSRGVLFEDE---DVTLDDIGGLEEAKEELKEAIETPLKRPE 266

Query: 73  IFTGL-RRPPK 82
           +F  L  RPPK
Sbjct: 267 LFRKLGLRPPK 277

Length = 494

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

 Score = 38.7 bits (90), Expect = 7e-05
 Identities = 19/47 (40%), Positives = 28/47 (59%), Gaps = 1/47 (2%)

Query: 37  EIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPK 82
           E++ +   V W DI GL   KQ ++E + WP+  P+IF  +  RPPK
Sbjct: 442 EVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPK 488

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|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 37.2 bits (86), Expect = 3e-04
 Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 5/52 (9%)

Query: 32  ERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPK 82
           E IE ++      VT++DI GL  AK+ I+E++  PM  P++F  L   PPK
Sbjct: 166 EEIERKVPK----VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPK 213

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

 Score = 35.3 bits (82), Expect = 0.001
 Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)

Query: 45  VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPK 82
           VT++DI GL    Q I+EV+  P+  P++F  L   PPK
Sbjct: 148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPK 186

Length = 406

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	84
KOG0730|consensus	693		99.62
KOG0733|consensus	802		99.55
KOG0738|consensus	491		99.48
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.39
KOG0739|consensus	439		99.38
KOG0736|consensus	953		99.21
KOG0735|consensus	952		99.11
KOG0726|consensus	440		99.04
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.03
KOG0652|consensus	424		98.99
KOG0727|consensus	408		98.94
KOG0729|consensus	435		98.93
KOG0740|consensus	428		98.91
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.87
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	98.84
KOG0737|consensus	386		98.72
KOG0728|consensus	404		98.69
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.61
KOG0732|consensus	1080		98.57
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.51
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.45
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.3
KOG0731|consensus	774		98.28
KOG0734|consensus	752		98.13
KOG0733|consensus	802		98.08
KOG0651|consensus	388		97.99
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.99
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.55
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	97.53
KOG0730|consensus	693		96.85
CHL00176	638	ftsH cell division protein; Validated	96.6
CHL00195	489	ycf46 Ycf46; Provisional	94.48
CHL00181	287	cbbX CbbX; Provisional	92.56
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	90.62
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	88.34
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	87.81

>KOG0730|consensus

Probab=99.62  E-value=3.7e-16  Score=123.41  Aligned_cols=65  Identities=34%  Similarity=0.621  Sum_probs=62.8

Q ss_pred             CHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          15 EPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        15 ~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +.++|..|+..+.|++    +|+++.+.|+|+|+|||||+++|++|+++|+||++||+.|.++| +||||
T Consensus       405 ~~~~~~~A~~~i~psa----~Re~~ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkG  470 (693)
T KOG0730|consen  405 TLEIFQEALMGIRPSA----LREILVEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKG  470 (693)
T ss_pred             hHHHHHHHHhcCCchh----hhheeccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCce
Confidence            5679999999999999    79999999999999999999999999999999999999999999 99998

>KOG0733|consensus

Probab=99.55  E-value=4.2e-15  Score=117.49  Aligned_cols=68  Identities=28%  Similarity=0.414  Sum_probs=64.8

Q ss_pred             CCCCHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          12 KELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        12 ~~~~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      -.+..+||++|+..++|++    +|+.+...|+|+|+|||||++++.+|+.+|+||++||++|+++| .+|.|
T Consensus       479 L~i~~eDF~~Al~~iQPSa----kREGF~tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsG  547 (802)
T KOG0733|consen  479 LSIKFEDFEEALSKIQPSA----KREGFATVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSG  547 (802)
T ss_pred             ceecHHHHHHHHHhcCcch----hcccceecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCc
Confidence            3468889999999999999    89999999999999999999999999999999999999999999 88887

>KOG0738|consensus

Probab=99.48  E-value=2.6e-14  Score=108.55  Aligned_cols=58  Identities=40%  Similarity=0.788  Sum_probs=55.3

Q ss_pred             CChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCCC
Q psy4539          26 IDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKD   83 (84)
Q Consensus        26 ~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppkG   83 (84)
                      ++.++++.+.++|+.+.|+|+|+||+||+++|+.|+|+|.+|+++|++|+++.+||||
T Consensus       190 ~d~~Lve~lerdIl~~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkg  247 (491)
T KOG0738|consen  190 YDADLVEALERDILQRNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKG  247 (491)
T ss_pred             chHHHHHHHHHHHhccCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccce
Confidence            4557889999999999999999999999999999999999999999999999999998

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

Probab=99.39  E-value=2.4e-13  Score=102.22  Aligned_cols=49  Identities=35%  Similarity=0.598  Sum_probs=45.5

Q ss_pred             HhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          35 ENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        35 ~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .-.-+.+.|+++|+|||||++++++|+|+|++||+||++|+.+| .||||
T Consensus       138 ~~M~v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKG  187 (406)
T COG1222         138 SVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKG  187 (406)
T ss_pred             heeeeccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCc
Confidence            34446789999999999999999999999999999999999999 99998

>KOG0739|consensus

Probab=99.38  E-value=2.6e-13  Score=101.08  Aligned_cols=54  Identities=31%  Similarity=0.661  Sum_probs=49.1

Q ss_pred             HHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCCC
Q psy4539          30 MIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKD   83 (84)
Q Consensus        30 ~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppkG   83 (84)
                      +..+++..|+.+.|+|+|+||+||+.+|++|+|+|++|+++|++|.+-+.||||
T Consensus       115 Lr~~L~sAIv~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~Pwrg  168 (439)
T KOG0739|consen  115 LRSALNSAIVREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRG  168 (439)
T ss_pred             HHHHhhhhhhccCCCCchhhhccchhHHHHHHhheeecccchhhhcCCCCccee
Confidence            344457778889999999999999999999999999999999999998899997

>KOG0736|consensus

Probab=99.21  E-value=9.9e-12  Score=100.31  Aligned_cols=64  Identities=28%  Similarity=0.455  Sum_probs=55.7

Q ss_pred             CCCCCCCHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHh
Q psy4539           9 PRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFT   75 (84)
Q Consensus         9 ~~~~~~~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~   75 (84)
                      +.+.-++.+||.+|+...+.+.++.|-   ..+.|+|+|+|||||+++|++|.++|-+||+||++|.
T Consensus       636 ~~~~~l~~edf~kals~~~~~fs~aiG---APKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfs  699 (953)
T KOG0736|consen  636 AAGFLLTEEDFDKALSRLQKEFSDAIG---APKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFS  699 (953)
T ss_pred             cccceecHHHHHHHHHHHHHhhhhhcC---CCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhh
Confidence            456788999999999998888743222   4589999999999999999999999999999999996

>KOG0735|consensus

Probab=99.11  E-value=1.2e-10  Score=93.82  Aligned_cols=67  Identities=31%  Similarity=0.479  Sum_probs=58.3

Q ss_pred             CCCHHHHHHHhccCChhHHHHHHhhhhc-CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          13 ELEPELEDERYKGIDKVMIERIENEIMD-QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        13 ~~~~~~~~~al~~~~ps~~~~i~~~i~~-~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      -++.++|.++|+.|.|.+    +|.+.. +..+++|+||||+.++|+.|+|+++||.+||++|.... +-++|
T Consensus       635 lltke~f~ksL~~F~P~a----LR~ik~~k~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~g  703 (952)
T KOG0735|consen  635 LLTKELFEKSLKDFVPLA----LRGIKLVKSTGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTG  703 (952)
T ss_pred             cchHHHHHHHHHhcChHH----hhhccccccCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccc
Confidence            679999999999999999    677654 44569999999999999999999999999999998765 54444

>KOG0726|consensus

Probab=99.04  E-value=1.4e-10  Score=86.54  Aligned_cols=45  Identities=29%  Similarity=0.609  Sum_probs=43.1

Q ss_pred             hcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          39 MDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        39 ~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +.+.|.-+|.|||||+.++++|+|+|++||.||++|+.+| +||||
T Consensus       176 ~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKG  221 (440)
T KOG0726|consen  176 VEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKG  221 (440)
T ss_pred             cccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCe
Confidence            4578999999999999999999999999999999999999 99998

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.03  E-value=2.4e-10  Score=91.26  Aligned_cols=68  Identities=31%  Similarity=0.555  Sum_probs=62.9

Q ss_pred             CCCCHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          12 KELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        12 ~~~~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..++..+|.+|++.+.|+.    ++++..+.|+++|+||||++.+|+.|++.|.||++||++|++++ ++|+|
T Consensus       421 ~~v~~~df~~Al~~v~ps~----~~~~~~~~~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~g  489 (733)
T TIGR01243       421 LKVTMKDFMEALKMVEPSA----IREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKG  489 (733)
T ss_pred             ccccHHHHHHHHhhccccc----cchhhccccccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCce
Confidence            4578899999999999998    67878889999999999999999999999999999999999998 88876

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.

>KOG0652|consensus

Probab=98.99  E-value=3.8e-10  Score=83.38  Aligned_cols=62  Identities=29%  Similarity=0.434  Sum_probs=55.4

Q ss_pred             HhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          22 RYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        22 al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      -|..+++....+|....+.+.|.-+|+|||||+.++++|-|+|.+|+.|++-|..+| +||||
T Consensus       145 iletLP~eyDsrVkaMevDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKG  207 (424)
T KOG0652|consen  145 ILETLPSEYDSRVKAMEVDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKG  207 (424)
T ss_pred             ehhcCChhhhhhcceeeeccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCc
Confidence            455667777766677777899999999999999999999999999999999999999 99998

>KOG0727|consensus

Probab=98.94  E-value=3.4e-10  Score=83.31  Aligned_cols=58  Identities=26%  Similarity=0.441  Sum_probs=48.6

Q ss_pred             CChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          26 IDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        26 ~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ++|.+.+-|.-..-.+.|+|+|.||||++-+|++++|+|++|+.|.++|+.+| .||||
T Consensus       133 lppeadssi~ml~~~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprg  191 (408)
T KOG0727|consen  133 LPPEADSSISMLGPDEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRG  191 (408)
T ss_pred             cCCcccccccccCCCCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcc
Confidence            35555333333334578999999999999999999999999999999999999 99998

>KOG0729|consensus

Probab=98.93  E-value=8.7e-10  Score=81.69  Aligned_cols=47  Identities=30%  Similarity=0.586  Sum_probs=44.3

Q ss_pred             hhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          37 EIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        37 ~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .-+.+.|+|+|+||||+.++++.|+|.|++||.||+-|-.+| .||||
T Consensus       166 m~veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkg  213 (435)
T KOG0729|consen  166 MQVEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKG  213 (435)
T ss_pred             EEeecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCc
Confidence            335689999999999999999999999999999999999999 99998

>KOG0740|consensus

Probab=98.91  E-value=1.3e-09  Score=83.33  Aligned_cols=63  Identities=51%  Similarity=0.879  Sum_probs=59.8

Q ss_pred             HHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCCC
Q psy4539          21 ERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKD   83 (84)
Q Consensus        21 ~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppkG   83 (84)
                      +.++.++......+.++|....++|.|+||+|++.+|+.|+|+|+||+..|++|.+++.|+||
T Consensus       126 ~~~~~~~~~~~~~i~~EI~~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rg  188 (428)
T KOG0740|consen  126 EKVKEVDETLIEGIRNEIGDTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRG  188 (428)
T ss_pred             hhhccccchhhHHHHHHHhccCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccch
Confidence            568889999999999999999999999999999999999999999999999999999888876

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

Probab=98.87  E-value=1.5e-09  Score=82.07  Aligned_cols=49  Identities=31%  Similarity=0.601  Sum_probs=44.2

Q ss_pred             HhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          35 ENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        35 ~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ....+.+.|+++|+||||++.+|+.|+++|.+|+.+|++|+.+| .||+|
T Consensus       132 ~~~~~~~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkg  181 (398)
T PTZ00454        132 QLLQMSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRG  181 (398)
T ss_pred             hhhcccCCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCce
Confidence            33345688999999999999999999999999999999999999 88886

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

Probab=98.84  E-value=4.3e-09  Score=80.44  Aligned_cols=69  Identities=32%  Similarity=0.455  Sum_probs=61.2

Q ss_pred             CCCCCCCHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539           9 PRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus         9 ~~~~~~~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +....++..++.++++.+.++      +.+....+.++|+||||++.+|+.++++|.||++||++|.+.+ ++++|
T Consensus       209 ~~~~~~~~~~~~~~l~~~~~~------~~~~~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~g  278 (494)
T COG0464         209 GEYIGVTEDDFEEALKKVLPS------RGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKG  278 (494)
T ss_pred             cccccccHHHHHHHHHhcCcc------cccccCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCe
Confidence            455667889999999999887      4556789999999999999999999999999999999999877 78776

>KOG0737|consensus

Probab=98.72  E-value=8.8e-09  Score=77.70  Aligned_cols=44  Identities=39%  Similarity=0.751  Sum_probs=39.0

Q ss_pred             cCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC--CCCCC
Q psy4539          40 DQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR--RPPKD   83 (84)
Q Consensus        40 ~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~--~ppkG   83 (84)
                      ....+|+|+|||||+.+|++|+|.|++|+++|++|..-+  +|++|
T Consensus        84 p~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kG  129 (386)
T KOG0737|consen   84 PSEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKG  129 (386)
T ss_pred             hhhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCcc
Confidence            456689999999999999999999999999999996433  88887

>KOG0728|consensus

Probab=98.69  E-value=1.7e-08  Score=74.38  Aligned_cols=49  Identities=29%  Similarity=0.479  Sum_probs=44.9

Q ss_pred             HhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          35 ENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        35 ~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .-..+.+.|+-+|+-||||+.++++++|.|++|.+||++|..+| ..|||
T Consensus       134 sLMmVeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKG  183 (404)
T KOG0728|consen  134 SLMMVEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKG  183 (404)
T ss_pred             HHHhhhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcc
Confidence            33446789999999999999999999999999999999999999 88887

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.61  E-value=3.5e-08  Score=77.01  Aligned_cols=49  Identities=29%  Similarity=0.650  Sum_probs=44.4

Q ss_pred             HhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          35 ENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        35 ~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ...+..+.|+++|+||||++.+++.|++.|.+|+.||++|+.+| .||+|
T Consensus       169 ~~l~~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~G  218 (512)
T TIGR03689       169 EDLVLEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKG  218 (512)
T ss_pred             hcceeecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcc
Confidence            34456688999999999999999999999999999999999999 88887

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.

>KOG0732|consensus

Probab=98.57  E-value=3.5e-08  Score=81.94  Aligned_cols=44  Identities=25%  Similarity=0.631  Sum_probs=41.6

Q ss_pred             cCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          40 DQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        40 ~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .....+.|+|||||+.++..|+|+|.+||.||+.|..++ +||||
T Consensus       257 ~~~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrg  301 (1080)
T KOG0732|consen  257 SVDSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRG  301 (1080)
T ss_pred             hhhcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcc
Confidence            346789999999999999999999999999999999999 99998

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.51  E-value=6.7e-08  Score=72.62  Aligned_cols=48  Identities=27%  Similarity=0.554  Sum_probs=43.9

Q ss_pred             hhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          36 NEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        36 ~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +..+.+.|+++|+||||++.+++.|++.|.+|+.+|++|+.+| .+|+|
T Consensus       119 ~~~~~~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~g  167 (389)
T PRK03992        119 AMEVIESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKG  167 (389)
T ss_pred             eeeecCCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCc
Confidence            4445678999999999999999999999999999999999999 88886

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

Probab=98.45  E-value=1.3e-07  Score=72.59  Aligned_cols=47  Identities=28%  Similarity=0.588  Sum_probs=43.0

Q ss_pred             hhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          37 EIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        37 ~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..+.+.|.++|+||||++.+++.|++++.+|+.+|++|+.+| .+|+|
T Consensus       172 ~~~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~g  219 (438)
T PTZ00361        172 MKVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKG  219 (438)
T ss_pred             cccccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcE
Confidence            335678999999999999999999999999999999999999 88876

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.30  E-value=4.4e-07  Score=67.22  Aligned_cols=48  Identities=27%  Similarity=0.579  Sum_probs=43.3

Q ss_pred             hhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          36 NEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        36 ~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +..+.+.|+++|+||||++.+++.|++.+.+|+.+|++|+.+| .+|+|
T Consensus       110 ~~~~~~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~g  158 (364)
T TIGR01242       110 GMEVEERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKG  158 (364)
T ss_pred             cceeccCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCce
Confidence            3345578999999999999999999999999999999999998 88876

Many proteins may score above the trusted cutoff because an internal

>KOG0731|consensus

Probab=98.28  E-value=7.8e-07  Score=72.21  Aligned_cols=42  Identities=26%  Similarity=0.521  Sum_probs=39.8

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ....|.|+||+|++++|++|+|.|.+ |++|+.|..+| ++|||
T Consensus       304 ~~t~V~FkDVAG~deAK~El~E~V~f-LKNP~~Y~~lGAKiPkG  346 (774)
T KOG0731|consen  304 GNTGVKFKDVAGVDEAKEELMEFVKF-LKNPEQYQELGAKIPKG  346 (774)
T ss_pred             CCCCCccccccCcHHHHHHHHHHHHH-hcCHHHHHHcCCcCcCc
Confidence            45569999999999999999999999 99999999999 99998

>KOG0734|consensus

Probab=98.13  E-value=1.9e-06  Score=68.45  Aligned_cols=41  Identities=37%  Similarity=0.617  Sum_probs=39.3

Q ss_pred             CCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          42 GKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        42 ~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..+|+|+||-|++++|++|+|+|.| |+.|+.|.++| +-|||
T Consensus       298 ~~nv~F~dVkG~DEAK~ELeEiVef-LkdP~kftrLGGKLPKG  339 (752)
T KOG0734|consen  298 MKNVTFEDVKGVDEAKQELEEIVEF-LKDPTKFTRLGGKLPKG  339 (752)
T ss_pred             hcccccccccChHHHHHHHHHHHHH-hcCcHHhhhccCcCCCc
Confidence            4589999999999999999999999 99999999999 99998

>KOG0733|consensus

Probab=98.08  E-value=3.2e-06  Score=67.86  Aligned_cols=42  Identities=31%  Similarity=0.659  Sum_probs=40.0

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..+++.|.||||++....+|++.|.. ++||+.|..+| .||||
T Consensus       183 ~~snv~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprG  225 (802)
T KOG0733|consen  183 PESNVSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRG  225 (802)
T ss_pred             CCCCcchhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCc
Confidence            45699999999999999999999999 99999999999 99998

>KOG0651|consensus

Probab=97.99  E-value=5.3e-06  Score=62.32  Aligned_cols=58  Identities=21%  Similarity=0.487  Sum_probs=47.0

Q ss_pred             CChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          26 IDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        26 ~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +-|..++.+-........+++|+.|||+.++..+|+|.|++|+.+|++|.++| +||+|
T Consensus       110 ~lprevd~vy~m~~e~~~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg  168 (388)
T KOG0651|consen  110 GLPREVDLVYNMSHEDPRNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKG  168 (388)
T ss_pred             ccchHHHHHHHhhhcCccccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCce
Confidence            33444443333334456689999999999999999999999999999999999 99997

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.99  E-value=5e-06  Score=66.77  Aligned_cols=43  Identities=42%  Similarity=0.738  Sum_probs=39.9

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..++++|+||||++.+++.|++.|.+|++||++|+.++ .+++|
T Consensus       171 ~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~g  214 (733)
T TIGR01243       171 KVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKG  214 (733)
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCce
Confidence            35789999999999999999999999999999999998 88776

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

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.55  E-value=6.3e-05  Score=57.99  Aligned_cols=43  Identities=33%  Similarity=0.595  Sum_probs=39.1

Q ss_pred             cCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          40 DQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        40 ~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .+.++++|+||+|++++|+.|++++.+ +++|+.|..++ .+|+|
T Consensus        47 ~~~~~~~~~di~g~~~~k~~l~~~~~~-l~~~~~~~~~g~~~~~g   90 (495)
T TIGR01241        47 EEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKG   90 (495)
T ss_pred             CCCCCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHhcCCCCCCc
Confidence            457899999999999999999999998 99999999888 88776

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.

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

Probab=97.53  E-value=0.00011  Score=58.69  Aligned_cols=43  Identities=28%  Similarity=0.545  Sum_probs=40.1

Q ss_pred             cCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          40 DQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        40 ~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .....|+|.|++|.+++|++|.|.|.+ |+.|.-|..+| +-|||
T Consensus       142 ~~~~~v~F~DVAG~dEakeel~EiVdf-Lk~p~ky~~lGakiPkG  185 (596)
T COG0465         142 EDQVKVTFADVAGVDEAKEELSELVDF-LKNPKKYQALGAKIPKG  185 (596)
T ss_pred             ccccCcChhhhcCcHHHHHHHHHHHHH-HhCchhhHhcccccccc
Confidence            346889999999999999999999999 99999999999 88887

>KOG0730|consensus

Probab=96.85  E-value=0.00098  Score=53.86  Aligned_cols=40  Identities=33%  Similarity=0.674  Sum_probs=38.0

Q ss_pred             CCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          43 KPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        43 p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +.++ +++||+..+.+.++++|.+|++||.+|..+| +||+|
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg  220 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRG  220 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCC
Confidence            6677 8999999999999999999999999999999 99987

>CHL00176 ftsH cell division protein; Validated

Probab=96.60  E-value=0.0019  Score=51.96  Aligned_cols=41  Identities=34%  Similarity=0.648  Sum_probs=37.1

Q ss_pred             CCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          42 GKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        42 ~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .+.++|+||+|++.+|+.|++.+.+ +++|+.|+.++ .+|+|
T Consensus       177 ~~~~~f~dv~G~~~~k~~l~eiv~~-lk~~~~~~~~g~~~p~g  218 (638)
T CHL00176        177 DTGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKG  218 (638)
T ss_pred             CCCCCHHhccChHHHHHHHHHHHHH-HhCHHHHhhccCCCCce
Confidence            4578999999999999999999888 99999999988 77776

>CHL00195 ycf46 Ycf46; Provisional

Probab=94.48  E-value=0.035  Score=43.46  Aligned_cols=39  Identities=15%  Similarity=0.125  Sum_probs=29.7

Q ss_pred             CCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          42 GKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        42 ~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .++++|+||||++.+|+.|++...   .++..+..+| .+|||
T Consensus       222 ~~~~~~~dvgGl~~lK~~l~~~~~---~~~~~~~~~gl~~pkG  261 (489)
T CHL00195        222 SVNEKISDIGGLDNLKDWLKKRST---SFSKQASNYGLPTPRG  261 (489)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHH---HhhHHHHhcCCCCCce
Confidence            468899999999999999998543   2345556677 77776

>CHL00181 cbbX CbbX; Provisional

Probab=92.56  E-value=0.09  Score=38.26  Aligned_cols=34  Identities=21%  Similarity=0.310  Sum_probs=28.0

Q ss_pred             eecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCC
Q psy4539          47 WDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPP   81 (84)
Q Consensus        47 w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~pp   81 (84)
                      +.+++|++.+|+.|+|.+.| +.++++++.+| .++
T Consensus        22 ~~~l~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~~~~   56 (287)
T CHL00181         22 DEELVGLAPVKTRIREIAAL-LLIDRLRKNLGLTSS   56 (287)
T ss_pred             HHhcCCcHHHHHHHHHHHHH-HHHHHHHHHcCCCCC
Confidence            45799999999999999999 66778887776 444

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

Probab=90.62  E-value=0.2  Score=37.63  Aligned_cols=35  Identities=23%  Similarity=0.358  Sum_probs=31.6

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhc
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTG   76 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~   76 (84)
                      ..++++++||.|++++|+.-+-++.| |.+|+.|..
T Consensus       114 ~~~~it~ddViGqEeAK~kcrli~~y-LenPe~Fg~  148 (368)
T COG1223         114 IISDITLDDVIGQEEAKRKCRLIMEY-LENPERFGD  148 (368)
T ss_pred             hhccccHhhhhchHHHHHHHHHHHHH-hhChHHhcc
Confidence            46889999999999999998888888 999999974

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=88.34  E-value=0.4  Score=38.60  Aligned_cols=41  Identities=29%  Similarity=0.496  Sum_probs=34.9

Q ss_pred             CCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          42 GKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        42 ~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ....+|+||+|++.+++.|.+.+.+ +.+|+.|..++ +.|+|
T Consensus       146 ~~~~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~~~~~~g  187 (644)
T PRK10733        146 QIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKG  187 (644)
T ss_pred             hhhCcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcCCCCCCc
Confidence            3467899999999999999999998 78888888777 66665

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=87.81  E-value=0.45  Score=34.47  Aligned_cols=29  Identities=24%  Similarity=0.359  Sum_probs=25.8

Q ss_pred             cccCcHHHHHHHHHHHhhcccChHHHhcCC
Q psy4539          49 DIAGLTFAKQTIQEVIVWPMLRPDIFTGLR   78 (84)
Q Consensus        49 DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~   78 (84)
                      +++|++.+|+.|++++.| +.+++.+.++|
T Consensus        23 ~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g   51 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAAL-LLVERLRQRLG   51 (284)
T ss_pred             hccCHHHHHHHHHHHHHH-HHHHHHHHHhC
Confidence            589999999999999999 77888887766

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	84
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		5e-21
3vfd_A	389	Human Spastin Aaa Domain Length = 389		1e-11
3b9p_A	297	Spastin Length = 297		2e-09
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		1e-04
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		1e-04
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		1e-04
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		3e-04
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		3e-04
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		5e-04

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score = 95.9 bits (237), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 44/63 (69%), Positives = 51/63 (80%)
Query: 20  DERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRR 79
           DER K ++  MIE I NEIMD G PV W+DIAG+ FAK TI+E++VWPMLRPDIFTGLR 
Sbjct: 56  DERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRG 115
Query: 80  PPK 82
           PPK
Sbjct: 116 PPK 118

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 28/62 (45%), Positives = 42/62 (67%)
Query: 21  ERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRP 80
           + ++ +D  +   I NEI+D G  V +DDIAG   AKQ +QE+++ P LRP++FTGLR P
Sbjct: 88  KNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAP 147
Query: 81  PK 82
            +
Sbjct: 148 AR 149

>pdb|3B9P|A Chain A, Spastin Length = 297

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/53 (47%), Positives = 38/53 (71%)
Query: 30 MIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK 82
          +++ I +EI++ G  V W DIAG   AKQ +QE+++ P +RP++FTGLR P K
Sbjct: 3  LVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAK 55

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 30/47 (63%)
Query: 34 IENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRP 80
          + + I+ +   V W+D+AGL  AK+ ++E ++ P+  P +F G R+P
Sbjct: 37 LSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKP 83

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 30/47 (63%)
Query: 34 IENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRP 80
          + + I+ +   V W+D+AGL  AK+ ++E ++ P+  P +F G R+P
Sbjct: 22 LSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKP 68

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 32/53 (60%)
Query: 28  KVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRP 80
           K +  +++  I+ +   V W D+AGL  AK+ ++E ++ P+  P +FTG R P
Sbjct: 114 KKLQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTP 166

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 24/36 (66%)
Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRP 80
          V W D+AGL  AK+ ++E ++ P+  P +FTG R P
Sbjct: 9  VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTP 44

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 28/43 (65%)
Query: 38 IMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRP 80
          I+ +   V W+D+AGL  AK+ ++E ++ P+  P +F G R+P
Sbjct: 8  ILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKP 50

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 25/36 (69%)
Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRP 80
          V W+D+AGL  AK+ ++E ++ P+  P +F G R+P
Sbjct: 24 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKP 59

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	84
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	4e-26
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	6e-25
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-22
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	3e-22
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	2e-21
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	5e-20
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	5e-18
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	4e-09
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-09
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	3e-06
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	6e-09
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	3e-06
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	8e-06

>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 = 97.1 bits (242), Expect = 4e-26
 Identities = 45/82 (54%), Positives = 53/82 (64%)

Query: 1   MDVDMPSGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTI 60
             +       G        DER K ++  MIE I NEIMD G PV W+DIAG+ FAK TI
Sbjct: 37  GGMQCKPYGAGPTEPAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATI 96

Query: 61  QEVIVWPMLRPDIFTGLRRPPK 82
           +E++VWPMLRPDIFTGLR PPK
Sbjct: 97  KEIVVWPMLRPDIFTGLRGPPK 118

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

 Score = 94.5 bits (235), Expect = 6e-25
 Identities = 28/81 (34%), Positives = 45/81 (55%)

Query: 2   DVDMPSGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQ 61
           +              + + + ++ +D  +   I NEI+D G  V +DDIAG   AKQ +Q
Sbjct: 69  NRTNKPSTPTTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQ 128

Query: 62  EVIVWPMLRPDIFTGLRRPPK 82
           E+++ P LRP++FTGLR P +
Sbjct: 129 EIVILPSLRPELFTGLRAPAR 149

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

 Score = 87.4 bits (217), Expect = 1e-22
 Identities = 25/55 (45%), Positives = 39/55 (70%)

Query: 28 KVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK 82
          + +++ I +EI++ G  V W DIAG   AKQ +QE+++ P +RP++FTGLR P K
Sbjct: 1  QKLVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAK 55

>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 = 86.4 bits (214), Expect = 3e-22
 Identities = 20/76 (26%), Positives = 40/76 (52%)

Query: 7  SGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVW 66
          S    K++  E  ++     +K +   + + I+ +   V W+D+AGL  AK+ ++E ++ 
Sbjct: 10 SNGGNKKISQEEGEDNGGEDNKKLRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAVIL 69

Query: 67 PMLRPDIFTGLRRPPK 82
          P+  P +F G R+P  
Sbjct: 70 PVKFPHLFKGNRKPTS 85

>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 = 85.4 bits (211), Expect = 2e-21
 Identities = 21/77 (27%), Positives = 38/77 (49%)

Query: 6   PSGPRGKELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIV 65
                 K  + + E E      K +  +++  I+ +   V W D+AGL  AK+ ++E ++
Sbjct: 92  SGPVDEKGNDSDGEAESDDPEKKKLQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVI 151

Query: 66  WPMLRPDIFTGLRRPPK 82
            P+  P +FTG R P +
Sbjct: 152 LPIKFPHLFTGKRTPWR 168

>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 = 80.1 bits (198), Expect = 5e-20
 Identities = 16/49 (32%), Positives = 28/49 (57%)

Query: 34 IENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK 82
              I+ +   V W+D+AGL  AK+ ++E ++ P+  P +F G R+P  
Sbjct: 4  PFTAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTS 52

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

 Score = 75.1 bits (185), Expect = 5e-18
 Identities = 17/45 (37%), Positives = 28/45 (62%)

Query: 38 IMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK 82
          I+ +   V W D+AGL  AK+ ++E ++ P+  P +FTG R P +
Sbjct: 2  IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWR 46

>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 = 50.3 bits (121), Expect = 4e-09
 Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)

Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGL-RRPPK 82
          VTW+DI GL   K+ +QE++ +P+  PD F      P K
Sbjct: 12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSK 50

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

 Score = 49.5 bits (119), Expect = 6e-09
 Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%)

Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGL-RRPPK 82
          VTW DI  L   ++ +   I+ P+  PD F  L    P 
Sbjct: 7  VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPA 45

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

 Score = 42.3 bits (100), Expect = 3e-06
 Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 1/39 (2%)

Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPK 82
          V ++DI GL    Q I+EV+  P+  P++F  +   PPK
Sbjct: 14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPK 52

>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 = 40.9 bits (96), Expect = 8e-06
 Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 37  EIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPK 82
           +  +    V +DDI G       I+E++  P+  P +F  +  +PP+
Sbjct: 193 DEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	84
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.42
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.27
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.23
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.23
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.22
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.18
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.13
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.8
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.67
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	98.64
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.62
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.6
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.42
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.31
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.24
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.23
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.99
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.92
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.67
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.63
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.38
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.36
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.29
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.14
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.04
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.01
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.97
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.38
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.93
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.65
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	86.15

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

Probab=99.42  E-value=3.2e-14  Score=106.73  Aligned_cols=54  Identities=30%  Similarity=0.498  Sum_probs=49.6

Q ss_pred             CChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          26 IDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        26 ~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ++|.+    .+..+.+.|+|+|+|||||+++|++|+|+|+||++||++|+++| +||||
T Consensus       130 ~~~~~----~~~~~~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prG  184 (405)
T 4b4t_J          130 ADPLV----SLMMVEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKG  184 (405)
T ss_dssp             CSCCT----TSCEEECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCC
T ss_pred             cCchh----hhccccCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCc
Confidence            45555    67778899999999999999999999999999999999999999 99998

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

Probab=99.27  E-value=6.5e-13  Score=100.24  Aligned_cols=49  Identities=35%  Similarity=0.559  Sum_probs=45.6

Q ss_pred             HhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          35 ENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        35 ~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ....+.+.|+|+|+||||++++|++|+|+|+||++||++|+++| +||||
T Consensus       168 ~~~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prG  217 (437)
T 4b4t_L          168 YNMTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKG  217 (437)
T ss_dssp             SSCEEEESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCE
T ss_pred             heeeeccCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCe
Confidence            45566789999999999999999999999999999999999999 99997

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

Probab=99.23  E-value=1.2e-12  Score=99.69  Aligned_cols=45  Identities=31%  Similarity=0.624  Sum_probs=43.1

Q ss_pred             hcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          39 MDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        39 ~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +.+.|+|+|+||||++++|++|+|.|+||++||++|+++| +||||
T Consensus       200 v~e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprG  245 (467)
T 4b4t_H          200 VEEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKG  245 (467)
T ss_dssp             EESSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSE
T ss_pred             ecCCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCc
Confidence            5689999999999999999999999999999999999999 99997

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

Probab=99.23  E-value=1.4e-12  Score=98.68  Aligned_cols=48  Identities=29%  Similarity=0.585  Sum_probs=44.5

Q ss_pred             hhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          36 NEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        36 ~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ...+.+.|+|+|+|||||+++|++|+|.|+||++||++|+++| +||||
T Consensus       170 ~~~~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prG  218 (437)
T 4b4t_I          170 VMKMDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKG  218 (437)
T ss_dssp             CCEEESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSE
T ss_pred             eeeeccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCC
Confidence            3446689999999999999999999999999999999999999 99987

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.22  E-value=1.8e-12  Score=103.73  Aligned_cols=67  Identities=25%  Similarity=0.380  Sum_probs=63.4

Q ss_pred             CCCHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          13 ELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        13 ~~~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .++.+||..|++.+.|++    ++++..+.|+++|+||||++++|++|+++|.||++||++|.+++ +||+|
T Consensus       446 ~v~~~Df~~Al~~~~ps~----~r~~~~~~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~g  513 (806)
T 3cf2_A          446 AVTMDDFRWALSQSNPSA----LRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKG  513 (806)
T ss_dssp             EECTTHHHHHHSSSSCCC----CCCCCCBCCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSC
T ss_pred             eeeHHHHHHHHHhCCCcc----cccccccCCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCce
Confidence            467889999999999999    78888899999999999999999999999999999999999999 99987

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

Probab=99.18  E-value=3.2e-12  Score=96.40  Aligned_cols=49  Identities=33%  Similarity=0.523  Sum_probs=44.9

Q ss_pred             HhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          35 ENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        35 ~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ....+.+.|+++|+||||++++|++|+|.|+||++||++|+++| +||||
T Consensus       168 ~~~~~~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prG  217 (434)
T 4b4t_M          168 KAMEVDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKG  217 (434)
T ss_dssp             SCCEEESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCE
T ss_pred             hhcccCCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCe
Confidence            34445689999999999999999999999999999999999999 99987

>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=1.5e-11  Score=92.59  Aligned_cols=47  Identities=28%  Similarity=0.593  Sum_probs=43.8

Q ss_pred             hhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          37 EIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        37 ~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..+.+.|+|+|+||||++++|+.|+|.|.+|++||++|+++| +||||
T Consensus       161 ~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prG  208 (428)
T 4b4t_K          161 MGENEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRG  208 (428)
T ss_dssp             CEEESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCE
T ss_pred             ccCCCCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCce
Confidence            335688999999999999999999999999999999999999 99997

>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=9.3e-10  Score=88.16  Aligned_cols=43  Identities=28%  Similarity=0.587  Sum_probs=41.2

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..++|+|+||||++.+|++|+|.|.+|++||++|+++| +||||
T Consensus       197 ~~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~G  240 (806)
T 3cf2_A          197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRG  240 (806)
T ss_dssp             CSSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCE
T ss_pred             cCCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCe
Confidence            46899999999999999999999999999999999999 99997

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

Probab=98.67  E-value=6.2e-09  Score=74.54  Aligned_cols=46  Identities=37%  Similarity=0.693  Sum_probs=40.2

Q ss_pred             hhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCCC
Q psy4539          38 IMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKD   83 (84)
Q Consensus        38 i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppkG   83 (84)
                      ++.+.|+++|+||||++.+|+.|+++|.+|++||++|.+...|++|
T Consensus         2 i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~   47 (322)
T 1xwi_A            2 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRG   47 (322)
T ss_dssp             CEEECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSE
T ss_pred             eeecCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCce
Confidence            3467899999999999999999999999999999999865466654

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

Probab=98.64  E-value=7.6e-09  Score=72.80  Aligned_cols=43  Identities=30%  Similarity=0.500  Sum_probs=32.5

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..|+++|+||||++++|+.|++.|++|+.+++.|+.++ .+++|
T Consensus         3 ~~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G   46 (274)
T 2x8a_A            3 TVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG   46 (274)
T ss_dssp             ---------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe
Confidence            56899999999999999999999999999999999998 88876

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

Probab=98.62  E-value=1.1e-08  Score=73.95  Aligned_cols=68  Identities=65%  Similarity=1.125  Sum_probs=56.9

Q ss_pred             CHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCC
Q psy4539          15 EPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK   82 (84)
Q Consensus        15 ~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppk   82 (84)
                      ....+.++|+.+++...+.+.++++.+.+.++|+||+|++.+++.|++.+.+|+.+|++|.+++.+++
T Consensus        51 ~~~~~~~~l~~~~~~~~~~i~~~i~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~  118 (357)
T 3d8b_A           51 PAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPK  118 (357)
T ss_dssp             ------CCSTTSCHHHHHHHHHHTBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCS
T ss_pred             ccchHHHHhccCChHHHHHHHhhcccCCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCc
Confidence            34567889999999999999999999999999999999999999999999999999999987654443

>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=98.60  E-value=9.9e-09  Score=72.50  Aligned_cols=49  Identities=35%  Similarity=0.613  Sum_probs=44.2

Q ss_pred             HhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          35 ENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        35 ~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +|+++.+.|+++|+||+|++.+++.|++.+.+|+.+|+.|..++ .+++|
T Consensus         2 ~~~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~   51 (301)
T 3cf0_A            2 LRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKG   51 (301)
T ss_dssp             CCCCCEECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSE
T ss_pred             CccccccCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCce
Confidence            47778889999999999999999999999999999999999877 66653

>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=98.42  E-value=7.3e-08  Score=69.79  Aligned_cols=54  Identities=30%  Similarity=0.663  Sum_probs=36.4

Q ss_pred             HHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCCC
Q psy4539          30 MIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKD   83 (84)
Q Consensus        30 ~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppkG   83 (84)
                      +.+.+.+.+..+.++++|+||+|++.+++.|+++|.+|+.+|++|.+...|++|
T Consensus        33 ~~~~~~~~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~   86 (355)
T 2qp9_X           33 LRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSG   86 (355)
T ss_dssp             --------------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCC
T ss_pred             HHHHHhhhhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCce
Confidence            333446667778899999999999999999999999999999999874466654

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

Probab=98.31  E-value=2.4e-07  Score=64.27  Aligned_cols=54  Identities=46%  Similarity=0.885  Sum_probs=47.4

Q ss_pred             hHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCC
Q psy4539          29 VMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK   82 (84)
Q Consensus        29 s~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppk   82 (84)
                      ++++.++++++.+.+.++|+||+|++.+++.|++.+.+|+.+|++|.+++.+++
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~   55 (297)
T 3b9p_A            2 KLVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAK   55 (297)
T ss_dssp             CHHHHHHTTTBCCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCS
T ss_pred             cHHHHHHHHhccCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCC
Confidence            456778899998999999999999999999999999999999999987654443

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.24  E-value=2.7e-07  Score=68.67  Aligned_cols=54  Identities=31%  Similarity=0.641  Sum_probs=40.3

Q ss_pred             HHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCCC
Q psy4539          30 MIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKD   83 (84)
Q Consensus        30 ~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppkG   83 (84)
                      +.+.+.+.++.+.|+++|+||+|++.+++.|+++|.+|+++|++|.+...|++|
T Consensus       116 ~~~~~~~~i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~  169 (444)
T 2zan_A          116 LQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRG  169 (444)
T ss_dssp             --------CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSE
T ss_pred             HHHHhhcceeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCce
Confidence            334446667778999999999999999999999999999999999863355543

>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=98.23  E-value=3.1e-07  Score=65.24  Aligned_cols=48  Identities=33%  Similarity=0.729  Sum_probs=41.9

Q ss_pred             hhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCCC
Q psy4539          36 NEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPKD   83 (84)
Q Consensus        36 ~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppkG   83 (84)
                      ..++.+.|+++|+||+|++.+|+.|++.+.+|+.+|++|.+.+.|++|
T Consensus         6 ~~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~   53 (322)
T 3eie_A            6 TAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSG   53 (322)
T ss_dssp             CCSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCE
T ss_pred             cceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCe
Confidence            445678999999999999999999999999999999999875566554

>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=97.92  E-value=2.6e-06  Score=64.62  Aligned_cols=40  Identities=18%  Similarity=0.157  Sum_probs=22.6

Q ss_pred             CCCCHHHHHHHhccCChhHHHHHHhhhhcCCCCcceecccCcHH
Q psy4539          12 KELEPELEDERYKGIDKVMIERIENEIMDQGKPVTWDDIAGLTF   55 (84)
Q Consensus        12 ~~~~~~~~~~al~~~~ps~~~~i~~~i~~~~p~v~w~DIgGl~~   55 (84)
                      ..++.++|.+|++.+.|++    ++++..+.|+|+|+||||..+
T Consensus       445 ~~vt~edf~~Al~~~~ps~----~re~~~e~p~v~W~dig~~~~  484 (489)
T 3hu3_A          445 LAVTMDDFRWALSQSNPSA----LRETVVEVPQVTWEDIGGRSH  484 (489)
T ss_dssp             CCBCHHHHHHHHTSHHHHH----HHGGGC---------------
T ss_pred             CcCCHHHHHHHHHhCCchh----hhcccccCCCCCHHHcCCCcc
Confidence            3579999999999999999    799999999999999999864

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

Probab=97.67  E-value=1.7e-05  Score=54.46  Aligned_cols=44  Identities=36%  Similarity=0.707  Sum_probs=39.5

Q ss_pred             hcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCC
Q psy4539          39 MDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPK   82 (84)
Q Consensus        39 ~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppk   82 (84)
                      +...|+++|+||+|++.+++.|++.+.+|+.++++|..++ .+++
T Consensus         8 ~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~   52 (285)
T 3h4m_A            8 VDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPK   52 (285)
T ss_dssp             EESSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCS
T ss_pred             ccCCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCC
Confidence            4578899999999999999999999999999999999877 6554

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

Probab=97.63  E-value=6.6e-06  Score=59.67  Aligned_cols=56  Identities=50%  Similarity=0.892  Sum_probs=44.0

Q ss_pred             ChhHHHHHHhhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCCCCCC
Q psy4539          27 DKVMIERIENEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPPK   82 (84)
Q Consensus        27 ~ps~~~~i~~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~~ppk   82 (84)
                      .+...+.+++.++.+.+.++|+||+|++.+++.|++.+.+|+.++++|.+++.+++
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  149 (389)
T 3vfd_A           94 DSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPAR  149 (389)
T ss_dssp             ---CCTTGGGTTBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCS
T ss_pred             cHHHHHHHHhhhhccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCc
Confidence            33333334667777889999999999999999999999999999999987664443

>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=97.36  E-value=6.5e-05  Score=50.60  Aligned_cols=40  Identities=30%  Similarity=0.549  Sum_probs=29.7

Q ss_pred             CCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          43 KPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        43 p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      |+++|+||+|++.+|+.|++.+.+ +.+|+.|..++ .+++|
T Consensus         1 ~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~   41 (262)
T 2qz4_A            1 MGVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKG   41 (262)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCCC------CCCCCE
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCce
Confidence            578999999999999999999988 89999998777 55543

>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=97.29  E-value=9e-05  Score=56.14  Aligned_cols=41  Identities=29%  Similarity=0.650  Sum_probs=37.2

Q ss_pred             CCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          43 KPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        43 p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +.++|++|+|++.+++.|++.+.+|+++|++|..++ .+++|
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~  240 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRG  240 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCE
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCc
Confidence            568999999999999999999999999999999887 66654

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

Probab=97.14  E-value=0.00017  Score=48.93  Aligned_cols=43  Identities=28%  Similarity=0.501  Sum_probs=33.6

Q ss_pred             cCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          40 DQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        40 ~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .+.+.++|+||+|++.+++.|++.+.+ +.+++.|+.++ .+++|
T Consensus         4 ~~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~   47 (257)
T 1lv7_A            4 EDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKG   47 (257)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCE
T ss_pred             ccCCCCCHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcCCCCCCe
Confidence            356789999999999999999999887 89999988777 66654

>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=97.04  E-value=0.00037  Score=52.87  Aligned_cols=41  Identities=32%  Similarity=0.556  Sum_probs=37.5

Q ss_pred             CCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          42 GKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        42 ~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .+.++|+||+|++.+|+.|++.+.+ +.+|+.|..++ ++|+|
T Consensus        10 ~~~~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g~~~p~g   51 (476)
T 2ce7_A           10 NKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKG   51 (476)
T ss_dssp             SCCCCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTTCCCCSE
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcCCCCCCe
Confidence            6789999999999999999999988 88999999988 88775

>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=97.01  E-value=0.00019  Score=48.84  Aligned_cols=43  Identities=26%  Similarity=0.478  Sum_probs=36.9

Q ss_pred             cCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          40 DQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        40 ~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .+.+.++|+||+|++.+++.|++.+.+ +.+|+.|..++ ++++|
T Consensus         3 ~~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~   46 (268)
T 2r62_A            3 AEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKG   46 (268)
T ss_dssp             CCCCCCCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHSCCCCSC
T ss_pred             ccCCCCCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCCCCCCce
Confidence            357889999999999999999999887 99999998776 65554

>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=96.97  E-value=0.00058  Score=46.19  Aligned_cols=47  Identities=28%  Similarity=0.564  Sum_probs=37.2

Q ss_pred             hhhhcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          36 NEIMDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        36 ~~i~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..++...|.++|+||+|++.+++.+++.+.+ +.++..|..++ +.++|
T Consensus         4 ~~~~~~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g   51 (254)
T 1ixz_A            4 GSVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKG   51 (254)
T ss_dssp             ----CCCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSE
T ss_pred             cccccCCCCCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCe
Confidence            4456788999999999999999999998776 78888888877 66654

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

Probab=96.38  E-value=0.0017  Score=49.52  Aligned_cols=42  Identities=31%  Similarity=0.580  Sum_probs=37.3

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      ..+.++|+||+|++.+++.|++.+.+ +.+++.|..++ +.|+|
T Consensus        24 ~~~~~~f~dv~G~~~~k~~l~~lv~~-l~~~~~~~~lg~~ip~G   66 (499)
T 2dhr_A           24 EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKG   66 (499)
T ss_dssp             SCCCCCTTSSCSCHHHHHHHHHHHHH-HHCGGGTTTTSCCCCSE
T ss_pred             cCCCCCHHHcCCcHHHHHHHHHHHHH-hhchhhhhhccCCCCce
Confidence            34899999999999999999999887 88999999888 77775

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

Probab=95.93  E-value=0.0057  Score=41.98  Aligned_cols=44  Identities=30%  Similarity=0.575  Sum_probs=36.3

Q ss_pred             hcCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          39 MDQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        39 ~~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +...+.++|+||+|++++++.+++.+.+ +.++..|..++ +.++|
T Consensus        31 ~~~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~l~~~~~~~~~g   75 (278)
T 1iy2_A           31 LTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKG   75 (278)
T ss_dssp             BCCCCCCCGGGSSSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCCE
T ss_pred             ccCCCCCCHHHhCChHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCe
Confidence            4456899999999999999999998776 77888888777 66654

>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=0.0022  Score=55.16  Aligned_cols=35  Identities=6%  Similarity=-0.051  Sum_probs=22.3

Q ss_pred             CCCcceecccCcHHHHHHHHHHHhhcccC----------hHHHhc
Q psy4539          42 GKPVTWDDIAGLTFAKQTIQEVIVWPMLR----------PDIFTG   76 (84)
Q Consensus        42 ~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~----------p~lf~~   76 (84)
                      .+.++|+||||++.+|+.+.++++||+.+          ++.|+.
T Consensus      1014 ~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1058 (1706)
T 3cmw_A         1014 ASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSM 1058 (1706)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGG
T ss_pred             cCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhc
Confidence            35589999999999999999999999955          777876

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=86.15  E-value=0.3  Score=36.75  Aligned_cols=31  Identities=23%  Similarity=0.186  Sum_probs=27.3

Q ss_pred             ecccCcHHHHHHHHHHHhhcccChHHHhcCC
Q psy4539          48 DDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR   78 (84)
Q Consensus        48 ~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~   78 (84)
                      ++|+|++++|+.|..++..|.+++.+|..++
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~   45 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLR   45 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccc
Confidence            4799999999999999999988888877665

---

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	84
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	4e-09
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	1e-08
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	2e-06
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	6e-06

>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 = 48.9 bits (115), Expect = 4e-09
 Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 1/39 (2%)

Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGL-RRPPK 82
          V +DD+ G       I+E++  P+  P +F  +  +PP+
Sbjct: 1  VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 39

>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 = 47.5 bits (112), Expect = 1e-08
 Identities = 15/37 (40%), Positives = 22/37 (59%)

Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLRRPP 81
          VTW+DI GL   K+ +QE++ +P+  PD F      P
Sbjct: 4  VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTP 40

>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 = 41.4 bits (97), Expect = 2e-06
 Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 2/39 (5%)

Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGL-RRPPK 82
          VT+ D+AG   AK+ ++E++ + +  P  F  +  R PK
Sbjct: 6  VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPK 43

>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 = 40.2 bits (94), Expect = 6e-06
 Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 2/39 (5%)

Query: 45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGL-RRPPK 82
           T+ D+AG   AK+ + E++ + +  P  F  L  + PK
Sbjct: 9  TTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPK 46

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	84
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.87
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.64
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.57
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.54
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	90.56
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	89.85

>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=98.87  E-value=2.8e-10  Score=77.89  Aligned_cols=39  Identities=28%  Similarity=0.673  Sum_probs=37.3

Q ss_pred             cceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          45 VTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        45 v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      |+|+||||++++|+.|++.|.+|+++|+.|+++| .+|||
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~g   40 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRG   40 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCE
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCce
Confidence            6899999999999999999999999999999999 88886

>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=98.64  E-value=7.4e-09  Score=70.74  Aligned_cols=42  Identities=31%  Similarity=0.580  Sum_probs=38.0

Q ss_pred             CCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          41 QGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        41 ~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      +.|+++|+||||++.+|+.|+++|.+ +++|+.|..+| .+|+|
T Consensus         2 ~~p~~~~~di~G~~~~k~~l~~~i~~-l~~~~~~~~~g~~~~~g   44 (247)
T d1ixza_           2 EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKG   44 (247)
T ss_dssp             CCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSE
T ss_pred             CCCCCcHHHHccHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCce
Confidence            57999999999999999999998765 99999999998 77775

>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=98.57  E-value=6.9e-09  Score=71.37  Aligned_cols=43  Identities=28%  Similarity=0.501  Sum_probs=35.4

Q ss_pred             cCCCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          40 DQGKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        40 ~~~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .+.++|+|+||||++.+|++|+|.|.+ +++|+.|+++| .+|||
T Consensus         4 ~~~~~~t~~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g~~~~~~   47 (256)
T d1lv7a_           4 EDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKG   47 (256)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCE
T ss_pred             CCCCCCCHHHHhchHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCe
Confidence            467899999999999999999999887 99999999998 88775

>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=3.2e-09  Score=72.93  Aligned_cols=42  Identities=38%  Similarity=0.707  Sum_probs=39.2

Q ss_pred             CCCcceecccCcHHHHHHHHHHHhhcccChHHHhcCC-CCCCC
Q psy4539          42 GKPVTWDDIAGLTFAKQTIQEVIVWPMLRPDIFTGLR-RPPKD   83 (84)
Q Consensus        42 ~p~v~w~DIgGl~~~k~~L~e~v~~Pl~~p~lf~~l~-~ppkG   83 (84)
                      .|+++|+||||++++|++|++.|.+|+.+|+.|.++| .+++|
T Consensus         1 ~p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~g   43 (265)
T d1r7ra3           1 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKG   43 (265)
T ss_dssp             CCCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCE
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCe
Confidence            4899999999999999999999999999999999998 77765

>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=90.56  E-value=0.022  Score=36.23  Aligned_cols=23  Identities=13%  Similarity=0.170  Sum_probs=20.6

Q ss_pred             ceecccCcHHHHHHHHHHHhhcc
Q psy4539          46 TWDDIAGLTFAKQTIQEVIVWPM   68 (84)
Q Consensus        46 ~w~DIgGl~~~k~~L~e~v~~Pl   68 (84)
                      +|+||.|++++++.|++++..+.
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~   29 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAK   29 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHH
T ss_pred             cHHHcCChHHHHHHHHHHHHHHH
Confidence            79999999999999999987654

>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=89.85  E-value=0.064  Score=33.97  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=22.2

Q ss_pred             CcceecccCcHHHHHHHHHHHhhccc
Q psy4539          44 PVTWDDIAGLTFAKQTIQEVIVWPML   69 (84)
Q Consensus        44 ~v~w~DIgGl~~~k~~L~e~v~~Pl~   69 (84)
                      ..+|+||.|++++++.|++.+.+...
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~   30 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKA   30 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTT
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHh
Confidence            34899999999999999999887543