Psyllid ID: psy5205

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110---
Protein Sequence
VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL
Secondary Structure (PSIPRED)
cccccccEEEccccccHHHHHHHHHHHHHHcccHHHHHccccccccHHccHHHHHHHHHHHHHcccEEEEEEccccccccccccccccHHHHHHHHHHHHHccccccccEEEc
Secondary Structure Prediction (SSPRO)
cccccccEEHHccccHHHHHHHHHHHHHHHHcHHHHHHccccccccEEEcHHHHHHHHHHHHHcccEEEEEEEEccccccccccccccHHHHHHHHHHHHccccccccEEEEc
Coil and Loop (DISEMBL)
vdpeeinitfkdvrgVDEAKQELKEIVEFLKnpekfstlggklpkgvlLGARRVRDLFKAakdrtpcvvFIDEIdsvgakrtnsvlhpyaNQTINQLLAEMDgfhqnegvvvl
Flexible Loop (DISEMBL)
vdpeeinitfkdvrgvdeaKQELKEIVEFlknpekfstlggklpkgvlLGARRVRDLfkaakdrtpcvvFIDEIDSVgakrtnsvlhPYANQTINQLLAEMDGFHQNEGVVVL
Low Complexity Region (SEG)
VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTlggklpkgvllgARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL
Disordered region (IsUnstruct)
*******ITFKDVRGV****QELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH********
Disordered Region (DISOPRED)
*****IN*TFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSV*************NQTINQLLAEMDGFHQNEGVVVL
Disordered Region (DISEMBL)
VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL
Disordered Region (DISPRO)
*****INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGA*******HPYANQTINQLLAEMDGFHQNEGVVVL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL
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	113	2.2.26 [Sep-21-2011]
P54813	723	ATP-dependent zinc metall	yes	N/A	1.0	0.156	0.523	1e-39
O88967	715	ATP-dependent zinc metall	yes	N/A	1.0	0.158	0.506	7e-37
Q96TA2	773	ATP-dependent zinc metall	no	N/A	1.0	0.146	0.506	9e-37
Q925S8	715	ATP-dependent zinc metall	yes	N/A	1.0	0.158	0.493	6e-35
P46508	662	ATP-dependent zinc metall	N/A	N/A	0.973	0.166	0.486	4e-33
Q9FGM0	806	ATP-dependent zinc metall	yes	N/A	0.982	0.137	0.463	2e-31
A2ZVG7	784	ATP-dependent zinc metall	yes	N/A	0.964	0.139	0.469	2e-30
Q8LQJ8	715	ATP-dependent zinc metall	yes	N/A	0.955	0.151	0.462	2e-30
Q8LQJ9	709	ATP-dependent zinc metall	no	N/A	0.911	0.145	0.464	8e-29
O80983	717	ATP-dependent zinc metall	no	N/A	0.911	0.143	0.457	2e-28

>sp|P54813|YME1_CAEEL ATP-dependent zinc metalloprotease YME1 homolog OS=Caenorhabditis elegans GN=ymel-1 PE=3 SV=2

 Score =  161 bits (408), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 79/151 (52%), Positives = 102/151 (67%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           V+PE++ +TF DVRG+DEAK E++EIV++LK+PEK+S LGG+LPKGVLL           
Sbjct: 238 VNPEDVQVTFDDVRGMDEAKLEVEEIVDYLKDPEKYSRLGGRLPKGVLLVGPPGTGKTLL 297

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLF  AK R PC++FIDEIDSVG+KR 
Sbjct: 298 ARAIAGEAQVPFFHTAGSEFDEVLVGQGARRVRDLFDKAKARAPCIIFIDEIDSVGSKRV 357

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           ++ +HPYANQTINQLL+EMDGF +NEG++V+
Sbjct: 358 SNSIHPYANQTINQLLSEMDGFTRNEGIIVI 388

Putative ATP-dependent protease.
Caenorhabditis elegans (taxid: 6239)
EC: 3EC: .EC: 4EC: .EC: 2EC: 4EC: .EC: -

>sp|O88967|YMEL1_MOUSE ATP-dependent zinc metalloprotease YME1L1 OS=Mus musculus GN=Yme1l1 PE=2 SV=1

 Score =  152 bits (383), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 77/152 (50%), Positives = 98/152 (64%), Gaps = 39/152 (25%)

Query: 1   VDPEEI-NITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------- 49
           VDP ++ N+TF+ V+GV+EAKQEL+E+VEFLKNP+KF+ LGGKLPKG+LL          
Sbjct: 270 VDPVQMKNVTFEHVKGVEEAKQELQEVVEFLKNPQKFTVLGGKLPKGILLVGPPGTGKTL 329

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                       GA R+R+LF+ AK   PCV+FIDE+DSVG KR
Sbjct: 330 LARAVAGEADVPFYYASGSEFDEMFVGVGASRIRNLFREAKANAPCVIFIDELDSVGGKR 389

Query: 82  TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
             S +HPY+ QTINQLLAEMDGF  NEGV+++
Sbjct: 390 IESPMHPYSRQTINQLLAEMDGFKPNEGVIII 421

Putative ATP-dependent protease which plays a role in mitochondrial protein metabolism. Seems to act in the processing of OPA1.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|Q96TA2|YMEL1_HUMAN ATP-dependent zinc metalloprotease YME1L1 OS=Homo sapiens GN=YME1L1 PE=1 SV=2

 Score =  151 bits (382), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 77/152 (50%), Positives = 98/152 (64%), Gaps = 39/152 (25%)

Query: 1   VDPEEI-NITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------- 49
           VDP ++ N+TF+ V+GV+EAKQEL+E+VEFLKNP+KF+ LGGKLPKG+LL          
Sbjct: 328 VDPVQMKNVTFEHVKGVEEAKQELQEVVEFLKNPQKFTILGGKLPKGILLVGPPGTGKTL 387

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                       GA R+R+LF+ AK   PCV+FIDE+DSVG KR
Sbjct: 388 LARAVAGEADVPFYYASGSEFDEMFVGVGASRIRNLFREAKANAPCVIFIDELDSVGGKR 447

Query: 82  TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
             S +HPY+ QTINQLLAEMDGF  NEGV+++
Sbjct: 448 IESPMHPYSRQTINQLLAEMDGFKPNEGVIII 479

Putative ATP-dependent protease which plays a role in mitochondrial protein metabolism. Seems to act in the processing of OPA1.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|Q925S8|YMEL1_RAT ATP-dependent zinc metalloprotease YME1L1 OS=Rattus norvegicus GN=Yme1l1 PE=2 SV=1

 Score =  145 bits (367), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 75/152 (49%), Positives = 96/152 (63%), Gaps = 39/152 (25%)

Query: 1   VDPEEI-NITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------- 49
           VDP ++ N+TF+ V+GV+EAKQEL+E+VEFLKNP+KF+ LGGKLPKG+LL          
Sbjct: 270 VDPVQMKNVTFEHVKGVEEAKQELQEVVEFLKNPQKFTVLGGKLPKGILLVGPPGTGKTL 329

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                       GA R+R+LF+ AK   PCV+FIDE+DSVG KR
Sbjct: 330 LARAVAGEADVPFYYASGSEFDEMFVGVGASRIRNLFREAKANAPCVIFIDELDSVGGKR 389

Query: 82  TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
               +HPY+ QTI QLLAEMDGF  NEGV+++
Sbjct: 390 IEFPMHPYSRQTIIQLLAEMDGFKPNEGVIII 421

Putative ATP-dependent protease which plays a role in mitochondrial protein metabolism. Seems to act in the processing of OPA1.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|P46508|YME1_SCHMA ATP-dependent zinc metalloprotease YME1 homolog OS=Schistosoma mansoni PE=2 SV=1

 Score =  139 bits (351), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 72/148 (48%), Positives = 88/148 (59%), Gaps = 38/148 (25%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
           E  +++F DV+G DE K+EL ++VEFL+NPEKF+ +G KLPKGVLL              
Sbjct: 159 ENTDVSFSDVQGCDEVKKELVDVVEFLRNPEKFNQIGAKLPKGVLLVGPPGVGKTLLAKA 218

Query: 50  ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                                   GA R+R LF  AK  +PC+VFIDEIDSVG  RT S 
Sbjct: 219 VSGEAQVPFLYASGSSFDEVLVGLGASRIRQLFTTAKQNSPCLVFIDEIDSVGGNRTFSP 278

Query: 86  LHPYANQTINQLLAEMDGFHQNEGVVVL 113
            HP+ANQTINQLLAEMDGF   EG++VL
Sbjct: 279 HHPFANQTINQLLAEMDGFQSKEGIIVL 306

Putative ATP-dependent protease.

Schistosoma mansoni (taxid: 6183)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|Q9FGM0|FTSHB_ARATH ATP-dependent zinc metalloprotease FTSH 11, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=FTSH11 PE=1 SV=1

 Score =  134 bits (336), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 70/151 (46%), Positives = 91/151 (60%), Gaps = 40/151 (26%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           + PE+   TFKDV+G D+AKQEL+E+VE+LKNP KF+ LGGKLPKG+LL           
Sbjct: 352 ITPEKNVKTFKDVKGCDDAKQELEEVVEYLKNPSKFTRLGGKLPKGILLTGAPGTGKTLL 411

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVR LF+AAK + PC++FIDEID+VG+ R 
Sbjct: 412 AKAIAGEAGVPFFYRAGSEFEEMFVGVGARRVRSLFQAAKKKAPCIIFIDEIDAVGSTRK 471

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
               H    +T++QLL EMDGF QNEG++V+
Sbjct: 472 QWEGH--TKKTLHQLLVEMDGFEQNEGIIVM 500

Probable ATP-dependent zinc metallopeptidase. Involved in the assembly and/or stability of the complexes I and Involved in thermotolerance but not in high light stress resistance or in the assembly/stability of the complexes I and V of the mitochondrial oxidative phosphorylation system.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|A2ZVG7|FTSH9_ORYSJ ATP-dependent zinc metalloprotease FTSH 9, chloroplastic/mitochondrial OS=Oryza sativa subsp. japonica GN=FTSH9 PE=3 SV=1

 Score =  130 bits (328), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 70/149 (46%), Positives = 90/149 (60%), Gaps = 40/149 (26%)

Query: 3   PEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL------------- 49
           PE+   TFKDV+G D+AK+EL+E+VE+LKNP KF+ LGGKLPKG+LL             
Sbjct: 320 PEKNVKTFKDVKGCDDAKKELEEVVEYLKNPSKFTRLGGKLPKGILLTGSPGTGKTLLAK 379

Query: 50  -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                    GARRVR LF+AAK + PC+VFIDEID+VG+ R   
Sbjct: 380 AIAGEAGVPFFYRAGSEFEEMFVGVGARRVRSLFQAAKKKAPCIVFIDEIDAVGSTRKQW 439

Query: 85  VLHPYANQTINQLLAEMDGFHQNEGVVVL 113
             H    +T++QLL EMDGF QNEG++V+
Sbjct: 440 EGH--TKKTLHQLLVEMDGFEQNEGIIVM 466

Probable ATP-dependent zinc metallopeptidase.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|Q8LQJ8|FTSH5_ORYSJ ATP-dependent zinc metalloprotease FTSH 5, mitochondrial OS=Oryza sativa subsp. japonica GN=FTSH5 PE=3 SV=1

 Score =  130 bits (327), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 68/147 (46%), Positives = 87/147 (59%), Gaps = 39/147 (26%)

Query: 5   EINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL--------------- 49
           E N  F DV+GVDEAK EL+EIV +L++P++F+ LGGKLPKGVLL               
Sbjct: 224 ESNTKFSDVKGVDEAKAELEEIVHYLRDPKRFTRLGGKLPKGVLLVGPPGTGKTMLARAI 283

Query: 50  -----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL 86
                                  GARRVRDLF AAK R+PC++F+DEID++G  R N   
Sbjct: 284 AGEAGVPFFSCSGSEFEEMFVGVGARRVRDLFAAAKKRSPCIIFMDEIDAIGGSR-NPKD 342

Query: 87  HPYANQTINQLLAEMDGFHQNEGVVVL 113
             Y   T+NQLL E+DGF QNEG++V+
Sbjct: 343 QQYMKMTLNQLLVELDGFKQNEGIIVI 369

Probable ATP-dependent zinc metallopeptidase.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|Q8LQJ9|FTSH4_ORYSJ ATP-dependent zinc metalloprotease FTSH 4, mitochondrial OS=Oryza sativa subsp. japonica GN=FTSH4 PE=3 SV=1

 Score =  125 bits (314), Expect = 8e-29,   Method: Composition-based stats.
 Identities = 66/142 (46%), Positives = 85/142 (59%), Gaps = 39/142 (27%)

Query: 10  FKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------------- 49
           F DV+GVDEAK EL+EIV +L++P++F+ LGGKLPKGVLL                    
Sbjct: 222 FSDVKGVDEAKAELEEIVHYLRDPKRFTHLGGKLPKGVLLVGPPGTGKTMLARAVAGEAG 281

Query: 50  ------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYAN 91
                             GARRVRDLF AAK R+PC++F+DEID++G  R N     Y  
Sbjct: 282 VPFFSCSGSEFEEMFVGVGARRVRDLFAAAKKRSPCIIFMDEIDAIGGSR-NPKDQQYMR 340

Query: 92  QTINQLLAEMDGFHQNEGVVVL 113
            T+NQLL E+DGF QNEG++V+
Sbjct: 341 MTLNQLLVELDGFKQNEGIIVI 362

Probable ATP-dependent zinc metallopeptidase.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|O80983|FTSH4_ARATH ATP-dependent zinc metalloprotease FTSH 4, mitochondrial OS=Arabidopsis thaliana GN=FTSH4 PE=1 SV=2

 Score =  124 bits (311), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 65/142 (45%), Positives = 84/142 (59%), Gaps = 39/142 (27%)

Query: 10  FKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------------- 49
           F DV+GVDEAK EL+EIV +L++P++F+ LGGKLPKGVLL                    
Sbjct: 226 FSDVKGVDEAKAELEEIVHYLRDPKRFTRLGGKLPKGVLLVGPPGTGKTMLARAIAGEAG 285

Query: 50  ------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYAN 91
                             GARRVRDLF AAK  +PC++FIDEID++G  R N     Y  
Sbjct: 286 VPFFSCSGSEFEEMFVGVGARRVRDLFSAAKKCSPCIIFIDEIDAIGGSR-NPKDQQYMK 344

Query: 92  QTINQLLAEMDGFHQNEGVVVL 113
            T+NQ+L E+DGF QNEG++V+
Sbjct: 345 MTLNQMLVELDGFKQNEGIIVV 366

Probable ATP-dependent zinc metallopeptidase. Involved in the assembly and/or stability of the complex V of the mitochondrial oxidative phosphorylation system.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

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	113
194757108	740	GF11321 [Drosophila ananassae] gi|190622	1.0	0.152	0.668	3e-49
386768486	740	CG3499, isoform C [Drosophila melanogast	1.0	0.152	0.662	8e-49
24658770	736	CG3499, isoform B [Drosophila melanogast	1.0	0.153	0.662	9e-49
195346897	739	GM15603 [Drosophila sechellia] gi|194135	1.0	0.152	0.662	9e-49
194884696	737	GG20087 [Drosophila erecta] gi|190659501	1.0	0.153	0.662	9e-49
442624487	739	CG3499, isoform D [Drosophila melanogast	1.0	0.152	0.662	9e-49
195488933	735	GE11626 [Drosophila yakuba] gi|194178624	1.0	0.153	0.662	1e-48
198461041	745	GA17483 [Drosophila pseudoobscura pseudo	1.0	0.151	0.662	1e-48
195170272	744	GL10197 [Drosophila persimilis] gi|19411	1.0	0.151	0.662	1e-48
195585855	603	GD25099 [Drosophila simulans] gi|1941947	1.0	0.187	0.662	1e-48

>gi|194757108|ref|XP_001960807.1| GF11321 [Drosophila ananassae] gi|190622105|gb|EDV37629.1| GF11321 [Drosophila ananassae]

 Score =  198 bits (504), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 101/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLKNPEKFS LGGKLPKGVLL           
Sbjct: 294 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKNPEKFSNLGGKLPKGVLLVGPPGTGKTLL 353

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 354 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 413

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 414 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 444

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|386768486|ref|NP_001246473.1| CG3499, isoform C [Drosophila melanogaster] gi|328751836|gb|AEB39673.1| MIP17311p [Drosophila melanogaster] gi|383302656|gb|AFH08226.1| CG3499, isoform C [Drosophila melanogaster]

 Score =  197 bits (500), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLK+PEKFS LGGKLPKGVLL           
Sbjct: 294 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKSPEKFSNLGGKLPKGVLLVGPPGTGKTLL 353

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 354 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 413

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 414 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 444

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|24658770|ref|NP_726263.1| CG3499, isoform B [Drosophila melanogaster] gi|15291271|gb|AAK92904.1| GH14313p [Drosophila melanogaster] gi|23240115|gb|AAM71132.2| CG3499, isoform B [Drosophila melanogaster] gi|220945266|gb|ACL85176.1| CG3499-PB [synthetic construct] gi|220954998|gb|ACL90042.1| CG3499-PB [synthetic construct]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLK+PEKFS LGGKLPKGVLL           
Sbjct: 290 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKSPEKFSNLGGKLPKGVLLVGPPGTGKTLL 349

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 350 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 409

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 410 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 440

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195346897|ref|XP_002039991.1| GM15603 [Drosophila sechellia] gi|194135340|gb|EDW56856.1| GM15603 [Drosophila sechellia]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLK+PEKFS LGGKLPKGVLL           
Sbjct: 293 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKSPEKFSNLGGKLPKGVLLVGPPGTGKTLL 352

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 353 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 412

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 413 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 443

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194884696|ref|XP_001976314.1| GG20087 [Drosophila erecta] gi|190659501|gb|EDV56714.1| GG20087 [Drosophila erecta]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLK+PEKFS LGGKLPKGVLL           
Sbjct: 291 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKSPEKFSNLGGKLPKGVLLVGPPGTGKTLL 350

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 351 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 410

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 411 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 441

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442624487|ref|NP_001261142.1| CG3499, isoform D [Drosophila melanogaster] gi|440214588|gb|AGB93673.1| CG3499, isoform D [Drosophila melanogaster]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLK+PEKFS LGGKLPKGVLL           
Sbjct: 293 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKSPEKFSNLGGKLPKGVLLVGPPGTGKTLL 352

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 353 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 412

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 413 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 443

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195488933|ref|XP_002092523.1| GE11626 [Drosophila yakuba] gi|194178624|gb|EDW92235.1| GE11626 [Drosophila yakuba]

 Score =  197 bits (500), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLK+PEKFS LGGKLPKGVLL           
Sbjct: 289 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKSPEKFSNLGGKLPKGVLLVGPPGTGKTLL 348

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 349 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 408

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 409 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 439

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198461041|ref|XP_001361892.2| GA17483 [Drosophila pseudoobscura pseudoobscura] gi|198137214|gb|EAL26471.2| GA17483 [Drosophila pseudoobscura pseudoobscura]

 Score =  196 bits (499), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 107/151 (70%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF DV+G DEAKQELKE+VEFLKNP+KFS LGGKLPKGVLL           
Sbjct: 299 VDPEEINVTFDDVKGCDEAKQELKEVVEFLKNPDKFSNLGGKLPKGVLLVGPPGTGKTLL 358

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 359 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 418

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 419 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 449

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195170272|ref|XP_002025937.1| GL10197 [Drosophila persimilis] gi|194110801|gb|EDW32844.1| GL10197 [Drosophila persimilis]

 Score =  196 bits (499), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 107/151 (70%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF DV+G DEAKQELKE+VEFLKNP+KFS LGGKLPKGVLL           
Sbjct: 298 VDPEEINVTFDDVKGCDEAKQELKEVVEFLKNPDKFSNLGGKLPKGVLLVGPPGTGKTLL 357

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 358 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 417

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 418 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 448

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195585855|ref|XP_002082694.1| GD25099 [Drosophila simulans] gi|194194703|gb|EDX08279.1| GD25099 [Drosophila simulans]

 Score =  196 bits (499), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 100/151 (66%), Positives = 108/151 (71%), Gaps = 38/151 (25%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           VDPEEIN+TF+DV+G DEAKQELKE+VEFLK+PEKFS LGGKLPKGVLL           
Sbjct: 205 VDPEEINVTFEDVKGCDEAKQELKEVVEFLKSPEKFSNLGGKLPKGVLLVGPPGTGKTLL 264

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GARRVRDLFKAAK R PCV+FIDEIDSVGAKRT
Sbjct: 265 ARAVAGEAKVPFFHAAGPEFDEVLVGQGARRVRDLFKAAKARAPCVIFIDEIDSVGAKRT 324

Query: 83  NSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           NSVLHPYANQTINQLL+EMDGFHQN GV+VL
Sbjct: 325 NSVLHPYANQTINQLLSEMDGFHQNAGVIVL 355

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	113
FB|FBgn0034792	736	CG3499 [Drosophila melanogaste	0.557	0.085	0.904	1.7e-40
WB|WBGene00010842	723	ymel-1 [Caenorhabditis elegans	0.557	0.087	0.714	6.9e-32
UNIPROTKB|J9NRR9	694	YME1L1 "Uncharacterized protei	0.557	0.090	0.650	1.1e-29
MGI|MGI:1351651	715	Yme1l1 "YME1-like 1 (S. cerevi	0.557	0.088	0.650	1.2e-29
UNIPROTKB|G3V886	715	Yme1l1 "YME1-like 1 (S. cerevi	0.557	0.088	0.650	1.2e-29
UNIPROTKB|A6QR12	717	YME1L1 "Uncharacterized protei	0.557	0.087	0.650	1.2e-29
UNIPROTKB|F1PRV6	748	YME1L1 "Uncharacterized protei	0.557	0.084	0.650	1.4e-29
UNIPROTKB|F1RVK1	768	YME1L1 "Uncharacterized protei	0.557	0.082	0.650	1.6e-29
UNIPROTKB|Q96TA2	773	YME1L1 "ATP-dependent zinc met	0.557	0.081	0.650	1.6e-29
UNIPROTKB|F1NTK8	712	YME1L1 "Uncharacterized protei	0.557	0.088	0.666	2e-29

FB|FBgn0034792 CG3499 [Drosophila melanogaster (taxid:7227)]

 Score = 298 (110.0 bits), Expect = 1.7e-40, Sum P(2) = 1.7e-40
 Identities = 57/63 (90%), Positives = 60/63 (95%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             ARRVRDLFKAAK R PCV+FIDEIDSVGAKRTNSVLHPYANQTINQLL+EMDGFHQN GV
Sbjct:   378 ARRVRDLFKAAKARAPCVIFIDEIDSVGAKRTNSVLHPYANQTINQLLSEMDGFHQNAGV 437

Query:   111 VVL 113
             +VL
Sbjct:   438 IVL 440

GO:0004176 "ATP-dependent peptidase activity" evidence=ISS

GO:0005743 "mitochondrial inner membrane" evidence=ISS

GO:0004222 "metalloendopeptidase activity" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

WB|WBGene00010842 ymel-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 251 (93.4 bits), Expect = 6.9e-32, Sum P(2) = 6.9e-32
 Identities = 45/63 (71%), Positives = 56/63 (88%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             ARRVRDLF  AK R PC++FIDEIDSVG+KR ++ +HPYANQTINQLL+EMDGF +NEG+
Sbjct:   326 ARRVRDLFDKAKARAPCIIFIDEIDSVGSKRVSNSIHPYANQTINQLLSEMDGFTRNEGI 385

Query:   111 VVL 113
             +V+
Sbjct:   386 IVI 388

GO:0004222 "metalloendopeptidase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

UNIPROTKB|J9NRR9 YME1L1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 229 (85.7 bits), Expect = 1.1e-29, Sum P(2) = 1.1e-29
 Identities = 41/63 (65%), Positives = 51/63 (80%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R+LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   359 ASRIRNLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 418

Query:   111 VVL 113
             +++
Sbjct:   419 III 421

GO:0005524 "ATP binding" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004222 "metalloendopeptidase activity" evidence=IEA

MGI|MGI:1351651 Yme1l1 "YME1-like 1 (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 229 (85.7 bits), Expect = 1.2e-29, Sum P(2) = 1.2e-29
 Identities = 41/63 (65%), Positives = 51/63 (80%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R+LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   359 ASRIRNLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 418

Query:   111 VVL 113
             +++
Sbjct:   419 III 421

GO:0000166 "nucleotide binding" evidence=IEA

GO:0004222 "metalloendopeptidase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=ISO

GO:0006508 "proteolysis" evidence=IEA

GO:0006515 "misfolded or incompletely synthesized protein catabolic process" evidence=ISO

GO:0007005 "mitochondrion organization" evidence=ISO

GO:0008233 "peptidase activity" evidence=IEA

GO:0008237 "metallopeptidase activity" evidence=IEA

GO:0008283 "cell proliferation" evidence=ISO

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0030163 "protein catabolic process" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|G3V886 Yme1l1 "YME1-like 1 (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]

 Score = 229 (85.7 bits), Expect = 1.2e-29, Sum P(2) = 1.2e-29
 Identities = 41/63 (65%), Positives = 51/63 (80%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R+LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   359 ASRIRNLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 418

Query:   111 VVL 113
             +++
Sbjct:   419 III 421

GO:0004222 "metalloendopeptidase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

GO:0030163 "protein catabolic process" evidence=IEA

UNIPROTKB|A6QR12 YME1L1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 229 (85.7 bits), Expect = 1.2e-29, Sum P(2) = 1.2e-29
 Identities = 41/63 (65%), Positives = 51/63 (80%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R+LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   359 ASRIRNLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 418

Query:   111 VVL 113
             +++
Sbjct:   419 III 421

GO:0008283 "cell proliferation" evidence=ISS

GO:0005743 "mitochondrial inner membrane" evidence=ISS

GO:0007005 "mitochondrion organization" evidence=ISS

GO:0006515 "misfolded or incompletely synthesized protein catabolic process" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

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

GO:0004222 "metalloendopeptidase activity" evidence=IEA

UNIPROTKB|F1PRV6 YME1L1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 229 (85.7 bits), Expect = 1.4e-29, Sum P(2) = 1.4e-29
 Identities = 41/63 (65%), Positives = 51/63 (80%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R+LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   393 ASRIRNLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 452

Query:   111 VVL 113
             +++
Sbjct:   453 III 455

GO:0005524 "ATP binding" evidence=IEA

GO:0030163 "protein catabolic process" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0004222 "metalloendopeptidase activity" evidence=IEA

UNIPROTKB|F1RVK1 YME1L1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 229 (85.7 bits), Expect = 1.6e-29, Sum P(2) = 1.6e-29
 Identities = 41/63 (65%), Positives = 51/63 (80%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R+LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   412 ASRIRNLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 471

Query:   111 VVL 113
             +++
Sbjct:   472 III 474

GO:0008283 "cell proliferation" evidence=IEA

GO:0007005 "mitochondrion organization" evidence=IEA

GO:0006515 "misfolded or incompletely synthesized protein catabolic process" evidence=IEA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0004222 "metalloendopeptidase activity" evidence=IEA

UNIPROTKB|Q96TA2 YME1L1 "ATP-dependent zinc metalloprotease YME1L1" [Homo sapiens (taxid:9606)]

 Score = 229 (85.7 bits), Expect = 1.6e-29, Sum P(2) = 1.6e-29
 Identities = 41/63 (65%), Positives = 51/63 (80%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R+LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   417 ASRIRNLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 476

Query:   111 VVL 113
             +++
Sbjct:   477 III 479

GO:0004222 "metalloendopeptidase activity" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005743 "mitochondrial inner membrane" evidence=IDA

GO:0007005 "mitochondrion organization" evidence=IMP

GO:0006515 "misfolded or incompletely synthesized protein catabolic process" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

UNIPROTKB|F1NTK8 YME1L1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 229 (85.7 bits), Expect = 2.0e-29, Sum P(2) = 2.0e-29
 Identities = 42/63 (66%), Positives = 50/63 (79%)

Query:    51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGV 110
             A R+R LF+ AK   PCV+FIDE+DSVG KR  S +HPY+ QTINQLLAEMDGF  NEGV
Sbjct:   356 ASRIRSLFREAKANAPCVIFIDELDSVGGKRIESPMHPYSRQTINQLLAEMDGFKPNEGV 415

Query:   111 VVL 113
             V++
Sbjct:   416 VII 418

GO:0004222 "metalloendopeptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

GO:0030163 "protein catabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P54813	YME1_CAEEL	3, ., 4, ., 2, 4, ., -	0.5231	1.0	0.1562	yes	N/A
O88967	YMEL1_MOUSE	3, ., 4, ., 2, 4, ., -	0.5065	1.0	0.1580	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	113
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	2e-45
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	2e-39
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	4e-38
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	8e-31
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	3e-29
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	9e-28
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	3e-22
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	2e-20
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	6e-20
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	4e-19
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	1e-17
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	3e-16
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	2e-15
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-13
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	6e-06
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	2e-04
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	0.002
smart00382	148	smart00382, AAA, ATPases associated with a variety	0.003

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

 Score =  152 bits (386), Expect = 2e-45
 Identities = 68/150 (45%), Positives = 84/150 (56%), Gaps = 40/150 (26%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
           E+  +TFKDV G+DEAK+EL EIV+FLKNP KF+ LG K+PKGVLL              
Sbjct: 48  EKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKA 107

Query: 50  ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                                   GA RVRDLF+ AK   PC++FIDEID+VG +R   +
Sbjct: 108 VAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGL 167

Query: 86  LHPY--ANQTINQLLAEMDGFHQNEGVVVL 113
                   QT+NQLL EMDGF  N GV+V+
Sbjct: 168 GGGNDEREQTLNQLLVEMDGFGTNTGVIVI 197

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 495

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

 Score =  137 bits (348), Expect = 2e-39
 Identities = 66/152 (43%), Positives = 85/152 (55%), Gaps = 40/152 (26%)

Query: 2   DPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL------------ 49
             +++ +TF DV GVDEAK+EL E+V+FLKNP+K+  LG K+PKGVLL            
Sbjct: 141 LEDQVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLA 200

Query: 50  --------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR-- 81
                                     GA RVRDLF+ AK   PC++FIDEID+VG +R  
Sbjct: 201 KAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGA 260

Query: 82  TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
                +    QT+NQLL EMDGF  NEGV+V+
Sbjct: 261 GLGGGNDEREQTLNQLLVEMDGFGGNEGVIVI 292

Length = 596

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

 Score =  134 bits (339), Expect = 4e-38
 Identities = 63/146 (43%), Positives = 85/146 (58%), Gaps = 40/146 (27%)

Query: 8   ITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL------------------ 49
           ITF+D+ G++EAK+E +E+V FLK PE+F+ +G K+PKGVLL                  
Sbjct: 180 ITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE 239

Query: 50  --------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LH 87
                               GA RVRDLFK AK+ +PC+VFIDEID+VG +R   +   +
Sbjct: 240 AEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGN 299

Query: 88  PYANQTINQLLAEMDGFHQNEGVVVL 113
               QT+NQLL EMDGF  N+GV+V+
Sbjct: 300 DEREQTLNQLLTEMDGFKGNKGVIVI 325

Length = 638

>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed

 Score =  113 bits (285), Expect = 8e-31
 Identities = 61/150 (40%), Positives = 83/150 (55%), Gaps = 40/150 (26%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
           ++I  TF DV G DEAK+E+ E+VE+L+ P +F  LGGK+PKGVL+              
Sbjct: 145 DQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKA 204

Query: 50  ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                                   GA RVRD+F+ AK   PC++FIDEID+VG +R   +
Sbjct: 205 IAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGL 264

Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              H    QT+NQ+L EMDGF  NEG++V+
Sbjct: 265 GGGHDEREQTLNQMLVEMDGFEGNEGIIVI 294

Length = 644

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

 Score =  107 bits (270), Expect = 3e-29
 Identities = 52/144 (36%), Positives = 75/144 (52%), Gaps = 51/144 (35%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
           N+T++D+ G++E  +E++E VE  LK PE F  +G + PKGVLL                
Sbjct: 127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVA 186

Query: 50  ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--- 84
                                 GAR VR+LF+ A+++ P ++FIDEID++ AKRT+S   
Sbjct: 187 HETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTS 246

Query: 85  ----VLHPYANQTINQLLAEMDGF 104
               V      +T+ QLLAEMDGF
Sbjct: 247 GDREV-----QRTLMQLLAEMDGF 265

Length = 389

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

 Score =  104 bits (261), Expect = 9e-28
 Identities = 54/156 (34%), Positives = 80/156 (51%), Gaps = 51/156 (32%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------- 49
           E+ ++T++D+ G+DE  QE++E+VE  LKNPE F  LG   PKGVLL             
Sbjct: 144 EKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAK 203

Query: 50  -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                    GAR VR+LF+ A+++ P ++FIDEID++GAKR +S
Sbjct: 204 AVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDS 263

Query: 85  -------VLHPYANQTINQLLAEMDGFHQNEGVVVL 113
                  V      +T+ +LL ++DGF     V V+
Sbjct: 264 GTSGDREV-----QRTMLELLNQLDGFDPRGNVKVI 294

Length = 406

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

 Score = 88.7 bits (220), Expect = 3e-22
 Identities = 52/151 (34%), Positives = 79/151 (52%), Gaps = 41/151 (27%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------- 49
           E  N++++D+ G++E  +E++E VE  LK+PE F  +G + PKGVLL             
Sbjct: 115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAK 174

Query: 50  -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                    GAR VR++F+ AK++ P ++FIDEID++ AKRT+S
Sbjct: 175 AVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDS 234

Query: 85  VL--HPYANQTINQLLAEMDGFHQNEGVVVL 113
                    +T+ QLLAE+DGF     V V+
Sbjct: 235 GTSGDREVQRTLMQLLAELDGFDPRGNVKVI 265

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

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

 Score = 84.6 bits (209), Expect = 2e-20
 Identities = 46/146 (31%), Positives = 71/146 (48%), Gaps = 39/146 (26%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
           N+ + D+ G++E KQEL+E VE+ LK+PE F  +G + PKGVLL                
Sbjct: 449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVA 508

Query: 50  ---GA-------------------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
              GA                   + +R++F+ A+   P ++F DEID++   R      
Sbjct: 509 TESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDT 568

Query: 88  PYANQTINQLLAEMDGFHQNEGVVVL 113
              ++ +NQLL EMDG  +   VVV+
Sbjct: 569 SVTDRIVNQLLTEMDGIQELSNVVVI 594

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

 Score = 82.6 bits (204), Expect = 6e-20
 Identities = 50/150 (33%), Positives = 73/150 (48%), Gaps = 42/150 (28%)

Query: 1   VDPEEI-NITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------- 49
            D E I +IT  DV G +EAK++ + I+E+L+NPE+F   G   PK VL           
Sbjct: 110 EDREIISDITLDDVIGQEEAKRKCRLIMEYLENPERF---GDWAPKNVLFYGPPGTGKTM 166

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                       GARR+ +L++ A+   PC+VFIDE+D++   R
Sbjct: 167 MAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDR 226

Query: 82  TNSVLHPYANQTINQLLAEMDGFHQNEGVV 111
               L    ++ +N LL E+DG  +NEGVV
Sbjct: 227 RYQELRGDVSEIVNALLTELDGIKENEGVV 256

Length = 368

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

 Score = 80.6 bits (199), Expect = 4e-19
 Identities = 50/152 (32%), Positives = 74/152 (48%), Gaps = 40/152 (26%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
           V  E+ ++T  D+ G++EAK+ELKE +E  LK PE F  LG + PKGVLL          
Sbjct: 232 VLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTL 291

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                         + +R+LF+ A+   P ++FIDEIDS+ + R
Sbjct: 292 LAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGR 351

Query: 82  TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
             S       + + QLL E+DG  + EGV+V+
Sbjct: 352 GPSE-DGSGRRVVGQLLTELDGIEKAEGVLVI 382

Length = 494

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

 Score = 72.2 bits (178), Expect = 1e-17
 Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 1/75 (1%)

Query: 39  LGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLL 98
               + K V    +R+R+LF+AAK   PCV+FIDEID++   R  S     + + +NQLL
Sbjct: 31  GSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSR-GSGGDSESRRVVNQLL 89

Query: 99  AEMDGFHQNEGVVVL 113
            E+DGF  +   V++
Sbjct: 90  TELDGFTSSLSKVIV 104

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

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

 Score = 72.1 bits (177), Expect = 3e-16
 Identities = 47/158 (29%), Positives = 72/158 (45%), Gaps = 55/158 (34%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------- 49
           E+ ++T+ D+ G+D  KQE++E VE  L  PE +  +G   P+GVLL             
Sbjct: 138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAK 197

Query: 50  -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                    G R VRD+F+ A++  P ++FIDE+DS+  KR ++
Sbjct: 198 AVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDA 257

Query: 85  VLHPYANQT---------INQLLAEMDGFHQNEGVVVL 113
                  QT         + +LL +MDGF Q   V V+
Sbjct: 258 -------QTGADREVQRILLELLNQMDGFDQTTNVKVI 288

Length = 398

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

 Score = 69.8 bits (171), Expect = 2e-15
 Identities = 46/152 (30%), Positives = 71/152 (46%), Gaps = 44/152 (28%)

Query: 3   PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------ 49
           P E   ++ D+ G+++  QE+KE VE  L +PE +  +G K PKGV+L            
Sbjct: 178 PLE---SYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLA 234

Query: 50  --------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR-- 81
                                     G + VR+LF+ A++  P +VFIDEID++G KR  
Sbjct: 235 KAVANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYD 294

Query: 82  TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
             S       +T+ +LL ++DGF     V V+
Sbjct: 295 ATSGGEKEIQRTMLELLNQLDGFDSRGDVKVI 326

Length = 438

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

 Score = 65.3 bits (159), Expect = 1e-13
 Identities = 46/146 (31%), Positives = 72/146 (49%), Gaps = 40/146 (27%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
            +T++D+ G+ EAK++++E+VE  +K+PE F  LG + PKGVLL                
Sbjct: 174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVA 233

Query: 50  ---GA-------------------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
              GA                    R+R++FK A++  P ++FIDEID++  KR   V  
Sbjct: 234 NEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR-EEVTG 292

Query: 88  PYANQTINQLLAEMDGFHQNEGVVVL 113
               + + QLL  MDG      V+V+
Sbjct: 293 EVEKRVVAQLLTLMDGLKGRGRVIVI 318

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|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score = 43.2 bits (102), Expect = 6e-06
 Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 52  RRVRDLF----KAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN 107
           R++R +F    + A +  P +VF DE+DS+   R + V        + QLLAE+DG    
Sbjct: 272 RQIRLIFQRAREKASEGRPVIVFFDEMDSLFRTRGSGVSSDVETTVVPQLLAEIDGVESL 331

Query: 108 EGVVVL 113
           + V+V+
Sbjct: 332 DNVIVI 337

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

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

 Score = 39.0 bits (91), Expect = 2e-04
 Identities = 23/60 (38%), Positives = 37/60 (61%), Gaps = 1/60 (1%)

Query: 52  RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVV 111
            R+R+LF+ A+   P ++FIDEID++  KR +S       + + QLLA MDG  + + +V
Sbjct: 63  LRLRELFEEAEKLAPSIIFIDEIDALAPKR-SSDQGEVERRVVAQLLALMDGLKRGQVIV 121

Length = 494

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 35.6 bits (82), Expect = 0.002
 Identities = 23/66 (34%), Positives = 30/66 (45%), Gaps = 8/66 (12%)

Query: 48  LLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN 107
           L G   VR LF+ A+   P V+FIDEIDS+     N++L          L    D     
Sbjct: 67  LFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALL--------RVLETLNDLRIDR 118

Query: 108 EGVVVL 113
           E V V+
Sbjct: 119 ENVRVI 124

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

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

 Score = 34.7 bits (79), Expect = 0.003
 Identities = 12/42 (28%), Positives = 19/42 (45%)

Query: 45 KGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL 86
          K    G  R+R     A+   P V+ +DEI S+      ++L
Sbjct: 58 KASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALL 99

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	113
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.98
KOG0730|consensus	693		99.98
KOG0733|consensus	802		99.97
KOG0736|consensus	953		99.97
KOG0734|consensus	752		99.96
KOG0733|consensus	802		99.95
KOG0727|consensus	408		99.95
KOG0739|consensus	439		99.93
KOG0735|consensus	952		99.93
KOG0726|consensus	440		99.93
KOG0738|consensus	491		99.92
KOG0731|consensus	774		99.92
KOG0652|consensus	424		99.91
KOG0728|consensus	404		99.91
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.9
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.9
KOG0729|consensus	435		99.9
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.88
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.88
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.88
KOG0737|consensus	386		99.87
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.86
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.84
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.83
KOG0732|consensus	1080		99.81
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.81
KOG0651|consensus	388		99.8
CHL00176	638	ftsH cell division protein; Validated	99.78
CHL00195	489	ycf46 Ycf46; Provisional	99.76
KOG0730|consensus	693		99.75
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.75
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.75
KOG0741|consensus	744		99.73
KOG0740|consensus	428		99.72
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.71
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.65
CHL00206	2281	ycf2 Ycf2; Provisional	99.17
KOG0744|consensus	423		99.0
CHL00181	287	cbbX CbbX; Provisional	98.99
PF00004	132	AAA: ATPase family associated with various cellula	98.9
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.88
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.69
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	98.45
KOG0743|consensus	457		98.38
KOG0742|consensus	630		98.33
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.86
CHL00095	821	clpC Clp protease ATP binding subunit	97.73
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.42
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.4
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.36
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.32
PRK10865	857	protein disaggregation chaperone; Provisional	97.3
KOG0735|consensus	952		97.24
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.98
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.95
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.72
PRK04195	482	replication factor C large subunit; Provisional	96.38
KOG0736|consensus	953		95.75
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.54
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.41
COG2256	436	MGS1 ATPase related to the helicase subunit of the	95.29
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	95.23
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.14
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.06
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.99
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	94.95
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	94.91
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	94.85
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	94.68
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	94.67
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	94.66
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	94.58
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	94.56
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	94.53
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	94.5
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	94.41
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	94.35
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	94.32
PRK13342	413	recombination factor protein RarA; Reviewed	94.22
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	93.94
smart00382	148	AAA ATPases associated with a variety of cellular	93.84
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	93.83
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	93.61
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	93.58
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	93.53
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	93.45
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	93.33
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	93.32
KOG0989|consensus	346		93.29
KOG2004|consensus	906		93.26
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	93.2
PLN03025	319	replication factor C subunit; Provisional	93.17
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	93.14
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	92.8
PRK00411	394	cdc6 cell division control protein 6; Reviewed	92.63
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	91.9
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	91.88
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	91.88
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	91.69
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	91.65
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	91.65
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	91.49
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	91.47
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	91.12
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	90.55
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	90.29
KOG0745|consensus	564		90.12
PRK05564	313	DNA polymerase III subunit delta'; Validated	90.05
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	90.02
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	89.98
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	89.95
PHA02544	316	44 clamp loader, small subunit; Provisional	89.92
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	89.58
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	89.56
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	89.03
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	88.59
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	88.44
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	88.11
KOG0741|consensus	744		87.96
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	87.95
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	87.09
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	87.06
PRK00440	319	rfc replication factor C small subunit; Reviewed	86.81
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	86.58
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	86.31
PTZ00112	1164	origin recognition complex 1 protein; Provisional	85.8
TIGR02237	209	recomb_radB DNA repair and recombination protein R	85.3
PRK14088	440	dnaA chromosomal replication initiation protein; P	84.52
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	84.43
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	84.19
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	83.59
KOG0732|consensus	1080		83.24
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	82.98
KOG2170|consensus	344		82.72
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	82.56
PF04465	1035	DUF499: Protein of unknown function (DUF499); Inte	82.48
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	81.93
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	80.69
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	80.66
KOG0990|consensus	360		80.42

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

Probab=99.98  E-value=1.9e-32  Score=200.46  Aligned_cols=110  Identities=48%  Similarity=0.820  Sum_probs=103.2

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||||+++++++|++.+++ ++||++|.+.|+.||+||||                                 
T Consensus       144 e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVq  223 (406)
T COG1222         144 EKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQ  223 (406)
T ss_pred             cCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHH
Confidence            57999999999999999999999999 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +++.+|++|+.|++++||||||||||+++++|.++  +++.+..|.+-+||+|||||...++|-||
T Consensus       224 KYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI  294 (406)
T COG1222         224 KYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVI  294 (406)
T ss_pred             HHhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence                 78999999999999999999999999999999754  44578899999999999999999888876

>KOG0730|consensus

Probab=99.98  E-value=2.5e-32  Score=211.04  Aligned_cols=110  Identities=41%  Similarity=0.772  Sum_probs=104.4

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|+++|+||||++++|.+|++.|.| ++||+.|.++|++||+||||                                
T Consensus       426 ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~  505 (693)
T KOG0730|consen  426 VEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELF  505 (693)
T ss_pred             ccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHH
Confidence            467899999999999999999999999 99999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            ||++|+++|++||+.+|||+||||+|++++.|+++. ++...|++|+||++|||+...++|+||
T Consensus       506 sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~-~~v~~RVlsqLLtEmDG~e~~k~V~Vi  574 (693)
T KOG0730|consen  506 SKYVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSS-SGVTDRVLSQLLTEMDGLEALKNVLVI  574 (693)
T ss_pred             HHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCc-cchHHHHHHHHHHHcccccccCcEEEE
Confidence                  899999999999999999999999999999998544 588899999999999999999999886

>KOG0733|consensus

Probab=99.97  E-value=5.5e-31  Score=202.69  Aligned_cols=109  Identities=36%  Similarity=0.692  Sum_probs=103.8

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      ..|.|+|+|||++++++.+|+..|.+ +++|+.|+++|+.+|.|+||                                 
T Consensus       504 tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlN  583 (802)
T KOG0733|consen  504 TVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLN  583 (802)
T ss_pred             ecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHH
Confidence            35899999999999999999998888 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ||+.+|++|..||+++||||||||+|+|+++|+.++ ++...|++||||++|||+....+|+||
T Consensus       584 kYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~-s~~s~RvvNqLLtElDGl~~R~gV~vi  651 (802)
T KOG0733|consen  584 KYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEG-SSVSSRVVNQLLTELDGLEERRGVYVI  651 (802)
T ss_pred             HHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCC-chhHHHHHHHHHHHhcccccccceEEE
Confidence                 899999999999999999999999999999999877 667889999999999999999999986

>KOG0736|consensus

Probab=99.97  E-value=1.8e-30  Score=203.50  Aligned_cols=111  Identities=37%  Similarity=0.697  Sum_probs=101.3

Q ss_pred             CCCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-------------------------------
Q psy5205           2 DPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-------------------------------   49 (113)
Q Consensus         2 ~~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-------------------------------   49 (113)
                      .|.-|+|+|+||||++++|.+|.+.|.+ ++||++|.. |.++..||||                               
T Consensus       663 APKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPEL  741 (953)
T KOG0736|consen  663 APKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPEL  741 (953)
T ss_pred             CCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHH
Confidence            5788999999999999999999999999 999999975 6777788888                               


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCC-chhHHHHHHHHHHhcCCC--CCCceEEc
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH-PYANQTINQLLAEMDGFH--QNEGVVVL  113 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~-~~~~~i~~~lL~~ld~~~--~~~~v~vi  113 (113)
                             ||+|+|++|++||+.+||||||||+|+++++|+.++++ +.++|+|+|||.+|||+.  ..+.|+||
T Consensus       742 LNMYVGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFVi  815 (953)
T KOG0736|consen  742 LNMYVGQSEENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVI  815 (953)
T ss_pred             HHHHhcchHHHHHHHHHHhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEE
Confidence                   89999999999999999999999999999999976654 789999999999999997  56778876

>KOG0734|consensus

Probab=99.96  E-value=4.1e-29  Score=190.41  Aligned_cols=111  Identities=75%  Similarity=1.208  Sum_probs=104.0

Q ss_pred             CCCC-CCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec-------------------------------
Q psy5205           2 DPEE-INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------------------------   49 (113)
Q Consensus         2 ~~~~-~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl-------------------------------   49 (113)
                      +|+. .+++|+|+-|.++.|++|++++.++++|..|.++|.+.|+||||                               
T Consensus       294 ~p~~~~nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEF  373 (752)
T KOG0734|consen  294 DPEQMKNVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEF  373 (752)
T ss_pred             ChhhhcccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccch
Confidence            3444 38999999999999999999999999999999999999999999                               


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                             +.+++|++|+.|++++||||||||+|+++++|.....+ +.+..+||||.+|||+.++.+|+||
T Consensus       374 dEm~VGvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~-y~kqTlNQLLvEmDGF~qNeGiIvi  443 (752)
T KOG0734|consen  374 DEMFVGVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQH-YAKQTLNQLLVEMDGFKQNEGIIVI  443 (752)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHH-HHHHHHHHHHHHhcCcCcCCceEEE
Confidence                   78999999999999999999999999999999877645 8999999999999999999999986

>KOG0733|consensus

Probab=99.95  E-value=1.3e-27  Score=184.12  Aligned_cols=109  Identities=40%  Similarity=0.766  Sum_probs=100.6

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      ..++++|+||||++.+..+|.+++..++||+.|..+|+.||+|+||                                  
T Consensus       183 ~~snv~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSG  262 (802)
T KOG0733|consen  183 PESNVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSG  262 (802)
T ss_pred             CCCCcchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcc
Confidence            4458999999999999999999999999999999999999999999                                  


Q ss_pred             ----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC----CceEEc
Q psy5205          50 ----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN----EGVVVL  113 (113)
Q Consensus        50 ----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~----~~v~vi  113 (113)
                          ||++||++|++|+.++|||+||||||+++++|...+ ....+|+|.|||+.||++...    +.|+||
T Consensus       263 vSGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aq-reMErRiVaQLlt~mD~l~~~~~~g~~VlVI  333 (802)
T KOG0733|consen  263 VSGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQ-REMERRIVAQLLTSMDELSNEKTKGDPVLVI  333 (802)
T ss_pred             cCcccHHHHHHHHHHHhccCCeEEEeecccccccchhhHH-HHHHHHHHHHHHHhhhcccccccCCCCeEEE
Confidence                899999999999999999999999999999998755 678899999999999999543    667776

>KOG0727|consensus

Probab=99.95  E-value=1.8e-27  Score=169.10  Aligned_cols=111  Identities=39%  Similarity=0.717  Sum_probs=103.0

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .++|.+++.||||++-+|+++++.+++ +.|.++|+..|+.||+|+|+                                
T Consensus       147 ~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefv  226 (408)
T KOG0727|consen  147 DEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFV  226 (408)
T ss_pred             CCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHH
Confidence            467999999999999999999999999 99999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCC--CCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN--SVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~--~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            +++.+|.+|..|++++|+|+||||+|+++.+|-+  ++.+.+..|++-+||++|||+....+|-||
T Consensus       227 qkylgegprmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvi  298 (408)
T KOG0727|consen  227 QKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVI  298 (408)
T ss_pred             HHHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEE
Confidence                  6788999999999999999999999999999953  344678899999999999999999888775

>KOG0739|consensus

Probab=99.93  E-value=2.2e-26  Score=166.19  Aligned_cols=110  Identities=35%  Similarity=0.614  Sum_probs=98.8

Q ss_pred             CCCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-------------------------------
Q psy5205           2 DPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-------------------------------   49 (113)
Q Consensus         2 ~~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-------------------------------   49 (113)
                      ..++|++.|+||+|++..|+.|++.+.+ ++.|.+|.. +..|.+|+||                               
T Consensus       124 v~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtG-kR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDL  202 (439)
T KOG0739|consen  124 VREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTG-KRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL  202 (439)
T ss_pred             hccCCCCchhhhccchhHHHHHHhheeecccchhhhcC-CCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHH
Confidence            4689999999999999999999998888 999999874 3567899999                               


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC-CCCceEEc
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH-QNEGVVVL  113 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~-~~~~v~vi  113 (113)
                             ||+.++.+|++||++.|+||||||||++|++|+.+. +...+||..+||.||+|+. .+.+|+|+
T Consensus       203 vSKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enE-seasRRIKTEfLVQMqGVG~d~~gvLVL  273 (439)
T KOG0739|consen  203 VSKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENE-SEASRRIKTEFLVQMQGVGNDNDGVLVL  273 (439)
T ss_pred             HHHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCc-hHHHHHHHHHHHHhhhccccCCCceEEE
Confidence                   899999999999999999999999999999998766 7788999999999999994 55677764

>KOG0735|consensus

Probab=99.93  E-value=4.3e-26  Score=178.08  Aligned_cols=106  Identities=39%  Similarity=0.699  Sum_probs=100.7

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec------------------------------------
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------------------------------   49 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl------------------------------------   49 (113)
                      .++|+||||+.++|+.|++.+.+ -++|..|.+.+++.+.||||                                    
T Consensus       663 gi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyI  742 (952)
T KOG0735|consen  663 GIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYI  742 (952)
T ss_pred             CCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHh
Confidence            49999999999999999999999 99999999999999999999                                    


Q ss_pred             --hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 --GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 --~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                        ||+++|.+|.+|+..+||||||||+|+++++|+.++ .+..+|++||||++|||..+-.+|+|+
T Consensus       743 GaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDs-TGVTDRVVNQlLTelDG~Egl~GV~i~  807 (952)
T KOG0735|consen  743 GASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDS-TGVTDRVVNQLLTELDGAEGLDGVYIL  807 (952)
T ss_pred             cccHHHHHHHHHHhhccCCeEEEeccccccCcccCCCC-CCchHHHHHHHHHhhccccccceEEEE
Confidence              899999999999999999999999999999998766 668899999999999999999999875

>KOG0726|consensus

Probab=99.93  E-value=7.3e-26  Score=163.19  Aligned_cols=109  Identities=41%  Similarity=0.716  Sum_probs=99.1

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      .|+-+|+||||++.+.++|.+.+++ +.||+.|..+|++||+|++|                                  
T Consensus       179 aP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQk  258 (440)
T KOG0726|consen  179 APQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQK  258 (440)
T ss_pred             CchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHH
Confidence            4778999999999999999999999 99999999999999999999                                  


Q ss_pred             ----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                          +++.+|++|..|.+++|+|+||||||+++.+|-++++  ..+..|..-+||+|+||+.+...|-||
T Consensus       259 ylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvi  328 (440)
T KOG0726|consen  259 YLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVI  328 (440)
T ss_pred             HhccchHHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCeEEE
Confidence                6889999999999999999999999999999965543  356778888999999999988877765

>KOG0738|consensus

Probab=99.92  E-value=4e-25  Score=163.60  Aligned_cols=103  Identities=38%  Similarity=0.551  Sum_probs=95.5

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      -.+|++.|+||.|+++.|+-|++++.+ +.-|+.|+.. .+|.+|+|+                                
T Consensus       204 ~~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~Gi-rrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstlt  282 (491)
T KOG0738|consen  204 QRNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGI-RRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLT  282 (491)
T ss_pred             ccCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhc-ccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhh
Confidence            357899999999999999999999988 9999988753 577899999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ  106 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~  106 (113)
                            |||.+|-+|++||.++|++|||||||+||.+|+++++|+.++|+.++||.||||+.+
T Consensus       283 SKwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~  345 (491)
T KOG0738|consen  283 SKWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQG  345 (491)
T ss_pred             hhhccchHHHHHHHHHHHHHhCCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhcccc
Confidence                  899999999999999999999999999999999999899999999999999999954

>KOG0731|consensus

Probab=99.92  E-value=1.2e-24  Score=171.83  Aligned_cols=110  Identities=58%  Similarity=0.932  Sum_probs=100.2

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      .++.++|+|++|.++.|++|++++.+|+||+.|.++|.+.|+|+||                                  
T Consensus       304 ~~t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~  383 (774)
T KOG0731|consen  304 GNTGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEM  383 (774)
T ss_pred             CCCCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHH
Confidence            4556999999999999999999999999999999999999999999                                  


Q ss_pred             ----hHHHHHHHHHHHHhCCCeEEEEccccccccccC---CCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT---NSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~---~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                          +..+++.+|..|+.++|||+||||+|+++..|+   ..+.+.+....+||||.+|||+...++|+|+
T Consensus       384 ~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~  454 (774)
T KOG0731|consen  384 FVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVL  454 (774)
T ss_pred             hcccchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEE
Confidence                578899999999999999999999999999995   2234556678999999999999988888875

>KOG0652|consensus

Probab=99.91  E-value=3.5e-24  Score=152.91  Aligned_cols=111  Identities=40%  Similarity=0.686  Sum_probs=101.9

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .++|+-+|+||||++.+.++|-+.+.+ +.|++.|.++|++||+|+|+                                
T Consensus       163 DekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLV  242 (424)
T KOG0652|consen  163 DEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLV  242 (424)
T ss_pred             ccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHH
Confidence            467999999999999999999998888 99999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            +.+.+|..|+.|++.+|+|+||||+|+++.+|.++.  ++.+..|..-+||+|+||+.++..|-||
T Consensus       243 QMfIGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKvi  314 (424)
T KOG0652|consen  243 QMFIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVI  314 (424)
T ss_pred             hhhhcchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEE
Confidence                  789999999999999999999999999999997554  3467889999999999999999888775

>KOG0728|consensus

Probab=99.91  E-value=3.3e-24  Score=152.35  Aligned_cols=109  Identities=39%  Similarity=0.720  Sum_probs=99.9

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      .|..+|+-|||++.+.++|++.+++ .+||++|..+|+..|+|+||                                  
T Consensus       141 vPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk  220 (404)
T KOG0728|consen  141 VPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQK  220 (404)
T ss_pred             CCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHH
Confidence            4778999999999999999999999 99999999999999999999                                  


Q ss_pred             ----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                          +.+.+|++|-+||+++|+|+|.||+|+++.+|..+  +++++..|..-+||+|+||+...+++-||
T Consensus       221 ~igegsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvi  290 (404)
T KOG0728|consen  221 YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVI  290 (404)
T ss_pred             HhhhhHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEE
Confidence                67889999999999999999999999999999633  34577889999999999999988888775

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

Probab=99.90  E-value=7.5e-24  Score=164.44  Aligned_cols=111  Identities=59%  Similarity=0.999  Sum_probs=100.5

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +....++|+|++|.++.|+++.+++..+++|..|.++|..-|+|+||                                 
T Consensus       142 ~~~~~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVe  221 (596)
T COG0465         142 EDQVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVE  221 (596)
T ss_pred             ccccCcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhh
Confidence            34578999999999999999999999999999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +.+.+|++|.+|++++|||+||||+|+++..|+.+  +++.+-...+||+|++|||+..+.+|+||
T Consensus       222 mfVGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gvivi  292 (596)
T COG0465         222 MFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVI  292 (596)
T ss_pred             hhcCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEE
Confidence                 67899999999999999999999999999999743  33445557999999999999988888875

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

Probab=99.90  E-value=1.8e-23  Score=160.65  Aligned_cols=110  Identities=45%  Similarity=0.760  Sum_probs=102.0

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|.++|+|++|++.+|+.+++.+.+ +.+++.|.++++.+++|+||                                
T Consensus       234 ~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~  313 (494)
T COG0464         234 FEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELL  313 (494)
T ss_pred             cCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHh
Confidence            467899999999999999999999999 99999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            +|++++++|..|++.+||||||||+|++++.|+.+. ++..+|++++||++||++...++|+||
T Consensus       314 sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~-~~~~~r~~~~lL~~~d~~e~~~~v~vi  382 (494)
T COG0464         314 SKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSE-DGSGRRVVGQLLTELDGIEKAEGVLVI  382 (494)
T ss_pred             ccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCC-chHHHHHHHHHHHHhcCCCccCceEEE
Confidence                  899999999999999999999999999999998766 333479999999999999999998875

>KOG0729|consensus

Probab=99.90  E-value=2.1e-23  Score=149.38  Aligned_cols=110  Identities=41%  Similarity=0.749  Sum_probs=101.0

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      ++|.+++.|+||..++.+.|++.++. +-||+.|.++|+.||+|+|+                                 
T Consensus       170 ekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigselvq  249 (435)
T KOG0729|consen  170 EKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQ  249 (435)
T ss_pred             cCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHH
Confidence            67999999999999999999999999 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +.+.+|++|++|+....||+||||+|++++.|-+.  +++++..|..-++++||||+...+++-|+
T Consensus       250 kyvgegarmvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvl  320 (435)
T KOG0729|consen  250 KYVGEGARMVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVL  320 (435)
T ss_pred             HHhhhhHHHHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence                 67889999999999999999999999999999543  44678889999999999999888877663

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.88  E-value=3.9e-22  Score=159.48  Aligned_cols=110  Identities=41%  Similarity=0.753  Sum_probs=101.4

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|.++|+||+|++.+|++|++.+.+ +++++.|.++|.++|+|+||                                 
T Consensus       446 ~~~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~  525 (733)
T TIGR01243       446 EVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILS  525 (733)
T ss_pred             cccccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhh
Confidence            35789999999999999999999998 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++++|+.|++.+||||||||+|+++++|+....+...++++|+||++|||+...++++||
T Consensus       526 ~~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI  594 (733)
T TIGR01243       526 KWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVI  594 (733)
T ss_pred             cccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEE
Confidence                 6899999999999999999999999999999986655667789999999999999887888775

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.

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

Probab=99.88  E-value=5.4e-22  Score=149.35  Aligned_cols=111  Identities=41%  Similarity=0.741  Sum_probs=98.7

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|+++|+||||++.+|++|++.+.+ +.+|+.|.++|+.+|+|+||                                
T Consensus       137 ~~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~  216 (398)
T PTZ00454        137 SEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFV  216 (398)
T ss_pred             cCCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHH
Confidence            467999999999999999999999988 99999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            +++.++++|..|+.++||||||||+|+++.+|.+..  .+....+++.+||++||++....+++||
T Consensus       217 ~k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI  288 (398)
T PTZ00454        217 QKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVI  288 (398)
T ss_pred             HHhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEE
Confidence                  568899999999999999999999999999885433  2345678999999999999877777664

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

Probab=99.88  E-value=1.8e-22  Score=143.69  Aligned_cols=106  Identities=43%  Similarity=0.798  Sum_probs=94.5

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      .++++++|++|.++.|+..+-+..++.+|+.|..|   .|+.+|+                                   
T Consensus       115 ~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~W---APknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGeh  191 (368)
T COG1223         115 ISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDW---APKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEH  191 (368)
T ss_pred             hccccHhhhhchHHHHHHHHHHHHHhhChHHhccc---CcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHH
Confidence            46789999999999999999999999999999887   4567777                                   


Q ss_pred             ---hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ---GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ---~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                         +.+.|+++|+.|++.+|||+||||+|+++-+|.-..-.+..+.++|+||++|||++.+.+|+.|
T Consensus       192 VGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtI  258 (368)
T COG1223         192 VGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTI  258 (368)
T ss_pred             hhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEE
Confidence               6789999999999999999999999999999975544566789999999999999999888765

>KOG0737|consensus

Probab=99.87  E-value=4.3e-22  Score=146.43  Aligned_cols=112  Identities=37%  Similarity=0.631  Sum_probs=100.7

Q ss_pred             CCCCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcC-CCCCceeec-----------------------------
Q psy5205           1 VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLG-GKLPKGVLL-----------------------------   49 (113)
Q Consensus         1 ~~~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g-~~~~~giLl-----------------------------   49 (113)
                      |.|..-.++|+||+|++.+++++++.+.+ +++|++|...+ .+|++||||                             
T Consensus        82 v~p~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s  161 (386)
T KOG0737|consen   82 VPPSEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVS  161 (386)
T ss_pred             cchhhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeecc
Confidence            46788899999999999999999998888 99999998554 778999999                             


Q ss_pred             ---------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCc--eEEc
Q psy5205          50 ---------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEG--VVVL  113 (113)
Q Consensus        50 ---------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~--v~vi  113 (113)
                               ++|.++.+|..|.+.+|||+||||+|++.+.| .+++|+....+.|||...+||+.++.+  |+|+
T Consensus       162 ~lt~KWfgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R-~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVl  235 (386)
T KOG0737|consen  162 NLTSKWFGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQR-RSTDHEATAMMKNEFMALWDGLSSKDSERVLVL  235 (386)
T ss_pred             ccchhhHHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhc-ccchHHHHHHHHHHHHHHhccccCCCCceEEEE
Confidence                     78999999999999999999999999999999 566688899999999999999977665  6653

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.86  E-value=1.2e-21  Score=150.92  Aligned_cols=111  Identities=33%  Similarity=0.619  Sum_probs=98.8

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|.++|+||+|++.+++++++.+.+ +.+++.|..+|+++|+|+||                                
T Consensus       174 ~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~  253 (512)
T TIGR03689       174 EEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSY  253 (512)
T ss_pred             ecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCcee
Confidence            356899999999999999999999988 99999999999999999999                                


Q ss_pred             ----------------hHHHHHHHHHHHHhC----CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCc
Q psy5205          50 ----------------GARRVRDLFKAAKDR----TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEG  109 (113)
Q Consensus        50 ----------------~e~~l~~~F~~A~~~----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~  109 (113)
                                      ++++++.+|+.|++.    .||||||||+|+++++|+.+.++...++++++||++||++...++
T Consensus       254 fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~  333 (512)
T TIGR03689       254 FLNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDN  333 (512)
T ss_pred             EEeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCc
Confidence                            356789999999864    699999999999999998765566678999999999999988777


Q ss_pred             eEEc
Q psy5205         110 VVVL  113 (113)
Q Consensus       110 v~vi  113 (113)
                      ++||
T Consensus       334 ViVI  337 (512)
T TIGR03689       334 VIVI  337 (512)
T ss_pred             eEEE
Confidence            7775

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.84  E-value=1.2e-20  Score=145.41  Aligned_cols=112  Identities=61%  Similarity=0.987  Sum_probs=99.5

Q ss_pred             CCCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           2 DPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         2 ~~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .++.|.++|+||+|++++|+++++++.++++++.|.++|.++|+|+||                                
T Consensus        46 ~~~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~  125 (495)
T TIGR01241        46 NEEKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV  125 (495)
T ss_pred             cCCCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHH
Confidence            356789999999999999999999999999999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            ++++++++|+.|+.++||||||||+|+++.+|..+  +.+....+++|+||++||++.++++++||
T Consensus       126 ~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI  197 (495)
T TIGR01241       126 EMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVI  197 (495)
T ss_pred             HHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEE
Confidence                  46789999999999999999999999999988753  22445678999999999999888778775

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

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.83  E-value=6.2e-20  Score=137.90  Aligned_cols=110  Identities=48%  Similarity=0.806  Sum_probs=97.2

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||+|++++++++++.+.+ +.+++.|..+|+.+|+|+||                                 
T Consensus       124 ~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~  203 (389)
T PRK03992        124 ESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQ  203 (389)
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhH
Confidence            46889999999999999999999988 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +++.++.+|+.|+.++||||||||+|+++++|++.+.  +....+.+.+||+++|++...+++.||
T Consensus       204 ~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI  274 (389)
T PRK03992        204 KFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKII  274 (389)
T ss_pred             hhccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEE
Confidence                 4678999999999999999999999999999875442  245568889999999999877777665

>KOG0732|consensus

Probab=99.81  E-value=8.3e-20  Score=148.01  Aligned_cols=107  Identities=34%  Similarity=0.582  Sum_probs=100.2

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      ..++|++|||++.++.++++.+.. +.+|+.|.++++.||+|+|+                                   
T Consensus       260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD  339 (1080)
T KOG0732|consen  260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGAD  339 (1080)
T ss_pred             cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCch
Confidence            468999999999999999999988 99999999999999999999                                   


Q ss_pred             --------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 --------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 --------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                              .|+.++-+|++|++..|+|+||||||.+++.|++-. ......++++||..|||+.+.+.|+||
T Consensus       340 ~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvrSskq-Eqih~SIvSTLLaLmdGldsRgqVvvi  410 (1080)
T KOG0732|consen  340 CLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSKQ-EQIHASIVSTLLALMDGLDSRGQVVVI  410 (1080)
T ss_pred             hhccccCcHHHHHHHHHHHHhccCceEEeccccccccccccchH-HHhhhhHHHHHHHhccCCCCCCceEEE
Confidence                    789999999999999999999999999999998765 445678999999999999999999886

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

Probab=99.81  E-value=1.3e-19  Score=137.78  Aligned_cols=110  Identities=39%  Similarity=0.704  Sum_probs=96.3

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|.++|+||+|++.++++|++.+.+ +.+++.|..+|+.+|+|+||                                 
T Consensus       176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~  255 (438)
T PTZ00361        176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQ  255 (438)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhh
Confidence            45789999999999999999999988 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +++.++++|..|+.++||||||||+|+++.+|....  ......+.+.+||++||++....++.||
T Consensus       256 k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI  326 (438)
T PTZ00361        256 KYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVI  326 (438)
T ss_pred             hhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEE
Confidence                 467799999999999999999999999999886433  2345568889999999999776666664

>KOG0651|consensus

Probab=99.80  E-value=6.9e-20  Score=132.83  Aligned_cols=108  Identities=41%  Similarity=0.720  Sum_probs=96.7

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      .+++|+.++|+-++..++++.+.. +.+|+++.+.|++||+|+++                                   
T Consensus       127 ~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~ky  206 (388)
T KOG0651|consen  127 RNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKY  206 (388)
T ss_pred             cccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhh
Confidence            368999999999999999999999 99999999999999999999                                   


Q ss_pred             ---hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ---GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ---~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                         +.+.||+.|..|+++.|||+|+||+|+++++|.+.+  .+.+..+.+-+||.+|||+.....|-+|
T Consensus       207 iGEsaRlIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~I  275 (388)
T KOG0651|consen  207 IGESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTI  275 (388)
T ss_pred             cccHHHHHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEE
Confidence               678999999999999999999999999999995433  3467778889999999999877766543

>CHL00176 ftsH cell division protein; Validated

Probab=99.78  E-value=1.5e-18  Score=136.90  Aligned_cols=111  Identities=57%  Similarity=0.991  Sum_probs=97.2

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.++.++|+||+|++++++++.+++..+++++.|..+|..+|+|+||                                 
T Consensus       175 ~~~~~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~  254 (638)
T CHL00176        175 EADTGITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVE  254 (638)
T ss_pred             ccCCCCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHH
Confidence            34567999999999999999999999999999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +.+.++.+|+.|+.++||||||||+|+++.+|+.+  +.+....+++++||.+||++..+.+++||
T Consensus       255 ~~~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVI  325 (638)
T CHL00176        255 MFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVI  325 (638)
T ss_pred             HhhhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEE
Confidence                 35678999999999999999999999999888643  23445668999999999999887777765

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.76  E-value=5.4e-18  Score=130.45  Aligned_cols=105  Identities=25%  Similarity=0.435  Sum_probs=88.6

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      .++++|+||||++.+|+++++....+  +..+.++|+++|+|+||                                   
T Consensus       222 ~~~~~~~dvgGl~~lK~~l~~~~~~~--~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~  299 (489)
T CHL00195        222 SVNEKISDIGGLDNLKDWLKKRSTSF--SKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGI  299 (489)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHh--hHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccc
Confidence            46789999999999999998865443  34567789999999999                                   


Q ss_pred             ---hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ---GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ---~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                         ++++++++|+.|+..+||||||||+|.++.++.+.++++...+++++||++|+.  .+++|+||
T Consensus       300 vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~--~~~~V~vI  364 (489)
T CHL00195        300 VGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSE--KKSPVFVV  364 (489)
T ss_pred             cChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhc--CCCceEEE
Confidence               689999999999999999999999999998776655567889999999999995  34556654

>KOG0730|consensus

Probab=99.75  E-value=3.7e-18  Score=132.90  Aligned_cols=105  Identities=31%  Similarity=0.594  Sum_probs=98.0

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      +.++ .+++|...+.+.+++.+.+ ++++..|...|.++|+|+|+                                   
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~  258 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKF  258 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhc
Confidence            5567 8999999999999999999 99999999999999999999                                   


Q ss_pred             ---hHHHHHHHHHHHHhCC-CeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ---GARRVRDLFKAAKDRT-PCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ---~e~~l~~~F~~A~~~~-p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                         +++++|++|++|.+++ |+++||||+|+++++|.....  ..+|++.++++.||++....+++||
T Consensus       259 ~gEte~~LR~~f~~a~k~~~psii~IdEld~l~p~r~~~~~--~e~Rv~sqlltL~dg~~~~~~vivl  324 (693)
T KOG0730|consen  259 PGETESNLRKAFAEALKFQVPSIIFIDELDALCPKREGADD--VESRVVSQLLTLLDGLKPDAKVIVL  324 (693)
T ss_pred             ccchHHHHHHHHHHHhccCCCeeEeHHhHhhhCCcccccch--HHHHHHHHHHHHHhhCcCcCcEEEE
Confidence               8999999999999999 999999999999999987763  6899999999999999988888875

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.75  E-value=9.4e-18  Score=134.40  Aligned_cols=108  Identities=40%  Similarity=0.747  Sum_probs=97.3

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      .++++|+||+|++.+++++++.+.+ +.+|+.|..+|+.+|+|+||                                  
T Consensus       172 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~  251 (733)
T TIGR01243       172 VPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSK  251 (733)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcc
Confidence            4679999999999999999999998 99999999999999999999                                  


Q ss_pred             ----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                          ++++++.+|+.|..+.|+||||||+|+++++|+... ++..++++++|++.||++.....++||
T Consensus       252 ~~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~-~~~~~~~~~~Ll~~ld~l~~~~~vivI  318 (733)
T TIGR01243       252 YYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVT-GEVEKRVVAQLLTLMDGLKGRGRVIVI  318 (733)
T ss_pred             cccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCc-chHHHHHHHHHHHHhhccccCCCEEEE
Confidence                467899999999999999999999999999987544 445679999999999999877777764

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.75  E-value=1e-17  Score=124.74  Aligned_cols=110  Identities=47%  Similarity=0.802  Sum_probs=95.1

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|.++|+||+|+++++++|++.+.. +.+++.|..+|+.+|+|+||                                 
T Consensus       115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~  194 (364)
T TIGR01242       115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVR  194 (364)
T ss_pred             cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHH
Confidence            56889999999999999999999988 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +++.++.+|..|+..+|+||||||+|+++.+|.+...  +....+.+.+++.++|++...+++.||
T Consensus       195 ~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI  265 (364)
T TIGR01242       195 KYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVI  265 (364)
T ss_pred             HhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEE
Confidence                 4567899999999999999999999999988864432  334567889999999998766666654

Many proteins may score above the trusted cutoff because an internal

>KOG0741|consensus

Probab=99.73  E-value=1.2e-17  Score=128.16  Aligned_cols=109  Identities=28%  Similarity=0.487  Sum_probs=94.4

Q ss_pred             CCCCCCCc--ccccHHHHHHH-HHHHHH-hcChhhHhhcCCCCCceeec-------------------------------
Q psy5205           5 EINITFKD--VRGVDEAKQEL-KEIVEF-LKNPEKFSTLGGKLPKGVLL-------------------------------   49 (113)
Q Consensus         5 ~~~~~~~d--i~G~~~~k~~l-~~~i~~-~~~~~~~~~~g~~~~~giLl-------------------------------   49 (113)
                      +|...|++  |||++.....+ +++... +..|+..+++|++..+|+||                               
T Consensus       213 ~Pdf~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPe  292 (744)
T KOG0741|consen  213 NPDFNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPE  292 (744)
T ss_pred             CCCCChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHH
Confidence            46677776  68998888777 666666 88999999999999999999                               


Q ss_pred             --------hHHHHHHHHHHHHh--------CCCeEEEEccccccccccCCCCC-CchhHHHHHHHHHHhcCCCCCCceEE
Q psy5205          50 --------GARRVRDLFKAAKD--------RTPCVVFIDEIDSVGAKRTNSVL-HPYANQTINQLLAEMDGFHQNEGVVV  112 (113)
Q Consensus        50 --------~e~~l~~~F~~A~~--------~~p~ilfiDEiD~l~~~R~~~~~-~~~~~~i~~~lL~~ld~~~~~~~v~v  112 (113)
                              ||+|+|++|+.|.+        ..-.|+.|||+|++|..|++..+ .+..+.+|||||+.|||+.+-++++|
T Consensus       293 IL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILV  372 (744)
T KOG0741|consen  293 ILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILV  372 (744)
T ss_pred             HHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEE
Confidence                    89999999999963        34679999999999999986654 67889999999999999999999998


Q ss_pred             c
Q psy5205         113 L  113 (113)
Q Consensus       113 i  113 (113)
                      |
T Consensus       373 I  373 (744)
T KOG0741|consen  373 I  373 (744)
T ss_pred             E
Confidence            7

>KOG0740|consensus

Probab=99.72  E-value=2.1e-17  Score=124.48  Aligned_cols=107  Identities=37%  Similarity=0.597  Sum_probs=93.5

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      .+++.|+|++|++..|+.+.+++.+ +..++.|...- .|++|+||                                  
T Consensus       147 ~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK  225 (428)
T KOG0740|consen  147 LRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSK  225 (428)
T ss_pred             CCcccccCCcchhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhh
Confidence            4679999999999999999999988 88899998653 56688888                                  


Q ss_pred             ----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC--CCCceEEc
Q psy5205          50 ----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH--QNEGVVVL  113 (113)
Q Consensus        50 ----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~--~~~~v~vi  113 (113)
                          +|+.+|.+|.-|+..+|+|+||||+|+++.+| ..+.+...+|+..+||.++++..  .+++|+||
T Consensus       226 ~~Ge~eK~vralf~vAr~~qPsvifidEidslls~R-s~~e~e~srr~ktefLiq~~~~~s~~~drvlvi  294 (428)
T KOG0740|consen  226 YVGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKR-SDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVI  294 (428)
T ss_pred             ccChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhc-CCcccccchhhhhHHHhhhccccCCCCCeEEEE
Confidence                78999999999999999999999999999999 44557888999999999999985  45567664

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.71  E-value=6.1e-17  Score=128.22  Aligned_cols=111  Identities=55%  Similarity=0.982  Sum_probs=97.4

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      |.....+|+|++|.+..++++.+++.++.++..|..++...|+|+|+                                 
T Consensus       144 ~~~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~  223 (644)
T PRK10733        144 EDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE  223 (644)
T ss_pred             chhhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHH
Confidence            44567889999999999999999999999999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++++|+.|+..+||||||||+|+++.+|+.+  +.+....+++|+||.+||++.++.+++||
T Consensus       224 ~~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivI  294 (644)
T PRK10733        224 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVI  294 (644)
T ss_pred             hhhcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEE
Confidence                 46789999999999999999999999999998753  33455678999999999999888888775

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

Probab=99.65  E-value=6.8e-16  Score=114.88  Aligned_cols=95  Identities=18%  Similarity=0.212  Sum_probs=72.8

Q ss_pred             CCCCCcc-cccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           7 NITFKDV-RGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         7 ~~~~~di-~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      +.+|+++ +|+--.+..+.+++.. .++.-.  ..|+++|+|++|                                   
T Consensus       111 ~~~f~~~~g~~~~~p~f~dk~~~hi~kn~l~--~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~  188 (413)
T PLN00020        111 TRSFDNLVGGYYIAPAFMDKVAVHIAKNFLA--LPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESEN  188 (413)
T ss_pred             hcchhhhcCccccCHHHHHHHHHHHHhhhhh--ccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCc
Confidence            4567777 7777777666666655 333332  267899999999                                   


Q ss_pred             ---hHHHHHHHHHHHHhC-----CCeEEEEccccccccccCCCCCCchhHHHH-HHHHHHhcCC
Q psy5205          50 ---GARRVRDLFKAAKDR-----TPCVVFIDEIDSVGAKRTNSVLHPYANQTI-NQLLAEMDGF  104 (113)
Q Consensus        50 ---~e~~l~~~F~~A~~~-----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~-~~lL~~ld~~  104 (113)
                         +|++||++|..|++.     +||||||||+|+++++|++++ +...++++ ++||++||+.
T Consensus       189 vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~-~tv~~qiV~~tLLnl~D~p  251 (413)
T PLN00020        189 AGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQ-YTVNNQMVNGTLMNIADNP  251 (413)
T ss_pred             CCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCC-cchHHHHHHHHHHHHhcCC
Confidence               899999999999864     699999999999999998544 44445665 8999999974

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.17  E-value=6.7e-11  Score=101.25  Aligned_cols=53  Identities=17%  Similarity=0.422  Sum_probs=42.8

Q ss_pred             HHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC---CCCceEEc
Q psy5205          54 VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH---QNEGVVVL  113 (113)
Q Consensus        54 l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~---~~~~v~vi  113 (113)
                      |+.+|+.|++++||||||||||+++.+.+       ....+++||++|||..   +..+|+||
T Consensus      1721 Ir~lFelARk~SPCIIFIDEIDaL~~~ds-------~~ltL~qLLneLDg~~~~~s~~~VIVI 1776 (2281)
T CHL00206       1721 ITLQFELAKAMSPCIIWIPNIHDLNVNES-------NYLSLGLLVNSLSRDCERCSTRNILVI 1776 (2281)
T ss_pred             HHHHHHHHHHCCCeEEEEEchhhcCCCcc-------ceehHHHHHHHhccccccCCCCCEEEE
Confidence            78899999999999999999999987521       1124899999999874   45677775

>KOG0744|consensus

Probab=99.00  E-value=5.7e-10  Score=82.14  Aligned_cols=64  Identities=27%  Similarity=0.439  Sum_probs=51.4

Q ss_pred             hHHHHHHHHHHHHhC-----CCeEEEEccccccccccCC---CCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 GARRVRDLFKAAKDR-----TPCVVFIDEIDSVGAKRTN---SVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~-----~p~ilfiDEiD~l~~~R~~---~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                      |.|++.++|++..+.     .-..++|||+++++..|.+   +++....-|+||++|+|||.+++..+|+++
T Consensus       230 SgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL  301 (423)
T KOG0744|consen  230 SGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLIL  301 (423)
T ss_pred             hhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEEEE
Confidence            789999999988643     2345669999999999943   333455669999999999999999999874

>CHL00181 cbbX CbbX; Provisional

Probab=98.99  E-value=3.2e-09  Score=77.26  Aligned_cols=88  Identities=24%  Similarity=0.354  Sum_probs=64.7

Q ss_pred             CcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCc-e--eec--------------------------------------
Q psy5205          11 KDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPK-G--VLL--------------------------------------   49 (113)
Q Consensus        11 ~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~-g--iLl--------------------------------------   49 (113)
                      ++++|++++|++|++++.++..+..+.+.|..+++ |  ++|                                      
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l  102 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDL  102 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHH
Confidence            47999999999999999886667777888876653 4  455                                      


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                             ++++.+++|+.|   .++||||||+|.++..++.   +...+.+++.|+..|+.-
T Consensus       103 ~~~~~g~~~~~~~~~l~~a---~ggVLfIDE~~~l~~~~~~---~~~~~e~~~~L~~~me~~  158 (287)
T CHL00181        103 VGQYIGHTAPKTKEVLKKA---MGGVLFIDEAYYLYKPDNE---RDYGSEAIEILLQVMENQ  158 (287)
T ss_pred             HHHHhccchHHHHHHHHHc---cCCEEEEEccchhccCCCc---cchHHHHHHHHHHHHhcC
Confidence                   223344555554   4689999999999865432   234578889999999854

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

Probab=98.90  E-value=8.8e-09  Score=65.47  Aligned_cols=63  Identities=37%  Similarity=0.658  Sum_probs=53.4

Q ss_pred             hHHHHHHHHHHHHhCC-CeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC-CceEEc
Q psy5205          50 GARRVRDLFKAAKDRT-PCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN-EGVVVL  113 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~-p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~-~~v~vi  113 (113)
                      +++.++.+|..|++.+ |||+||||+|.++++. +...+....+++++|+..|+..... .+++||
T Consensus        42 ~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~-~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI  106 (132)
T PF00004_consen   42 SEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS-QPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVI  106 (132)
T ss_dssp             HHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC-STSSSHHHHHHHHHHHHHHHTTTTTSSSEEEE
T ss_pred             cccccccccccccccccceeeeeccchhccccc-ccccccccccccceeeecccccccccccceeE
Confidence            7899999999999998 9999999999999988 4444667889999999999998765 445553

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.88  E-value=1.7e-08  Score=73.26  Aligned_cols=87  Identities=23%  Similarity=0.313  Sum_probs=65.6

Q ss_pred             cccccHHHHHHHHHHHHHhcChhhHhhcCCCC---Cceeec---------------------------------------
Q psy5205          12 DVRGVDEAKQELKEIVEFLKNPEKFSTLGGKL---PKGVLL---------------------------------------   49 (113)
Q Consensus        12 di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~---~~giLl---------------------------------------   49 (113)
                      +++|++++|++|++++.++..++.+.+.|.++   +.++++                                       
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            69999999999999999988888888888765   236777                                       


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                            ++.+++++|+.|   .+++|||||+|.+.+.+..   +.....+.+.|++.|+.-
T Consensus       103 ~~~~g~~~~~~~~~~~~a---~~gvL~iDEi~~L~~~~~~---~~~~~~~~~~Ll~~le~~  157 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKRA---MGGVLFIDEAYYLYRPDNE---RDYGQEAIEILLQVMENQ  157 (284)
T ss_pred             HhhcccchHHHHHHHHHc---cCcEEEEechhhhccCCCc---cchHHHHHHHHHHHHhcC
Confidence                  223445566655   4589999999999765432   234567889999999853

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.69  E-value=1.2e-07  Score=67.96  Aligned_cols=88  Identities=28%  Similarity=0.427  Sum_probs=61.5

Q ss_pred             CCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCc---eeec-------------------------------------
Q psy5205          10 FKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPK---GVLL-------------------------------------   49 (113)
Q Consensus        10 ~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~---giLl-------------------------------------   49 (113)
                      +++++|++.+|+++++++.+........+.|..++.   .++|                                     
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~   84 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD   84 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH
Confidence            578999999999999998885444555556654433   2344                                     


Q ss_pred             --------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          50 --------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 --------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                              ++++++++|+.|   .++||||||+|.+..  +..  +...+..++.|+..|+..
T Consensus        85 l~~~~~g~~~~~~~~~~~~a---~~~VL~IDE~~~L~~--~~~--~~~~~~~i~~Ll~~~e~~  140 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKKA---LGGVLFIDEAYSLAR--GGE--KDFGKEAIDTLVKGMEDN  140 (261)
T ss_pred             hhhhhccchHHHHHHHHHhc---cCCEEEEechhhhcc--CCc--cchHHHHHHHHHHHHhcc
Confidence                    245567777766   368999999999963  211  223457889999999875

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

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

Probab=98.45  E-value=8.3e-07  Score=68.72  Aligned_cols=55  Identities=38%  Similarity=0.657  Sum_probs=50.7

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH  105 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~  105 (113)
                      ++.+++.+|..|+..+|+++|+||+|+++++|.. ......++++++++..||+++
T Consensus        61 ~~~~~~~~~~~a~~~~~~ii~~d~~~~~~~~~~~-~~~~~~~~v~~~l~~~~d~~~  115 (494)
T COG0464          61 SELRLRELFEEAEKLAPSIIFIDEIDALAPKRSS-DQGEVERRVVAQLLALMDGLK  115 (494)
T ss_pred             HHHHHHHHHHHHHHhCCCeEeechhhhcccCccc-cccchhhHHHHHHHHhccccc
Confidence            6889999999999999999999999999999988 445678899999999999998

>KOG0743|consensus

Probab=98.38  E-value=2.2e-06  Score=65.43  Aligned_cols=103  Identities=21%  Similarity=0.349  Sum_probs=77.2

Q ss_pred             CCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec----------------------------h----HHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------------------G----ARRV   54 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl----------------------------~----e~~l   54 (113)
                      -+|+.++...+.|++|.+-+.. ++..+.|++.|..+.||.||                            +    -.-+
T Consensus       198 stF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dL  277 (457)
T KOG0743|consen  198 STFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDL  277 (457)
T ss_pred             CCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHH
Confidence            7899999999999999775555 99999999999999999999                            0    1117


Q ss_pred             HHHHHHHHhCCCeEEEEccccccccccCCCCCC----c--hhHHHHHHHHHHhcCCC---CCCceEE
Q psy5205          55 RDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH----P--YANQTINQLLAEMDGFH---QNEGVVV  112 (113)
Q Consensus        55 ~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~----~--~~~~i~~~lL~~ld~~~---~~~~v~v  112 (113)
                      +++.-.+  ...+||+|++||+-+..|+.....    +  ..+-.++-||+.+||+-   ++.+|+|
T Consensus       278 r~LL~~t--~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIiv  342 (457)
T KOG0743|consen  278 RHLLLAT--PNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIV  342 (457)
T ss_pred             HHHHHhC--CCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEE
Confidence            7766443  456999999999988755433211    1  22346788999999983   3456665

>KOG0742|consensus

Probab=98.33  E-value=2.6e-06  Score=64.99  Aligned_cols=96  Identities=19%  Similarity=0.264  Sum_probs=73.8

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHHhcC----hhhHhhc--CCCCCceeec---------------------------hH
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEFLKN----PEKFSTL--GGKLPKGVLL---------------------------GA   51 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~~~~----~~~~~~~--g~~~~~giLl---------------------------~e   51 (113)
                      ++.-.+++|+....++++|+++...-.|    ...|++.  -.+|+.|-.+                           +-
T Consensus       349 ~gk~pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaV  428 (630)
T KOG0742|consen  349 RGKDPLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAV  428 (630)
T ss_pred             cCCCCcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccccchHHH
Confidence            3445689999999999999997765333    3344442  2456666555                           45


Q ss_pred             HHHHHHHHHHHhC-CCeEEEEccccccccccCCCCCCchhHHHHHHHHHH
Q psy5205          52 RRVRDLFKAAKDR-TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAE  100 (113)
Q Consensus        52 ~~l~~~F~~A~~~-~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~  100 (113)
                      -+|+++|+.|.+. ..-+|||||+|++...|+.+..++..+..+|+||--
T Consensus       429 TkiH~lFDWakkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfR  478 (630)
T KOG0742|consen  429 TKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFR  478 (630)
T ss_pred             HHHHHHHHHHhhcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHH
Confidence            6799999999865 467899999999999999888888889999999854

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

Probab=97.86  E-value=5e-05  Score=61.70  Aligned_cols=34  Identities=18%  Similarity=0.366  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~   83 (113)
                      .+++++++|++|+++.|+||||||+|.+++.++.
T Consensus       259 ~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~  292 (731)
T TIGR02639       259 FEERLKAVVSEIEKEPNAILFIDEIHTIVGAGAT  292 (731)
T ss_pred             HHHHHHHHHHHHhccCCeEEEEecHHHHhccCCC
Confidence            4579999999998888999999999999987654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.73  E-value=0.00011  Score=60.50  Aligned_cols=35  Identities=14%  Similarity=0.342  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS   84 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~   84 (113)
                      .|++++.+|+++++..|+||||||++.+++.++..
T Consensus       256 ~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~  290 (821)
T CHL00095        256 FEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAE  290 (821)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCC
Confidence            47799999999988899999999999999876543

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

Probab=97.42  E-value=0.00047  Score=56.39  Aligned_cols=34  Identities=26%  Similarity=0.433  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~   83 (113)
                      .+++++.+|+.+++..|+||||||+|.+++.++.
T Consensus       263 ~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~  296 (758)
T PRK11034        263 FEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAA  296 (758)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCC
Confidence            4678999999998889999999999999987754

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.40  E-value=0.0013  Score=50.10  Aligned_cols=44  Identities=23%  Similarity=0.299  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHh----CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC
Q psy5205          52 RRVRDLFKAAKD----RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN  107 (113)
Q Consensus        52 ~~l~~~F~~A~~----~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~  107 (113)
                      ..+|++++.+..    ....|+||||+|.+..            ...|.||..|+.-..+
T Consensus       100 ~~iR~l~~~~~~~p~~~~~kViiIDead~m~~------------~aanaLLk~LEep~~~  147 (394)
T PRK07940        100 DEVRELVTIAARRPSTGRWRIVVIEDADRLTE------------RAANALLKAVEEPPPR  147 (394)
T ss_pred             HHHHHHHHHHHhCcccCCcEEEEEechhhcCH------------HHHHHHHHHhhcCCCC
Confidence            457888888853    2345999999999932            3458899999875443

>TIGR00763 lon ATP-dependent protease La

Probab=97.36  E-value=0.00074  Score=55.35  Aligned_cols=43  Identities=30%  Similarity=0.514  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          52 RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        52 ~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      ..+.+.|..|....| |+||||+|.+.++..+   +     ..++||+.||.
T Consensus       402 g~i~~~l~~~~~~~~-villDEidk~~~~~~~---~-----~~~aLl~~ld~  444 (775)
T TIGR00763       402 GRIIQGLKKAKTKNP-LFLLDEIDKIGSSFRG---D-----PASALLEVLDP  444 (775)
T ss_pred             chHHHHHHHhCcCCC-EEEEechhhcCCccCC---C-----HHHHHHHhcCH
Confidence            456677888866666 7899999999854321   1     34678887774

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

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

Probab=97.32  E-value=0.0016  Score=49.89  Aligned_cols=42  Identities=26%  Similarity=0.409  Sum_probs=29.4

Q ss_pred             hCCCeEEEEccccccccccCCCCCC--chhHHHHHHHHHHhcCC
Q psy5205          63 DRTPCVVFIDEIDSVGAKRTNSVLH--PYANQTINQLLAEMDGF  104 (113)
Q Consensus        63 ~~~p~ilfiDEiD~l~~~R~~~~~~--~~~~~i~~~lL~~ld~~  104 (113)
                      ...++||||||+|.+..++.+.+..  .....+.+.||..|||-
T Consensus       171 ~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~  214 (412)
T PRK05342        171 KAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGT  214 (412)
T ss_pred             HcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcC
Confidence            4578999999999998875432211  11125889999999863

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.30  E-value=0.00073  Score=55.99  Aligned_cols=36  Identities=14%  Similarity=0.274  Sum_probs=28.9

Q ss_pred             hHHHHHHHHHHHHh-CCCeEEEEccccccccccCCCC
Q psy5205          50 GARRVRDLFKAAKD-RTPCVVFIDEIDSVGAKRTNSV   85 (113)
Q Consensus        50 ~e~~l~~~F~~A~~-~~p~ilfiDEiD~l~~~R~~~~   85 (113)
                      .|+.++++|+.+.+ ..|+||||||++.+++.+++.+
T Consensus       255 ~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~  291 (857)
T PRK10865        255 FEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADG  291 (857)
T ss_pred             hHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCcc
Confidence            46689999998644 6799999999999998775443

>KOG0735|consensus

Probab=97.24  E-value=0.00063  Score=55.20  Aligned_cols=54  Identities=13%  Similarity=0.276  Sum_probs=40.3

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCC-CCCCchhHHHHHHHHHHhcC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN-SVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~-~~~~~~~~~i~~~lL~~ld~  103 (113)
                      ..+-++.+|.+|..++|+|+++|++|+|++.-+. ++..+.....++.||+++-.
T Consensus       479 iQk~l~~vfse~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~  533 (952)
T KOG0735|consen  479 IQKFLNNVFSEALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIK  533 (952)
T ss_pred             HHHHHHHHHHHHHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHH
Confidence            4677899999999999999999999999984332 22234555667778866543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.98  E-value=0.002  Score=53.40  Aligned_cols=35  Identities=20%  Similarity=0.374  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHHHHh-CCCeEEEEccccccccccCCC
Q psy5205          50 GARRVRDLFKAAKD-RTPCVVFIDEIDSVGAKRTNS   84 (113)
Q Consensus        50 ~e~~l~~~F~~A~~-~~p~ilfiDEiD~l~~~R~~~   84 (113)
                      .++.++++|+++++ ..++||||||++.+.+.+++.
T Consensus       264 ~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~  299 (852)
T TIGR03345       264 FENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQA  299 (852)
T ss_pred             HHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCcc
Confidence            46899999999965 469999999999999887643

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

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

Probab=96.95  E-value=0.0043  Score=47.61  Aligned_cols=42  Identities=24%  Similarity=0.406  Sum_probs=29.4

Q ss_pred             hCCCeEEEEccccccccccCCCCCCch--hHHHHHHHHHHhcCC
Q psy5205          63 DRTPCVVFIDEIDSVGAKRTNSVLHPY--ANQTINQLLAEMDGF  104 (113)
Q Consensus        63 ~~~p~ilfiDEiD~l~~~R~~~~~~~~--~~~i~~~lL~~ld~~  104 (113)
                      ...|+||||||+|.+..++++..-...  ...+.+.||+.|||.
T Consensus       179 ~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~  222 (413)
T TIGR00382       179 KAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGT  222 (413)
T ss_pred             hcccceEEecccchhchhhccccccccccchhHHHHHHHHhhcc
Confidence            456889999999999986643321111  125888999999875

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.72  E-value=0.0029  Score=52.44  Aligned_cols=34  Identities=15%  Similarity=0.326  Sum_probs=27.9

Q ss_pred             hHHHHHHHHHHHHhC-CCeEEEEccccccccccCC
Q psy5205          50 GARRVRDLFKAAKDR-TPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~-~p~ilfiDEiD~l~~~R~~   83 (113)
                      .++.++.+|+.+.+. .|+||||||++.+++.+++
T Consensus       250 ~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~  284 (852)
T TIGR03346       250 FEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKA  284 (852)
T ss_pred             HHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCC
Confidence            356899999998654 6999999999999876543

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK04195 replication factor C large subunit; Provisional

Probab=96.38  E-value=0.028  Score=43.79  Aligned_cols=79  Identities=24%  Similarity=0.341  Sum_probs=49.4

Q ss_pred             CCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec--------------------------------hHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL--------------------------------GARRVR   55 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl--------------------------------~e~~l~   55 (113)
                      .++++++|.+.++++|+.++....+.        .+++.+|+                                +...++
T Consensus        11 ~~l~dlvg~~~~~~~l~~~l~~~~~g--------~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~~~i~   82 (482)
T PRK04195         11 KTLSDVVGNEKAKEQLREWIESWLKG--------KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIE   82 (482)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHHhcC--------CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccHHHHH
Confidence            46899999999999999988663321        12334444                                123344


Q ss_pred             HHHHHHHh------CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhc
Q psy5205          56 DLFKAAKD------RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMD  102 (113)
Q Consensus        56 ~~F~~A~~------~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld  102 (113)
                      .+...+..      ..+.+|+|||+|.+.++.        ....+++|+..++
T Consensus        83 ~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~--------d~~~~~aL~~~l~  127 (482)
T PRK04195         83 RVAGEAATSGSLFGARRKLILLDEVDGIHGNE--------DRGGARAILELIK  127 (482)
T ss_pred             HHHHHhhccCcccCCCCeEEEEecCccccccc--------chhHHHHHHHHHH
Confidence            44444432      257899999999986521        1234566666666

>KOG0736|consensus

Probab=95.75  E-value=0.036  Score=45.73  Aligned_cols=61  Identities=21%  Similarity=0.447  Sum_probs=42.5

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC-CCCceEE
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH-QNEGVVV  112 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~-~~~~v~v  112 (113)
                      +|.++...|.+|+...|||||+-.+|.++.++.++. +-.....+++++. +|-+. +...++|
T Consensus       475 ~etkl~~~f~~a~~~~pavifl~~~dvl~id~dgge-d~rl~~~i~~~ls-~e~~~~~~~~~iv  536 (953)
T KOG0736|consen  475 TETKLQAIFSRARRCSPAVLFLRNLDVLGIDQDGGE-DARLLKVIRHLLS-NEDFKFSCPPVIV  536 (953)
T ss_pred             hHHHHHHHHHHHhhcCceEEEEeccceeeecCCCch-hHHHHHHHHHHHh-cccccCCCCceEE
Confidence            789999999999999999999999999997766533 2222344444444 33333 4445554

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

Probab=95.54  E-value=0.0096  Score=45.93  Aligned_cols=40  Identities=30%  Similarity=0.374  Sum_probs=28.4

Q ss_pred             CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          65 TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        65 ~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      .-.|+||||+|.|+.+.++++.+-....+-..||..|+|-
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~  288 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGS  288 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccc
Confidence            5689999999999987543222222235778899999884

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.41  E-value=0.054  Score=42.67  Aligned_cols=22  Identities=18%  Similarity=0.299  Sum_probs=19.8

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      -+|+||+|.+.+++.|...+..
T Consensus        13 ~~f~divGq~~v~~~L~~~~~~   34 (509)
T PRK14958         13 RCFQEVIGQAPVVRALSNALDQ   34 (509)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHh
Confidence            5799999999999999998866

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

Probab=95.29  E-value=0.016  Score=44.28  Aligned_cols=68  Identities=21%  Similarity=0.369  Sum_probs=44.9

Q ss_pred             CCCCcccccHHHHH---HHHHHHHH-hcChhhHhhcCCCCCceeec---------------------hHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQ---ELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------GARRVRDLFKAAK   62 (113)
Q Consensus         8 ~~~~di~G~~~~k~---~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------~e~~l~~~F~~A~   62 (113)
                      -++++++|.+.+..   -|++++.. --+...+  || +|+.|-.-                     +-+.++++|+.|+
T Consensus        21 ~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl--~G-PPG~GKTTlA~liA~~~~~~f~~~sAv~~gvkdlr~i~e~a~   97 (436)
T COG2256          21 KSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMIL--WG-PPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLREIIEEAR   97 (436)
T ss_pred             CCHHHhcChHhhhCCCchHHHHHhcCCCceeEE--EC-CCCCCHHHHHHHHHHhhCCceEEeccccccHHHHHHHHHHHH
Confidence            57889999988774   45556554 2222222  22 44444221                     6788999999997


Q ss_pred             hCC----CeEEEEccccccc
Q psy5205          63 DRT----PCVVFIDEIDSVG   78 (113)
Q Consensus        63 ~~~----p~ilfiDEiD~l~   78 (113)
                      +..    ..|||+|||.-+-
T Consensus        98 ~~~~~gr~tiLflDEIHRfn  117 (436)
T COG2256          98 KNRLLGRRTILFLDEIHRFN  117 (436)
T ss_pred             HHHhcCCceEEEEehhhhcC
Confidence            553    5999999998763

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=95.23  E-value=0.045  Score=40.40  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++++|.++.++.+...+..
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~   43 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEA   43 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHH
Confidence            4899999999999999988765

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.14  E-value=0.054  Score=44.24  Aligned_cols=44  Identities=18%  Similarity=0.339  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHh----CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC
Q psy5205          52 RRVRDLFKAAKD----RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN  107 (113)
Q Consensus        52 ~~l~~~F~~A~~----~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~  107 (113)
                      ..++++.+.+..    ....|++|||+|.+-            ....|.||..|+...++
T Consensus       102 d~IRelle~a~~~P~~gk~KVIIIDEad~Ls------------~~A~NALLKtLEEPp~~  149 (709)
T PRK08691        102 DNIREVLENAQYAPTAGKYKVYIIDEVHMLS------------KSAFNAMLKTLEEPPEH  149 (709)
T ss_pred             HHHHHHHHHHHhhhhhCCcEEEEEECccccC------------HHHHHHHHHHHHhCCCC
Confidence            457777776531    234699999998762            24678899999875443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=95.06  E-value=0.12  Score=38.18  Aligned_cols=24  Identities=33%  Similarity=0.390  Sum_probs=20.5

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHH
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ...+|++++|.+.+++.|.+.+..
T Consensus         9 rp~~~~~iig~~~~~~~l~~~~~~   32 (355)
T TIGR02397         9 RPQTFEDVIGQEHIVQTLKNAIKN   32 (355)
T ss_pred             CCCcHhhccCcHHHHHHHHHHHHc
Confidence            357899999999999999987755

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

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.99  E-value=0.013  Score=45.13  Aligned_cols=40  Identities=28%  Similarity=0.381  Sum_probs=28.2

Q ss_pred             CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          65 TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        65 ~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      .-.|+||||+|.++.+.++.+.+-....+-+.||..|+|-
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt  286 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGS  286 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCc
Confidence            5789999999999976633222222234778899999884

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

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.95  E-value=0.084  Score=42.19  Aligned_cols=22  Identities=23%  Similarity=0.501  Sum_probs=19.8

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|+||+|.+.+++.|...+..
T Consensus        13 ~~f~~iiGq~~v~~~L~~~i~~   34 (576)
T PRK14965         13 QTFSDLTGQEHVSRTLQNAIDT   34 (576)
T ss_pred             CCHHHccCcHHHHHHHHHHHHc
Confidence            6899999999999999998765

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

Probab=94.91  E-value=0.093  Score=43.44  Aligned_cols=41  Identities=20%  Similarity=0.365  Sum_probs=25.5

Q ss_pred             HHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          54 VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        54 l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      +.+.+..+....| |+||||+|.+..+..+        ...+.|+..||.
T Consensus       406 ~~~~l~~~~~~~~-villDEidk~~~~~~g--------~~~~aLlevld~  446 (784)
T PRK10787        406 LIQKMAKVGVKNP-LFLLDEIDKMSSDMRG--------DPASALLEVLDP  446 (784)
T ss_pred             HHHHHHhcCCCCC-EEEEEChhhcccccCC--------CHHHHHHHHhcc
Confidence            3344455543444 7899999999764321        134678887773

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.85  E-value=0.095  Score=41.46  Aligned_cols=22  Identities=18%  Similarity=0.367  Sum_probs=19.6

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|...+..
T Consensus        13 ~~f~divGq~~v~~~L~~~i~~   34 (527)
T PRK14969         13 KSFSELVGQEHVVRALTNALEQ   34 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHc
Confidence            5899999999999999988765

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

Probab=94.68  E-value=0.03  Score=37.89  Aligned_cols=36  Identities=28%  Similarity=0.337  Sum_probs=26.9

Q ss_pred             EEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          68 VVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        68 ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      |||+||||...++ .+.+.+.....+.+.||+.||+-
T Consensus        71 VVllDEidKa~~~-~~~~~~v~~~~V~~~LL~~le~g  106 (171)
T PF07724_consen   71 VVLLDEIDKAHPS-NSGGADVSGEGVQNSLLQLLEGG  106 (171)
T ss_dssp             EEEEETGGGCSHT-TTTCSHHHHHHHHHHHHHHHHHS
T ss_pred             hhhhHHHhhcccc-ccccchhhHHHHHHHHHHHhccc
Confidence            9999999999987 32222334458889999999863

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

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

Probab=94.67  E-value=0.025  Score=42.72  Aligned_cols=87  Identities=23%  Similarity=0.310  Sum_probs=43.9

Q ss_pred             cccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------hHHHHHHHHHHHHhCCCeEEEEccccccccccCC
Q psy5205          14 RGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        14 ~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~   83 (113)
                      .|++..-..+.+.+.- ......-+++.++-.+.+|.         .+..-++..+.|.+  -.|+||||||.++.+-+.
T Consensus       191 pgme~~~~~l~~m~~~~~~~kkkkrk~~Vk~A~~~L~~eea~KLid~e~i~~eAi~~aE~--~GIvFIDEIDKIa~~~~~  268 (444)
T COG1220         191 PGMEEMTNNLQDMFGNLGGKKKKKRKLKVKEAKKLLIEEEADKLIDQEEIKQEAIDAAEQ--NGIVFIDEIDKIAKRGGS  268 (444)
T ss_pred             CcHHHHHHHHHHHHHHhcCCCcceeeeeHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHh--cCeEEEehhhHHHhcCCC
Confidence            4566666666666555 33222222222222233333         33334444444433  469999999999976653


Q ss_pred             CCCCchhH-HHHHHHHHHhcC
Q psy5205          84 SVLHPYAN-QTINQLLAEMDG  103 (113)
Q Consensus        84 ~~~~~~~~-~i~~~lL~~ld~  103 (113)
                      ++. ..++ .+-.-||-.++|
T Consensus       269 g~~-dvSREGVQRDlLPlvEG  288 (444)
T COG1220         269 GGP-DVSREGVQRDLLPLVEG  288 (444)
T ss_pred             CCC-CcchhhhcccccccccC
Confidence            331 2222 333445555555

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

Probab=94.66  E-value=0.15  Score=42.23  Aligned_cols=34  Identities=21%  Similarity=0.413  Sum_probs=30.6

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~   83 (113)
                      -|++++.+.++.++..+.||||||++.+.+.-+.
T Consensus       247 FEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~  280 (786)
T COG0542         247 FEERLKAVLKEVEKSKNVILFIDEIHTIVGAGAT  280 (786)
T ss_pred             HHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcc
Confidence            5899999999999888999999999999886554

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.58  E-value=0.16  Score=37.95  Aligned_cols=85  Identities=20%  Similarity=0.269  Sum_probs=51.6

Q ss_pred             CCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCcee---------------------------e-c------hHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGV---------------------------L-L------GAR   52 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~gi---------------------------L-l------~e~   52 (113)
                      ..+|++++|.+.+++.+...+..=+-+..|-=+| +++.|.                           . +      +..
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G-~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIENNHLAQALLFCG-PRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVD   91 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEEC-CCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHH
Confidence            4689999999999999988876511111111011 111110                           0 0      235


Q ss_pred             HHHHHHHHHHhC----CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          53 RVRDLFKAAKDR----TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        53 ~l~~~F~~A~~~----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      .++++++.+...    .+.|++|||+|.+..            ...+.|+..|+..
T Consensus        92 ~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~------------~~~~~ll~~le~~  135 (367)
T PRK14970         92 DIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS------------AAFNAFLKTLEEP  135 (367)
T ss_pred             HHHHHHHHHhhccccCCcEEEEEeChhhcCH------------HHHHHHHHHHhCC
Confidence            777888777432    356999999987732            3467788877764

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.56  E-value=0.15  Score=40.05  Aligned_cols=22  Identities=27%  Similarity=0.235  Sum_probs=19.3

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|+|++|.+.+.+.|...+..
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~   36 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKS   36 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHc
Confidence            5799999999999999887765

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=94.53  E-value=0.11  Score=43.04  Aligned_cols=88  Identities=22%  Similarity=0.320  Sum_probs=53.4

Q ss_pred             CCCCcccccHHHHHHHHHHHHH--hcChhhHh----------------hcCCC-----CCce----------------ee
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF--LKNPEKFS----------------TLGGK-----LPKG----------------VL   48 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~--~~~~~~~~----------------~~g~~-----~~~g----------------iL   48 (113)
                      -+|++|+|.+.+++.|+..+..  +.|.-+|.                .+.-.     .+.|                +-
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviE   92 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVE   92 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEE
Confidence            5799999999999999988765  33331111                01000     0111                11


Q ss_pred             c------hHHHHHHHHHHHHh----CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC
Q psy5205          49 L------GARRVRDLFKAAKD----RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN  107 (113)
Q Consensus        49 l------~e~~l~~~F~~A~~----~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~  107 (113)
                      +      +-..++++.+.+..    ....|+||||+|.|-            ....|.||..|+.-..+
T Consensus        93 IDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT------------~~A~NALLKtLEEPP~~  149 (830)
T PRK07003         93 MDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLT------------NHAFNAMLKTLEEPPPH  149 (830)
T ss_pred             ecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCC------------HHHHHHHHHHHHhcCCC
Confidence            1      22346667766532    235799999999883            23578899998865443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.50  E-value=0.15  Score=41.61  Aligned_cols=44  Identities=20%  Similarity=0.296  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHH----hCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC
Q psy5205          52 RRVRDLFKAAK----DRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN  107 (113)
Q Consensus        52 ~~l~~~F~~A~----~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~  107 (113)
                      ..++++.+.+.    .....|++|||+|.+-            ....|.||..|+.-..+
T Consensus       107 DdIReLie~~~~~P~~gr~KViIIDEah~Ls------------~~AaNALLKTLEEPP~~  154 (700)
T PRK12323        107 DEMAQLLDKAVYAPTAGRFKVYMIDEVHMLT------------NHAFNAMLKTLEEPPEH  154 (700)
T ss_pred             HHHHHHHHHHHhchhcCCceEEEEEChHhcC------------HHHHHHHHHhhccCCCC
Confidence            44666666553    2335799999999882            24678999999875433

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=94.41  E-value=0.16  Score=40.43  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=20.1

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++|+|.+.+.+.|+..+..
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~   34 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQ   34 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHc
Confidence            35899999999999999998765

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

Probab=94.35  E-value=0.13  Score=36.62  Aligned_cols=83  Identities=20%  Similarity=0.271  Sum_probs=44.5

Q ss_pred             CCCCcccccHHHHHHHHHHHHH-hcChhhHhh--cCCCCCceeec----------------------hHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF-LKNPEKFST--LGGKLPKGVLL----------------------GARRVRDLFKAAK   62 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~--~g~~~~~giLl----------------------~e~~l~~~F~~A~   62 (113)
                      -+|+|++|.+++++.+.-++.. ....+.+..  +-.+|+-|-.-                      ....+..++... 
T Consensus        21 ~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~~dl~~il~~l-   99 (233)
T PF05496_consen   21 KSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKAGDLAAILTNL-   99 (233)
T ss_dssp             SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SCHHHHHHHHT--
T ss_pred             CCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhHHHHHHHHHhc-
Confidence            4899999999999999888776 332222221  11244444221                      123344444333 


Q ss_pred             hCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          63 DRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        63 ~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                       ....|||||||..+-            +..--.|+..|+..
T Consensus       100 -~~~~ILFIDEIHRln------------k~~qe~LlpamEd~  128 (233)
T PF05496_consen  100 -KEGDILFIDEIHRLN------------KAQQEILLPAMEDG  128 (233)
T ss_dssp             --TT-EEEECTCCC--------------HHHHHHHHHHHHCS
T ss_pred             -CCCcEEEEechhhcc------------HHHHHHHHHHhccC
Confidence             346799999997762            34555677777753

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

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.32  E-value=0.19  Score=37.82  Aligned_cols=22  Identities=14%  Similarity=0.276  Sum_probs=19.6

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|...+..
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~   34 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSL   34 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHc
Confidence            6899999999999999887765

>PRK13342 recombination factor protein RarA; Reviewed

Probab=94.22  E-value=0.12  Score=39.42  Aligned_cols=69  Identities=22%  Similarity=0.369  Sum_probs=42.7

Q ss_pred             CCCCcccccHHHHHH---HHHHHHHhcChhhHhhcCCCCCceeec---------------------hHHHHHHHHHHHHh
Q psy5205           8 ITFKDVRGVDEAKQE---LKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------GARRVRDLFKAAKD   63 (113)
Q Consensus         8 ~~~~di~G~~~~k~~---l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------~e~~l~~~F~~A~~   63 (113)
                      -+++|++|.+.+...   |++++..-+.+..+- +| +|+.|--.                     +.+.++++++.+..
T Consensus         9 ~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL-~G-ppGtGKTtLA~~ia~~~~~~~~~l~a~~~~~~~ir~ii~~~~~   86 (413)
T PRK13342          9 KTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMIL-WG-PPGTGKTTLARIIAGATDAPFEALSAVTSGVKDLREVIEEARQ   86 (413)
T ss_pred             CCHHHhcCcHHHhCcchHHHHHHHcCCCceEEE-EC-CCCCCHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHHHHH
Confidence            568999999998665   777665411111111 12 33333211                     45667888888753


Q ss_pred             ----CCCeEEEEccccccc
Q psy5205          64 ----RTPCVVFIDEIDSVG   78 (113)
Q Consensus        64 ----~~p~ilfiDEiD~l~   78 (113)
                          ....+|||||+|.+.
T Consensus        87 ~~~~g~~~vL~IDEi~~l~  105 (413)
T PRK13342         87 RRSAGRRTILFIDEIHRFN  105 (413)
T ss_pred             hhhcCCceEEEEechhhhC
Confidence                257899999999873

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=93.94  E-value=0.056  Score=39.19  Aligned_cols=21  Identities=19%  Similarity=0.390  Sum_probs=18.9

Q ss_pred             CCCcccccHHHHHHHHHHHHH
Q psy5205           9 TFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         9 ~~~di~G~~~~k~~l~~~i~~   29 (113)
                      +|++++|.++++++|..++..
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~   22 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEA   22 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHH
Confidence            789999999999999988765

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

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=93.84  E-value=0.086  Score=32.40  Aligned_cols=32  Identities=31%  Similarity=0.410  Sum_probs=27.4

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEcccccccccc
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR   81 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R   81 (113)
                      ....++.+++.|+...|.++|+||++.+....
T Consensus        63 ~~~~~~~~~~~~~~~~~~viiiDei~~~~~~~   94 (148)
T smart00382       63 GELRLRLALALARKLKPDVLILDEITSLLDAE   94 (148)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEECCcccCCHH
Confidence            56778899999988889999999999987543

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

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.83  E-value=0.19  Score=39.33  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=19.3

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++++|.+.+++.|+..+..
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~   32 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKK   32 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc
Confidence            45899999999999998887654

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.61  E-value=0.25  Score=39.91  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=19.8

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      -+|++|+|.+.+.+.|...+..
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~   34 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQ   34 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc
Confidence            5899999999999999998766

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.58  E-value=0.27  Score=38.74  Aligned_cols=44  Identities=18%  Similarity=0.248  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHhC----CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC
Q psy5205          52 RRVRDLFKAAKDR----TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN  107 (113)
Q Consensus        52 ~~l~~~F~~A~~~----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~  107 (113)
                      ..+|++.+.+...    ..-|++|||+|.+.            ....|.||.-|+....+
T Consensus        99 ddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls------------~~A~NaLLK~LEePp~~  146 (491)
T PRK14964         99 DDIKVILENSCYLPISSKFKVYIIDEVHMLS------------NSAFNALLKTLEEPAPH  146 (491)
T ss_pred             HHHHHHHHHHHhccccCCceEEEEeChHhCC------------HHHHHHHHHHHhCCCCC
Confidence            4577777776422    34589999998773            24678899999876544

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

Probab=93.53  E-value=0.23  Score=33.80  Aligned_cols=54  Identities=17%  Similarity=0.298  Sum_probs=33.4

Q ss_pred             hHHHHHHHHHHHHhCC-CeEEEEccccccc-cccCCCCCCchhHHHHHHHHHHhcCCCCCCce
Q psy5205          50 GARRVRDLFKAAKDRT-PCVVFIDEIDSVG-AKRTNSVLHPYANQTINQLLAEMDGFHQNEGV  110 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~-p~ilfiDEiD~l~-~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v  110 (113)
                      ....+..+++...+.. ..||+|||+|.+. ..+       .....+..|.+.++......++
T Consensus       102 ~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen  102 SFSALERLLEKLKKKGKKVIIVIDEFQYLAIASE-------EDKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             -G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTT-------TTHHHHHHHHHHHHH----TTE
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEEecHHHHhhccc-------chHHHHHHHHHHHhhccccCCc
Confidence            4567788888776654 4999999999998 322       1245677777777765444444

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

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.45  E-value=0.22  Score=40.74  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=19.6

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|...+..
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~   33 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALER   33 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc
Confidence            6899999999999999988765

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=93.33  E-value=0.23  Score=40.31  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=19.7

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|...+..
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~   34 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDL   34 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc
Confidence            6899999999999999988765

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.32  E-value=0.3  Score=38.51  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.1

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|+||+|.+.+++.|+..+..
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~   32 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQ   32 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHc
Confidence            35899999999999999988766

>KOG0989|consensus

Probab=93.29  E-value=0.27  Score=36.69  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+++++.|.+.+.+.|...+..
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~   54 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLR   54 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhh
Confidence            35789999999999999988766

>KOG2004|consensus

Probab=93.26  E-value=0.2  Score=41.30  Aligned_cols=23  Identities=22%  Similarity=0.538  Sum_probs=17.8

Q ss_pred             CcccccHHHHHHHHHHHHH--hcCh
Q psy5205          11 KDVRGVDEAKQELKEIVEF--LKNP   33 (113)
Q Consensus        11 ~di~G~~~~k~~l~~~i~~--~~~~   33 (113)
                      +|=.||+++|+++-+.+.-  ++..
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs  435 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGS  435 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhccc
Confidence            4667999999999997766  5443

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.20  E-value=0.26  Score=41.50  Aligned_cols=22  Identities=18%  Similarity=0.288  Sum_probs=19.7

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|+..+..
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~   34 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQ   34 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHh
Confidence            6899999999999999987765

>PLN03025 replication factor C subunit; Provisional

Probab=93.17  E-value=0.41  Score=35.22  Aligned_cols=23  Identities=22%  Similarity=0.314  Sum_probs=19.4

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+++++.|.+++.+.|+.++..
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~   31 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARD   31 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhc
Confidence            35789999999999999887655

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=93.14  E-value=0.26  Score=41.09  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=19.8

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|+..+..
T Consensus        12 ~~f~eiiGqe~v~~~L~~~i~~   33 (824)
T PRK07764         12 ATFAEVIGQEHVTEPLSTALDS   33 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHh
Confidence            5899999999999999998766

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=92.80  E-value=0.1  Score=40.42  Aligned_cols=81  Identities=21%  Similarity=0.260  Sum_probs=54.3

Q ss_pred             cccccHHHHHHHHHHHHH-hcChhhHhhcC-CCCCceeec----------------------------------------
Q psy5205          12 DVRGVDEAKQELKEIVEF-LKNPEKFSTLG-GKLPKGVLL----------------------------------------   49 (113)
Q Consensus        12 di~G~~~~k~~l~~~i~~-~~~~~~~~~~g-~~~~~giLl----------------------------------------   49 (113)
                      -|+|.++.|+.+..++.. .+......... -.+|+++||                                        
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~d   92 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   92 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCC
Confidence            488999999988776553 32222111111 224578887                                        


Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHH
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAE  100 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~  100 (113)
                      .++.++.+|+.|...      +| .|.+++.|.... ....+|++++||..
T Consensus        93 vE~i~r~l~e~A~~~------i~-~d~i~~~r~~a~-~~ae~riv~~Ll~~  135 (441)
T TIGR00390        93 VESMVRDLTDAAVKL------VK-EEAIEKVRDRAE-ELAEERIVDVLLPP  135 (441)
T ss_pred             HHHHHHHHHHHHHHH------HH-HHHHhHHHHHHH-HHHHHHHHHHhcCC
Confidence            578899999999663      34 699999995444 55778999998853

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

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=92.63  E-value=0.36  Score=36.17  Aligned_cols=35  Identities=17%  Similarity=0.304  Sum_probs=23.9

Q ss_pred             CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC
Q psy5205          64 RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ  106 (113)
Q Consensus        64 ~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~  106 (113)
                      ..+.||+|||+|.+.. +.+       ...+.+|+..++...+
T Consensus       137 ~~~~viviDE~d~l~~-~~~-------~~~l~~l~~~~~~~~~  171 (394)
T PRK00411        137 DRVLIVALDDINYLFE-KEG-------NDVLYSLLRAHEEYPG  171 (394)
T ss_pred             CCEEEEEECCHhHhhc-cCC-------chHHHHHHHhhhccCC
Confidence            3578999999999982 211       2367777777766543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.90  E-value=0.53  Score=37.55  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.4

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++++|.+.+++.|...+..
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~   34 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALET   34 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHc
Confidence            6899999999999999887765

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=91.88  E-value=0.6  Score=37.21  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=19.7

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|+..+..
T Consensus        11 ~~fdeiiGqe~v~~~L~~~I~~   32 (535)
T PRK08451         11 KHFDELIGQESVSKTLSLALDN   32 (535)
T ss_pred             CCHHHccCcHHHHHHHHHHHHc
Confidence            6899999999999999988765

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.88  E-value=0.55  Score=38.06  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=19.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++|+|.+.+++.|...+..
T Consensus        12 P~sf~dIiGQe~v~~~L~~ai~~   34 (624)
T PRK14959         12 PQTFAEVAGQETVKAILSRAAQE   34 (624)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHc
Confidence            35899999999999999988755

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

Probab=91.69  E-value=0.98  Score=35.85  Aligned_cols=40  Identities=25%  Similarity=0.258  Sum_probs=27.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL   49 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl   49 (113)
                      .-+|+|+.|.+.+.+.|..++..=+-...|-   .+-|||+.-
T Consensus        12 P~~F~evvGQe~v~~~L~nal~~~ri~hAYl---fsG~RGvGK   51 (515)
T COG2812          12 PKTFDDVVGQEHVVKTLSNALENGRIAHAYL---FSGPRGVGK   51 (515)
T ss_pred             cccHHHhcccHHHHHHHHHHHHhCcchhhhh---hcCCCCcCc
Confidence            3579999999999999999887733344443   234566544

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=91.65  E-value=0.64  Score=36.79  Aligned_cols=43  Identities=19%  Similarity=0.369  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHHHHhC----CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          50 GARRVRDLFKAAKDR----TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      +-..++++.+.|...    ..-|++|||+|.+.            ....|.||.-|+..
T Consensus       109 ~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls------------~~a~naLLk~LEep  155 (507)
T PRK06645        109 SVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLS------------KGAFNALLKTLEEP  155 (507)
T ss_pred             CHHHHHHHHHHHHhccccCCcEEEEEEChhhcC------------HHHHHHHHHHHhhc
Confidence            345678888777432    34599999998873            24578888888854

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=91.65  E-value=0.6  Score=38.49  Aligned_cols=85  Identities=27%  Similarity=0.450  Sum_probs=53.5

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH--hcChhhHhhcCCCCCcee------------------------------------e
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF--LKNPEKFSTLGGKLPKGV------------------------------------L   48 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~--~~~~~~~~~~g~~~~~gi------------------------------------L   48 (113)
                      ..+|++|+|.+.+++.|+..+..  +.|.=++.  | +++.|.                                    +
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~--G-P~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvi   90 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFS--G-PRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDII   90 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEE--C-CCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEE
Confidence            46899999999999999998765  33321110  0 111110                                    1


Q ss_pred             -c------hHHHHHHHHHHHHh----CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC
Q psy5205          49 -L------GARRVRDLFKAAKD----RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ  106 (113)
Q Consensus        49 -l------~e~~l~~~F~~A~~----~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~  106 (113)
                       +      +-..+|++.+.+..    ....|++|||+|.+-.            ...|.||..|+....
T Consensus        91 eidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~------------~A~NALLKtLEEPP~  147 (725)
T PRK07133         91 EMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSK------------SAFNALLKTLEEPPK  147 (725)
T ss_pred             EEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCH------------HHHHHHHHHhhcCCC
Confidence             0      23447777776643    2346999999988732            367889999887543

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.49  E-value=0.81  Score=37.07  Aligned_cols=44  Identities=25%  Similarity=0.314  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHHHHh----CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC
Q psy5205          50 GARRVRDLFKAAKD----RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH  105 (113)
Q Consensus        50 ~e~~l~~~F~~A~~----~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~  105 (113)
                      +-..+|++.+.+..    ...-|++|||+|.+-            ....|.||.-|+.-.
T Consensus       102 ~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt------------~~a~naLLK~LEePp  149 (620)
T PRK14948        102 GVDNIRELIERAQFAPVQARWKVYVIDECHMLS------------TAAFNALLKTLEEPP  149 (620)
T ss_pred             CHHHHHHHHHHHhhChhcCCceEEEEECccccC------------HHHHHHHHHHHhcCC
Confidence            34578888877742    234699999999882            246688999998643

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

Probab=91.47  E-value=0.66  Score=38.43  Aligned_cols=31  Identities=29%  Similarity=0.441  Sum_probs=24.2

Q ss_pred             HHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          61 AKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        61 A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      .+++..||+||||+|.+-            ..+.+.||+.||.
T Consensus       553 v~~~p~sVlllDEieka~------------~~v~~~LLq~ld~  583 (758)
T PRK11034        553 VIKHPHAVLLLDEIEKAH------------PDVFNLLLQVMDN  583 (758)
T ss_pred             HHhCCCcEEEeccHhhhh------------HHHHHHHHHHHhc
Confidence            345566999999999983            3478899999984

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

Probab=91.12  E-value=1  Score=37.10  Aligned_cols=35  Identities=34%  Similarity=0.525  Sum_probs=26.0

Q ss_pred             HHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          57 LFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        57 ~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      +....+.+..+|+||||+|.+-            ..+.|.||+.||.
T Consensus       545 l~~~~~~~p~~VvllDEieka~------------~~~~~~Ll~~ld~  579 (731)
T TIGR02639       545 LTEAVRKHPHCVLLLDEIEKAH------------PDIYNILLQVMDY  579 (731)
T ss_pred             HHHHHHhCCCeEEEEechhhcC------------HHHHHHHHHhhcc
Confidence            3344456677899999999762            3578889998886

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=90.55  E-value=1.2  Score=34.62  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.8

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|+||+|.+.+++.|...+..
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~   35 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRF   35 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc
Confidence            6899999999999999988765

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.29  E-value=1.1  Score=36.04  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=19.7

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++|+|.+.+++.|...+..
T Consensus        12 P~~~~eiiGq~~~~~~L~~~i~~   34 (585)
T PRK14950         12 SQTFAELVGQEHVVQTLRNAIAE   34 (585)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHh
Confidence            35899999999999999887765

>KOG0745|consensus

Probab=90.12  E-value=0.54  Score=36.85  Aligned_cols=55  Identities=20%  Similarity=0.308  Sum_probs=37.1

Q ss_pred             hHHHHHHHHHHHH----hCCCeEEEEccccccccccCCCCCC--chhHHHHHHHHHHhcCC
Q psy5205          50 GARRVRDLFKAAK----DRTPCVVFIDEIDSVGAKRTNSVLH--PYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 ~e~~l~~~F~~A~----~~~p~ilfiDEiD~l~~~R~~~~~~--~~~~~i~~~lL~~ld~~  104 (113)
                      -|.-|.++...|.    +.+.-|+|+||+|.|..+-.+-+..  -...-+-..||..++|-
T Consensus       272 VEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEGt  332 (564)
T KOG0745|consen  272 VESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGT  332 (564)
T ss_pred             HHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcccCccccccccccchhHHHHHHHHhccc
Confidence            4677888887774    4567899999999998544322211  11135667889888874

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=90.05  E-value=1.8  Score=31.77  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.0

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|.|.+.+++.|...+..
T Consensus         1 m~~~~i~g~~~~~~~l~~~~~~   22 (313)
T PRK05564          1 MSFHTIIGHENIKNRIKNSIIK   22 (313)
T ss_pred             CChhhccCcHHHHHHHHHHHHc
Confidence            4799999999999999888755

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=90.02  E-value=1.1  Score=33.22  Aligned_cols=28  Identities=25%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHh-CCCeEEEEccccccc
Q psy5205          51 ARRVRDLFKAAKD-RTPCVVFIDEIDSVG   78 (113)
Q Consensus        51 e~~l~~~F~~A~~-~~p~ilfiDEiD~l~   78 (113)
                      ++.++.+++.... ..|.||+|||+|.+.
T Consensus       114 ~~~~~~l~~~l~~~~~~~vlvIDE~d~L~  142 (365)
T TIGR02928       114 SEVFRRLYKELNERGDSLIIVLDEIDYLV  142 (365)
T ss_pred             HHHHHHHHHHHHhcCCeEEEEECchhhhc
Confidence            3445666666543 458899999999997

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=89.98  E-value=1  Score=36.39  Aligned_cols=23  Identities=22%  Similarity=0.219  Sum_probs=19.5

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++++|.+.+++.|...+..
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~   34 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILN   34 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc
Confidence            35899999999999999887754

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=89.95  E-value=1  Score=36.05  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=20.0

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++|+|.+.+++.|+..+..
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~   34 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIES   34 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc
Confidence            35899999999999999998765

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=89.92  E-value=1.5  Score=31.82  Aligned_cols=22  Identities=23%  Similarity=0.172  Sum_probs=18.9

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+++++.|.+.+++.+...+..
T Consensus        18 ~~~~~~~~~~~~~~~l~~~~~~   39 (316)
T PHA02544         18 STIDECILPAADKETFKSIVKK   39 (316)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhc
Confidence            5789999999999999888754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=89.58  E-value=1.1  Score=37.54  Aligned_cols=33  Identities=21%  Similarity=0.456  Sum_probs=24.4

Q ss_pred             HHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          59 KAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        59 ~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      ...+++..+||+|||+|..         +   ..+.+.|++.||.
T Consensus       662 ~~v~~~p~svvllDEieka---------~---~~v~~~Llq~ld~  694 (852)
T TIGR03345       662 EAVRRKPYSVVLLDEVEKA---------H---PDVLELFYQVFDK  694 (852)
T ss_pred             HHHHhCCCcEEEEechhhc---------C---HHHHHHHHHHhhc
Confidence            4445677899999999854         2   3577888888875

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

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.56  E-value=1.1  Score=36.04  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=19.6

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      -+|++|+|.+.+++.|+..+..
T Consensus        10 ~~f~eivGq~~i~~~L~~~i~~   31 (584)
T PRK14952         10 ATFAEVVGQEHVTEPLSSALDA   31 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHc
Confidence            5799999999999999998766

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

Probab=89.03  E-value=1.9  Score=26.82  Aligned_cols=41  Identities=20%  Similarity=0.210  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhc
Q psy5205          51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMD  102 (113)
Q Consensus        51 e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld  102 (113)
                      ....+.+.+...+....+|+|||+|.+. +          ...++.+...++
T Consensus        73 ~~l~~~~~~~l~~~~~~~lviDe~~~l~-~----------~~~l~~l~~l~~  113 (131)
T PF13401_consen   73 DELRSLLIDALDRRRVVLLVIDEADHLF-S----------DEFLEFLRSLLN  113 (131)
T ss_dssp             HHHHHHHHHHHHHCTEEEEEEETTHHHH-T----------HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcCCeEEEEeChHhcC-C----------HHHHHHHHHHHh
Confidence            3444455555555666799999999986 1          456777777666

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=88.59  E-value=2.6  Score=32.10  Aligned_cols=23  Identities=9%  Similarity=0.310  Sum_probs=19.9

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++|+|.+.+++.|+..+..
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~   34 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRM   34 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHh
Confidence            35899999999999999887765

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

Probab=88.44  E-value=1.6  Score=31.55  Aligned_cols=80  Identities=21%  Similarity=0.325  Sum_probs=50.0

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec--------------------------------hHHH
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL--------------------------------GARR   53 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl--------------------------------~e~~   53 (113)
                      ..+.++++.|++.+|+.|.+-...+-.        ..|...+||                                .-..
T Consensus        22 ~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--------G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~   93 (249)
T PF05673_consen   22 DPIRLDDLIGIERQKEALIENTEQFLQ--------GLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGD   93 (249)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHc--------CCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhcc
Confidence            368999999999999999776544211        123344444                                2234


Q ss_pred             HHHHHHHHHh-CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          54 VRDLFKAAKD-RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        54 l~~~F~~A~~-~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      +.++++..+. ..+-|||+|++-  +...         ..--.+|-+.|||-
T Consensus        94 l~~l~~~l~~~~~kFIlf~DDLs--Fe~~---------d~~yk~LKs~LeGg  134 (249)
T PF05673_consen   94 LPELLDLLRDRPYKFILFCDDLS--FEEG---------DTEYKALKSVLEGG  134 (249)
T ss_pred             HHHHHHHHhcCCCCEEEEecCCC--CCCC---------cHHHHHHHHHhcCc
Confidence            6677777653 358899999742  2111         12236778888884

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

Probab=88.11  E-value=1  Score=34.12  Aligned_cols=54  Identities=24%  Similarity=0.376  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHH----hCCCeEEEEccccccccccCCCCCC--chhHHHHHHHHHHhcCC
Q psy5205          51 ARRVRDLFKAAK----DRTPCVVFIDEIDSVGAKRTNSVLH--PYANQTINQLLAEMDGF  104 (113)
Q Consensus        51 e~~l~~~F~~A~----~~~p~ilfiDEiD~l~~~R~~~~~~--~~~~~i~~~lL~~ld~~  104 (113)
                      |..+-++...|.    +....|++|||+|.++.+-++.+-.  -....+-.+||..|+|-
T Consensus       144 ENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGT  203 (408)
T COG1219         144 ENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGT  203 (408)
T ss_pred             HHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCc
Confidence            455666665552    3457899999999999766433211  11125777899999985

>KOG0741|consensus

Probab=87.96  E-value=2.2  Score=34.47  Aligned_cols=54  Identities=13%  Similarity=0.241  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC
Q psy5205          52 RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN  107 (113)
Q Consensus        52 ~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~  107 (113)
                      ..++++|+.|++..-+|+++|+++.|..--.-  +...+.-++.+|+..+..-...
T Consensus       585 ~~i~k~F~DAYkS~lsiivvDdiErLiD~vpI--GPRfSN~vlQaL~VllK~~ppk  638 (744)
T KOG0741|consen  585 AHIKKIFEDAYKSPLSIIVVDDIERLLDYVPI--GPRFSNLVLQALLVLLKKQPPK  638 (744)
T ss_pred             HHHHHHHHHhhcCcceEEEEcchhhhhccccc--CchhhHHHHHHHHHHhccCCCC
Confidence            35899999999999999999999998642211  1234556777777777766544

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=87.95  E-value=0.82  Score=34.73  Aligned_cols=43  Identities=26%  Similarity=0.378  Sum_probs=30.9

Q ss_pred             cCCCCCceeechHHHHHHHHHHHHhCCCeEEEEcccccccccc
Q psy5205          39 LGGKLPKGVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR   81 (113)
Q Consensus        39 ~g~~~~~giLl~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R   81 (113)
                      +|.....=.++.+..+.++++.+.+..|.+++||++..+....
T Consensus       132 lg~~~~~l~l~~e~~le~I~~~i~~~~~~lVVIDSIq~l~~~~  174 (372)
T cd01121         132 LGISTENLYLLAETNLEDILASIEELKPDLVIIDSIQTVYSSE  174 (372)
T ss_pred             cCCCcccEEEEccCcHHHHHHHHHhcCCcEEEEcchHHhhccc
Confidence            3433333334466678888888888999999999999987543

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=87.09  E-value=2.7  Score=34.10  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.7

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++|+|.+.+++.|...+..
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~   35 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIAT   35 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc
Confidence            6899999999999999888765

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=87.06  E-value=2.5  Score=34.14  Aligned_cols=45  Identities=20%  Similarity=0.345  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHhC----CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCC
Q psy5205          52 RRVRDLFKAAKDR----TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNE  108 (113)
Q Consensus        52 ~~l~~~F~~A~~~----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~  108 (113)
                      ..||++.+.++..    ..-|++|||+|.+-            ....|.||.-|+....+.
T Consensus       115 d~IReIie~~~~~P~~a~~KVvIIDEad~Ls------------~~a~naLLKtLEePp~~~  163 (598)
T PRK09111        115 DDIREIIESVRYRPVSARYKVYIIDEVHMLS------------TAAFNALLKTLEEPPPHV  163 (598)
T ss_pred             HHHHHHHHHHHhchhcCCcEEEEEEChHhCC------------HHHHHHHHHHHHhCCCCe
Confidence            4577777776422    35699999998883            245788888888754443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=86.81  E-value=3.7  Score=29.62  Aligned_cols=22  Identities=27%  Similarity=0.377  Sum_probs=18.9

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|+|+.|.+++++.++..+..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~   35 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKE   35 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhC
Confidence            5889999999999999887754

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

Probab=86.58  E-value=2.1  Score=35.39  Aligned_cols=44  Identities=25%  Similarity=0.394  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        51 e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      +-+|=+-.++|....|.+ ++||||.++.+-.+.-        -++||.-||.
T Consensus       404 PGrIiQ~mkka~~~NPv~-LLDEIDKm~ss~rGDP--------aSALLEVLDP  447 (782)
T COG0466         404 PGKIIQGMKKAGVKNPVF-LLDEIDKMGSSFRGDP--------ASALLEVLDP  447 (782)
T ss_pred             ChHHHHHHHHhCCcCCeE-EeechhhccCCCCCCh--------HHHHHhhcCH
Confidence            344556677787777765 5999999986533221        2467777774

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=86.31  E-value=3.5  Score=32.47  Aligned_cols=23  Identities=30%  Similarity=0.362  Sum_probs=19.9

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++++|.+.+.+.|+..+..
T Consensus        12 P~~f~diiGq~~i~~~L~~~i~~   34 (486)
T PRK14953         12 PKFFKEVIGQEIVVRILKNAVKL   34 (486)
T ss_pred             CCcHHHccChHHHHHHHHHHHHc
Confidence            45899999999999999888765

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=85.80  E-value=2.9  Score=35.90  Aligned_cols=39  Identities=31%  Similarity=0.457  Sum_probs=26.4

Q ss_pred             CCCCceeechHHHHHHHHHHHH--hCCCeEEEEccccccccc
Q psy5205          41 GKLPKGVLLGARRVRDLFKAAK--DRTPCVVFIDEIDSVGAK   80 (113)
Q Consensus        41 ~~~~~giLl~e~~l~~~F~~A~--~~~p~ilfiDEiD~l~~~   80 (113)
                      ..|++|+ -+.+.+..+|....  ...++||+|||+|.|..+
T Consensus       844 ~~P~~Gl-sS~evLerLF~~L~k~~r~v~IIILDEID~L~kK  884 (1164)
T PTZ00112        844 KKPPNAL-NSFKILDRLFNQNKKDNRNVSILIIDEIDYLITK  884 (1164)
T ss_pred             CCCCccc-cHHHHHHHHHhhhhcccccceEEEeehHhhhCcc
Confidence            3344443 24567888887763  234679999999999753

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=85.30  E-value=1.2  Score=30.30  Aligned_cols=27  Identities=11%  Similarity=0.186  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHhCCCeEEEEcccccccc
Q psy5205          53 RVRDLFKAAKDRTPCVVFIDEIDSVGA   79 (113)
Q Consensus        53 ~l~~~F~~A~~~~p~ilfiDEiD~l~~   79 (113)
                      .+..+.+.+.+..|.+++||-+.++..
T Consensus        85 ~~~~l~~~~~~~~~~lvVIDSis~l~~  111 (209)
T TIGR02237        85 AIQKTSKFIDRDSASLVVVDSFTALYR  111 (209)
T ss_pred             HHHHHHHHHhhcCccEEEEeCcHHHhH
Confidence            366666666677899999999999864

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

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=84.52  E-value=3.5  Score=31.99  Aligned_cols=17  Identities=24%  Similarity=0.366  Sum_probs=14.1

Q ss_pred             CCCeEEEEccccccccc
Q psy5205          64 RTPCVVFIDEIDSVGAK   80 (113)
Q Consensus        64 ~~p~ilfiDEiD~l~~~   80 (113)
                      ..|.+|+|||++.+.++
T Consensus       193 ~~~dvLlIDDi~~l~~~  209 (440)
T PRK14088        193 KKVDVLLIDDVQFLIGK  209 (440)
T ss_pred             hcCCEEEEechhhhcCc
Confidence            36899999999998654

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

Probab=84.43  E-value=3.9  Score=25.08  Aligned_cols=19  Identities=53%  Similarity=0.814  Sum_probs=15.2

Q ss_pred             HHHHhCCCeEEEEcccccc
Q psy5205          59 KAAKDRTPCVVFIDEIDSV   77 (113)
Q Consensus        59 ~~A~~~~p~ilfiDEiD~l   77 (113)
                      ..+....+.++++||++.+
T Consensus        78 ~~~~~~~~~~lilDe~~~~   96 (151)
T cd00009          78 ELAEKAKPGVLFIDEIDSL   96 (151)
T ss_pred             HhhccCCCeEEEEeChhhh
Confidence            3444567999999999987

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

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

Probab=84.19  E-value=0.67  Score=36.05  Aligned_cols=81  Identities=20%  Similarity=0.234  Sum_probs=50.5

Q ss_pred             CcccccHHHHHHHHHHHHH-hcChhhHhhcC-CCCCceeec---------------------------------------
Q psy5205          11 KDVRGVDEAKQELKEIVEF-LKNPEKFSTLG-GKLPKGVLL---------------------------------------   49 (113)
Q Consensus        11 ~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g-~~~~~giLl---------------------------------------   49 (113)
                      ..|+|.+..|+.+..++.. .+......... -..|+++|+                                       
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~   94 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGR   94 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccC
Confidence            3489999999999877643 32222111111 012466777                                       


Q ss_pred             -hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHH
Q psy5205          50 -GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLA   99 (113)
Q Consensus        50 -~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~   99 (113)
                       .+..++++|+.|....|+       |...+.|.... ....+|++.+|+.
T Consensus        95 d~e~~ir~L~~~A~~~~~~-------~~~~~~~~~a~-~~~e~ri~~~l~~  137 (443)
T PRK05201         95 DVESIIRDLVEIAVKMVRE-------EKREKVREKAE-EAAEERILDALLP  137 (443)
T ss_pred             CHHHHHHHHHHHHHHHhHH-------HHHHHHHHHHH-HHHHHHHHHHhCC
Confidence             478899999999888886       56666665433 3455677777654

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=83.59  E-value=4.3  Score=27.23  Aligned_cols=45  Identities=20%  Similarity=0.293  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHHHHh----CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC
Q psy5205          50 GARRVRDLFKAAKD----RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ  106 (113)
Q Consensus        50 ~e~~l~~~F~~A~~----~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~  106 (113)
                      +-..++++.+.+..    ....|++|||+|.+-.            ...+.||.-|+....
T Consensus        77 ~~~~i~~i~~~~~~~~~~~~~kviiide~~~l~~------------~~~~~Ll~~le~~~~  125 (188)
T TIGR00678        77 KVDQVRELVEFLSRTPQESGRRVVIIEDAERMNE------------AAANALLKTLEEPPP  125 (188)
T ss_pred             CHHHHHHHHHHHccCcccCCeEEEEEechhhhCH------------HHHHHHHHHhcCCCC
Confidence            44677777777753    3467999999988832            346778888887443

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

>KOG0732|consensus

Probab=83.24  E-value=0.96  Score=38.76  Aligned_cols=33  Identities=24%  Similarity=0.414  Sum_probs=28.6

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT   82 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~   82 (113)
                      .+..|..+|.+||..+|||+||-.+|--...+.
T Consensus       638 ~~~~iv~i~~eaR~~~psi~~ip~~d~w~~~~p  670 (1080)
T KOG0732|consen  638 LEEEIVHIFMEARKTTPSIVFIPNVDEWARVIP  670 (1080)
T ss_pred             HHHHHHHHHHHHhccCCceeeccchhhhhhcCc
Confidence            467899999999999999999999998766554

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=82.98  E-value=5.6  Score=32.38  Aligned_cols=23  Identities=9%  Similarity=0.310  Sum_probs=19.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++|+|.+.+++.|+..+..
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~   34 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRM   34 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc
Confidence            35899999999999999987755

>KOG2170|consensus

Probab=82.72  E-value=14  Score=27.76  Aligned_cols=26  Identities=12%  Similarity=0.192  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHhCCCeEEEEcccccc
Q psy5205          52 RRVRDLFKAAKDRTPCVVFIDEIDSV   77 (113)
Q Consensus        52 ~~l~~~F~~A~~~~p~ilfiDEiD~l   77 (113)
                      +.-+.+-..+++++.++.+|||+|.+
T Consensus       165 eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  165 ELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             HHHHHHHHHHHhcCCceEEechhhhc
Confidence            33445556667889999999999997

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

Probab=82.56  E-value=0.82  Score=33.94  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=20.1

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .-.|++.+|.+.+|++++-.+..
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~A   44 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKA   44 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHH
Confidence            34789999999999999988877

>PF04465 DUF499: Protein of unknown function (DUF499); InterPro: IPR007555 This is a family of uncharacterised hypothetical prokaryotic proteins

Probab=82.48  E-value=3  Score=35.92  Aligned_cols=26  Identities=27%  Similarity=0.557  Sum_probs=21.7

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEcccccccc
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGA   79 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~   79 (113)
                      +...++++|.    ..||+|++||+=..+.
T Consensus        88 G~~~L~eLl~----~~P~LILiDEl~~Y~~  113 (1035)
T PF04465_consen   88 GKDVLRELLG----GRPVLILIDELVAYAR  113 (1035)
T ss_pred             CHHHHHHHhC----CCCEEEEeecHHHHHH
Confidence            5678899885    3699999999988886

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=81.93  E-value=3.3  Score=26.26  Aligned_cols=48  Identities=8%  Similarity=0.092  Sum_probs=30.0

Q ss_pred             HHHHHHHHhCCCeEEEEccccccccccCC--CCCCchhHHHHHHHHHHhc
Q psy5205          55 RDLFKAAKDRTPCVVFIDEIDSVGAKRTN--SVLHPYANQTINQLLAEMD  102 (113)
Q Consensus        55 ~~~F~~A~~~~p~ilfiDEiD~l~~~R~~--~~~~~~~~~i~~~lL~~ld  102 (113)
                      +..+..+....|.++++||+..+......  ++......+.+.+++..+.
T Consensus        75 ~~~~~~~~~~~~~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~  124 (165)
T cd01120          75 SKAERLRERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLERAR  124 (165)
T ss_pred             HHHHHHHhCCCCEEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHHh
Confidence            44566677888999999999998754321  1223334455555555544

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

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

Probab=80.69  E-value=8.2  Score=28.69  Aligned_cols=28  Identities=14%  Similarity=0.228  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHhCCCeEEEEcccccccc
Q psy5205          52 RRVRDLFKAAKDRTPCVVFIDEIDSVGA   79 (113)
Q Consensus        52 ~~l~~~F~~A~~~~p~ilfiDEiD~l~~   79 (113)
                      +.-..+...-+..++-+|+|||+..++.
T Consensus       132 ~~~~~~~~llr~~~vrmLIIDE~H~lLa  159 (302)
T PF05621_consen  132 KLEQQVLRLLRRLGVRMLIIDEFHNLLA  159 (302)
T ss_pred             HHHHHHHHHHHHcCCcEEEeechHHHhc
Confidence            3344455666789999999999999764

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

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=80.66  E-value=2.2  Score=33.03  Aligned_cols=51  Identities=14%  Similarity=0.283  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC
Q psy5205          51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ  106 (113)
Q Consensus        51 e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~  106 (113)
                      -+.+..++..| -.+.-+|+|||++.+..-|...    .-.+..|++++.+|.+.+
T Consensus       226 Lk~L~~~lr~a-Gy~GLlI~lDE~e~l~kl~~~~----~R~~~ye~lr~lidd~~~  276 (416)
T PF10923_consen  226 LKGLARFLRDA-GYKGLLILLDELENLYKLRNDQ----AREKNYEALRQLIDDIDQ  276 (416)
T ss_pred             HHHHHHHHHHc-CCCceEEEEechHHHHhcCChH----HHHHHHHHHHHHHHHHhc
Confidence            34455555555 6778899999999998655432    134677888888887643

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>KOG0990|consensus

Probab=80.42  E-value=5.8  Score=29.99  Aligned_cols=73  Identities=15%  Similarity=0.088  Sum_probs=45.1

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHHhcChhhHh--hcCCCCCceeec---------------------------hHHHHHH
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEFLKNPEKFS--TLGGKLPKGVLL---------------------------GARRVRD   56 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~--~~g~~~~~giLl---------------------------~e~~l~~   56 (113)
                      +.-+++|+++.+++...+.+....-+.|..|.  --|.-.+.+++-                           .-+.=-.
T Consensus        36 rP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~rgid~vr~qi~  115 (360)
T KOG0990|consen   36 RPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDDRGIDPVRQQIH  115 (360)
T ss_pred             CCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCccCCcchHHHHH
Confidence            34466899999999999999977755554332  111111112222                           1223335


Q ss_pred             HHHHHHh-------CCCeEEEEccccccc
Q psy5205          57 LFKAAKD-------RTPCVVFIDEIDSVG   78 (113)
Q Consensus        57 ~F~~A~~-------~~p~ilfiDEiD~l~   78 (113)
                      .|+.++.       .++-.+++||+|+..
T Consensus       116 ~fast~~~~~fst~~~fKlvILDEADaMT  144 (360)
T KOG0990|consen  116 LFASTQQPTTYSTHAAFKLVILDEADAMT  144 (360)
T ss_pred             HHHhhccceeccccCceeEEEecchhHhh
Confidence            6666653       378899999999985

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	113
2ce7_A	476	Edta Treated Length = 476		2e-19
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		2e-19
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		6e-19
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		2e-17
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		1e-15
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		1e-15
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		1e-15
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		1e-15
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		1e-15
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		7e-11
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		8e-09
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		1e-07
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		1e-07
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		2e-07
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		7e-07
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		9e-07
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		9e-07
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		1e-06
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		2e-06
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		3e-06
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		1e-04
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		1e-04
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		1e-04
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		1e-04
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		4e-04
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		5e-04

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score = 90.5 bits (223), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 56/146 (38%), Positives = 70/146 (47%), Gaps = 40/146 (27%)
Query: 8   ITFKDVRGVDEAKQELKEIVEFLKNPEKFS------------------------------ 37
           +TFKDV G +EA +ELKE+VEFLK+P KF+                              
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGE 72
Query: 38  --------TXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LH 87
                   +            A RVRDLF  AK   PC+VFIDEID+VG  R   +   H
Sbjct: 73  ANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 88  PYANQTINQLLAEMDGFHQNEGVVVL 113
               QT+NQLL EMDGF   EG++V+
Sbjct: 133 DEREQTLNQLLVEMDGFDSKEGIIVM 158

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score = 90.5 bits (223), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 56/146 (38%), Positives = 70/146 (47%), Gaps = 40/146 (27%)
Query: 8   ITFKDVRGVDEAKQELKEIVEFLKNPEKFS------------------------------ 37
           +TFKDV G +EA +ELKE+VEFLK+P KF+                              
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGE 72
Query: 38  --------TXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LH 87
                   +            A RVRDLF  AK   PC+VFIDEID+VG  R   +   H
Sbjct: 73  ANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 88  PYANQTINQLLAEMDGFHQNEGVVVL 113
               QT+NQLL EMDGF   EG++V+
Sbjct: 133 DEREQTLNQLLVEMDGFDSKEGIIVM 158

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score = 89.0 bits (219), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 72/150 (48%), Gaps = 40/150 (26%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFS-------------------------- 37
           ++I  TF DV G DEAK+E+ E+VE+L+ P +F                           
Sbjct: 5   DQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKA 64
Query: 38  ------------TXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                       +            A RVRD+F+ AK   PC++FIDEID+VG +R   +
Sbjct: 65  IAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGL 124
Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              H    QT+NQ+L EMDGF  NEG++V+
Sbjct: 125 GGGHDEREQTLNQMLVEMDGFEGNEGIIVI 154

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score = 83.6 bits (205), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 73/150 (48%), Gaps = 43/150 (28%)
Query: 6   INITFKDVRGVDEAKQELKEIVEFLKNPEKF----------------------------- 36
           + ++FKDV G+ EAK E++E V++LK+PE+F                             
Sbjct: 1   MGVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60
Query: 37  ---------STXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
                                  A RVR LFK A+ R PC+V+IDEID+VG KR+ + + 
Sbjct: 61  TEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTT-MS 119
Query: 88  PYAN----QTINQLLAEMDGFHQNEGVVVL 113
            ++N    QT+NQLL EMDG    + V+VL
Sbjct: 120 GFSNTEEEQTLNQLLVEMDGMGTTDHVIVL 149

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 75/150 (50%), Gaps = 40/150 (26%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKF--------------------------- 36
           E   +TFKDV G +EAK+ELKEIVEFLKNP +F                           
Sbjct: 33  EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 92
Query: 37  -----------STXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                      ++            A RVRDLF+ AK   PC+VFIDEID+VG KR + V
Sbjct: 93  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 152
Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              +    QT+NQLL EMDGF ++  +VV+
Sbjct: 153 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 182

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 75/150 (50%), Gaps = 40/150 (26%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKF--------------------------- 36
           E   +TFKDV G +EAK+ELKEIVEFLKNP +F                           
Sbjct: 24  EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 83
Query: 37  -----------STXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                      ++            A RVRDLF+ AK   PC+VFIDEID+VG KR + V
Sbjct: 84  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 143
Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              +    QT+NQLL EMDGF ++  +VV+
Sbjct: 144 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 173

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 75/150 (50%), Gaps = 40/150 (26%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKF--------------------------- 36
           E   +TFKDV G +EAK+ELKEIVEFLKNP +F                           
Sbjct: 33  EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 92
Query: 37  -----------STXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                      ++            A RVRDLF+ AK   PC+VFIDEID+VG KR + V
Sbjct: 93  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 152
Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              +    QT+NQLL EMDGF ++  +VV+
Sbjct: 153 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 182

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 75/150 (50%), Gaps = 40/150 (26%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKF--------------------------- 36
           E   +TFKDV G +EAK+ELKEIVEFLKNP +F                           
Sbjct: 9   EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 68
Query: 37  -----------STXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                      ++            A RVRDLF+ AK   PC+VFIDEID+VG KR + V
Sbjct: 69  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 128
Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              +    QT+NQLL EMDGF ++  +VV+
Sbjct: 129 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 158

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 75/155 (48%), Gaps = 42/155 (27%)
Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTXXXXXXXXX------------- 47
           ++ E+ N+ FKD+ G +EAK+E+ EIV+FLK PE+++                       
Sbjct: 1   INAEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLL 60
Query: 48  -------------------------XXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                       A RVRDLF+ AK + P ++FIDEID++G  R 
Sbjct: 61  AKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRA 120
Query: 83  NSVL---HPYANQTINQLLAEMDGF-HQNEGVVVL 113
              +   +    QT+NQLLAEMDGF  +N  V+VL
Sbjct: 121 AGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVL 155

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score = 62.0 bits (149), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 42/142 (29%), Positives = 66/142 (46%), Gaps = 41/142 (28%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFS------------------------- 37
           E  N+ ++D+ G+++  QE++E+VE  LK+PE F                          
Sbjct: 10  ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAK 69
Query: 38  -------------TXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                     A  V+D+FK AK++ P ++FIDEID++ AKRT++
Sbjct: 70  AVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDA 129
Query: 85  VLHP--YANQTINQLLAEMDGF 104
           +        +T+ QLLAEMDGF
Sbjct: 130 LTGGDREVQRTLMQLLAEMDGF 151

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 38/142 (26%), Positives = 61/142 (42%), Gaps = 41/142 (28%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKF-------------------------- 36
           E+  ITF  + G+ E  +EL+E++E  LKNPE F                          
Sbjct: 174 EQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAK 233
Query: 37  ------------STXXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR--T 82
                       S             AR +R++F  AK+  PC++F+DE+D++G +R   
Sbjct: 234 AVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSE 293
Query: 83  NSVLHPYANQTINQLLAEMDGF 104
            +       +T+ +LL +MDGF
Sbjct: 294 GTSADREIQRTLMELLTQMDGF 315

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/65 (40%), Positives = 42/65 (64%), Gaps = 2/65 (3%)
Query: 51  ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHP--YANQTINQLLAEMDGFHQNE 108
           A+ VRD F  AK++ P ++FIDE+D++G KR +S         +T+ +LL ++DGF  ++
Sbjct: 260 AKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDD 319
Query: 109 GVVVL 113
            V VL
Sbjct: 320 RVKVL 324

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/151 (25%), Positives = 62/151 (41%), Gaps = 41/151 (27%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEF--------------------LKNPEKFSTXXXXX 43
           E+ ++T+ DV G+D  KQE++E VE                     L  P          
Sbjct: 165 EKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVK 224
Query: 44  XXXXXXXA-------------------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                  A                   R VRD+F+ A++  P ++FIDE+DS+  KR ++
Sbjct: 225 AVANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDA 284
Query: 85  VLHP--YANQTINQLLAEMDGFHQNEGVVVL 113
                    + + +LL +MDGF Q+  V V+
Sbjct: 285 QTGSDREVQRILIELLTQMDGFDQSTNVKVI 315

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 39/62 (62%), Gaps = 1/62 (1%)
Query: 52  RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVV 111
           R VR +F+ AK+  PCV+F DE+D++  +R++      + + +NQLL EMDG    + V 
Sbjct: 90  RAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETG-ASVRVVNQLLTEMDGLEARQQVF 148
Query: 112 VL 113
           ++
Sbjct: 149 IM 150

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPY--ANQTINQLLAEMDGFHQNEGVV 111
           VR++F  A+   PCV+F DE+DS+   R  ++      A++ INQ+L EMDG    + V 
Sbjct: 97  VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF 156
Query: 112 VL 113
           ++
Sbjct: 157 II 158

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPY--ANQTINQLLAEMDGFHQNEGVV 111
           VR++F  A+   PCV+F DE+DS+   R  ++      A++ INQ+L EMDG    + V 
Sbjct: 559 VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF 618
Query: 112 VL 113
           ++
Sbjct: 619 II 620

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPY--ANQTINQLLAEMDGFHQNEGVV 111
           VR++F  A+   PCV+F DE+DS+   R  ++      A++ INQ+L EMDG    + V 
Sbjct: 559 VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF 618
Query: 112 VL 113
           ++
Sbjct: 619 II 620

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 52  RRVRDLFKAAKDRTPCVVFIDEIDSVGAKR--TNSVLHPYANQTINQLLAEMDGF 104
           R  R +FK A +  P +VFIDEID++G KR  +NS       +T+ +LL ++DGF
Sbjct: 262 RLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF 316

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/151 (23%), Positives = 64/151 (42%), Gaps = 41/151 (27%)
Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFST------------------------ 38
           E+ ++T+ DV G  +  ++L+E+VE  L +PE+F+T                        
Sbjct: 202 EKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCAR 261
Query: 39  --------------XXXXXXXXXXXXARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                     AR VR+LF+ A+ +  C++F DEID+VG  R + 
Sbjct: 262 AVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDD 321
Query: 85  VLHP--YANQTINQLLAEMDGFHQNEGVVVL 113
                    +T+ +L+ ++DGF     + V+
Sbjct: 322 GAGGDNEVQRTMLELITQLDGFDPRGNIKVM 352

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 41/65 (63%), Gaps = 2/65 (3%)
Query: 51  ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT--NSVLHPYANQTINQLLAEMDGFHQNE 108
           +R VR+LF  A++  P ++F+DEIDS+G+ R   +        +T+ +LL ++DGF  ++
Sbjct: 227 SRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSK 286
Query: 109 GVVVL 113
            + ++
Sbjct: 287 NIKII 291

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 3/61 (4%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTI-NQLLAEMDGFHQNEGVVV 112
           +R  F+ A+   P ++FIDE+D++  KR  +  H    + I +QLL  MDG  Q   V+V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKT--HGEVERRIVSQLLTLMDGLKQRAHVIV 343
Query: 113 L 113
           +
Sbjct: 344 M 344

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 3/61 (4%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTI-NQLLAEMDGFHQNEGVVV 112
           +R  F+ A+   P ++FIDE+D++  KR  +  H    + I +QLL  MDG  Q   V+V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKT--HGEVERRIVSQLLTLMDGLKQRAHVIV 343
Query: 113 L 113
           +
Sbjct: 344 M 344

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 3/61 (4%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTI-NQLLAEMDGFHQNEGVVV 112
           +R  F+ A+   P ++FIDE+D++  KR  +  H    + I +QLL  MDG  Q   V+V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKT--HGEVERRIVSQLLTLMDGLKQRAHVIV 343
Query: 113 L 113
           +
Sbjct: 344 M 344

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 3/61 (4%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTI-NQLLAEMDGFHQNEGVVV 112
           +R  F+ A+   P ++FIDE+D++  KR  +  H    + I +QLL  MDG  Q   V+V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKT--HGEVERRIVSQLLTLMDGLKQRAHVIV 343
Query: 113 L 113
           +
Sbjct: 344 M 344

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

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 37/61 (60%), Gaps = 2/61 (3%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH-QNEGVVV 112
           V++LF+ A++  P ++FIDEIDS+   R+ +     A +   + L +M G    N+G++V
Sbjct: 216 VKNLFQLARENKPSIIFIDEIDSLCGSRSENESEA-ARRIKTEFLVQMQGVGVDNDGILV 274
Query: 113 L 113
           L
Sbjct: 275 L 275

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

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 37/61 (60%), Gaps = 2/61 (3%)
Query: 54  VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH-QNEGVVV 112
           V++LF+ A++  P ++FIDEIDS+   R+ +     A +   + L +M G    N+G++V
Sbjct: 94  VKNLFQLARENKPSIIFIDEIDSLCGSRSENESE-AARRIKTEFLVQMQGVGVDNDGILV 152
Query: 113 L 113
           L
Sbjct: 153 L 153

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	113
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	5e-48
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	1e-46
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	4e-46
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	7e-46
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	1e-45
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	4e-45
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	2e-44
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	1e-32
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-28
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	2e-28
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	3e-27
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	6e-22
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	3e-25
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-23
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	3e-23
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	6e-23
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	8e-23
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	9e-23
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	4e-21
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	2e-20
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	1e-12
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	5e-12

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score =  153 bits (388), Expect = 5e-48
 Identities = 60/150 (40%), Positives = 83/150 (55%), Gaps = 43/150 (28%)

Query: 6   INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------- 49
           + ++FKDV G+ EAK E++E V++LK+PE+F  LG K+PKG LL                
Sbjct: 1   MGVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60

Query: 50  ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
                                 GA RVR LFK A+ R PC+V+IDEID+VG KR+ + + 
Sbjct: 61  TEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTT-MS 119

Query: 88  PYAN----QTINQLLAEMDGFHQNEGVVVL 113
            ++N    QT+NQLL EMDG    + V+VL
Sbjct: 120 GFSNTEEEQTLNQLLVEMDGMGTTDHVIVL 149

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A* Length = 268

 Score =  149 bits (379), Expect = 1e-46
 Identities = 62/155 (40%), Positives = 86/155 (55%), Gaps = 42/155 (27%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           ++ E+ N+ FKD+ G +EAK+E+ EIV+FLK PE+++ LG K+PKGVLL           
Sbjct: 1   INAEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLL 60

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GA RVRDLF+ AK + P ++FIDEID++G  R 
Sbjct: 61  AKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRA 120

Query: 83  NSVL---HPYANQTINQLLAEMDGFH-QNEGVVVL 113
              +   +    QT+NQLLAEMDGF  +N  V+VL
Sbjct: 121 AGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVL 155

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E* Length = 476

 Score =  153 bits (389), Expect = 4e-46
 Identities = 63/150 (42%), Positives = 80/150 (53%), Gaps = 40/150 (26%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
               +TFKDV G +EA +ELKE+VEFLK+P KF+ +G ++PKG+LL              
Sbjct: 9   GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARA 68

Query: 50  ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                                   GA RVRDLF  AK   PC+VFIDEID+VG  R   +
Sbjct: 69  VAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGL 128

Query: 86  L--HPYANQTINQLLAEMDGFHQNEGVVVL 113
              H    QT+NQLL EMDGF   EG++V+
Sbjct: 129 GGGHDEREQTLNQLLVEMDGFDSKEGIIVM 158

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  153 bits (388), Expect = 7e-46
 Identities = 67/150 (44%), Positives = 84/150 (56%), Gaps = 40/150 (26%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
           E   +TFKDV G +EAK+ELKEIVEFLKNP +F  +G ++PKGVLL              
Sbjct: 24  EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 83

Query: 50  ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                                   GA RVRDLF+ AK   PC+VFIDEID+VG KR + V
Sbjct: 84  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 143

Query: 86  L--HPYANQTINQLLAEMDGFHQNEGVVVL 113
              +    QT+NQLL EMDGF ++  +VV+
Sbjct: 144 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 173

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  146 bits (371), Expect = 1e-45
 Identities = 61/153 (39%), Positives = 84/153 (54%), Gaps = 40/153 (26%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           +  ++I  TF DV G DEAK+E+ E+VE+L+ P +F  LGGK+PKGVL+           
Sbjct: 2   LTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLL 61

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GA RVRD+F+ AK   PC++FIDEID+VG +R 
Sbjct: 62  AKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG 121

Query: 83  NSVL--HPYANQTINQLLAEMDGFHQNEGVVVL 113
             +   H    QT+NQ+L EMDGF  NEG++V+
Sbjct: 122 AGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVI 154

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score =  145 bits (368), Expect = 4e-45
 Identities = 68/153 (44%), Positives = 85/153 (55%), Gaps = 40/153 (26%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           V  E   +TFKDV G +EAK+ELKEIVEFLKNP +F  +G ++PKGVLL           
Sbjct: 6   VLTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHL 65

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                      GA RVRDLF+ AK   PC+VFIDEID+VG KR 
Sbjct: 66  ARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG 125

Query: 83  NSVL--HPYANQTINQLLAEMDGFHQNEGVVVL 113
           + V   +    QT+NQLL EMDGF ++  +VV+
Sbjct: 126 SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVM 158

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  144 bits (366), Expect = 2e-44
 Identities = 67/150 (44%), Positives = 84/150 (56%), Gaps = 40/150 (26%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
           E   +TFKDV G +EAK+ELKEIVEFLKNP +F  +G ++PKGVLL              
Sbjct: 33  EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 92

Query: 50  ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                                   GA RVRDLF+ AK   PC+VFIDEID+VG KR + V
Sbjct: 93  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 152

Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              +    QT+NQLL EMDGF ++  +VV+
Sbjct: 153 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 182

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

 Score =  114 bits (287), Expect = 1e-32
 Identities = 49/148 (33%), Positives = 78/148 (52%), Gaps = 41/148 (27%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
           N+ ++D+ G+++  QE++E+VE  LK+PE F  +G + PKG+LL                
Sbjct: 13  NVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVA 72

Query: 50  ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
                                 GA  V+D+FK AK++ P ++FIDEID++ AKRT+++  
Sbjct: 73  TETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTG 132

Query: 88  --PYANQTINQLLAEMDGFHQNEGVVVL 113
                 +T+ QLLAEMDGF     V ++
Sbjct: 133 GDREVQRTLMQLLAEMDGFDARGDVKII 160

>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 =  104 bits (261), Expect = 1e-28
 Identities = 40/148 (27%), Positives = 70/148 (47%), Gaps = 41/148 (27%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
            +T++D+ G+++ K+EL+E+V++ +++P+KF   G    KGVL                 
Sbjct: 11  QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 70

Query: 50  ---GA-------------------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
               A                     VR++F  A+   PCV+F DE+DS+   R  ++  
Sbjct: 71  NECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD 130

Query: 88  P--YANQTINQLLAEMDGFHQNEGVVVL 113
               A++ INQ+L EMDG    + V ++
Sbjct: 131 GGGAADRVINQILTEMDGMSTKKNVFII 158

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

 Score =  102 bits (257), Expect = 2e-28
 Identities = 39/146 (26%), Positives = 68/146 (46%), Gaps = 40/146 (27%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
           N+T+ D+  +++ ++EL   +   ++NP++F  LG   P GVLL                
Sbjct: 6   NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVA 65

Query: 50  ---GA-------------------RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
              G                    R VR +F+ AK+  PCV+F DE+D++  +R++    
Sbjct: 66  NESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDR-ET 124

Query: 88  PYANQTINQLLAEMDGFHQNEGVVVL 113
             + + +NQLL EMDG    + V ++
Sbjct: 125 GASVRVVNQLLTEMDGLEARQQVFIM 150

>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 = 97.6 bits (243), Expect = 3e-25
 Identities = 35/146 (23%), Positives = 61/146 (41%), Gaps = 40/146 (27%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
            + + D+ G  +   ++KE+VE  L++P  F  +G K P+G+LL                
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259

Query: 50  ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLH 87
                                     +R  F+ A+   P ++FIDE+D++  KR  +   
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGE 319

Query: 88  PYANQTINQLLAEMDGFHQNEGVVVL 113
               + ++QLL  MDG  Q   V+V+
Sbjct: 320 V-ERRIVSQLLTLMDGLKQRAHVIVM 344

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

 Score = 90.8 bits (226), Expect = 1e-23
 Identities = 40/155 (25%), Positives = 63/155 (40%), Gaps = 44/155 (28%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
           +      + + D+ G D AKQ L+E+V      PE F+ L     KG+LL          
Sbjct: 11  IVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTL 69

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                       G + VR LF  A+   P ++FIDE+DS+ ++R
Sbjct: 70  LARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSER 129

Query: 82  TNSVLHPYANQTINQLLAEMDGF---HQNEGVVVL 113
           ++S  H  + +   + L E DG       + +VVL
Sbjct: 130 SSSE-HEASRRLKTEFLVEFDGLPGNPDGDRIVVL 163

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

 Score = 91.0 bits (226), Expect = 3e-23
 Identities = 38/154 (24%), Positives = 61/154 (39%), Gaps = 43/154 (27%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
           +      + F D+ G D AKQ L+EIV      PE F+ L     +G+LL          
Sbjct: 105 IVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTM 163

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                       G + VR LF  A++  P ++FID++DS+  +R
Sbjct: 164 LAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCER 223

Query: 82  TNSVLHPYANQTINQLLAEMDGFH--QNEGVVVL 113
                H  + +   + L E DG     ++ V+V+
Sbjct: 224 REGE-HDASRRLKTEFLIEFDGVQSAGDDRVLVM 256

>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 = 89.3 bits (222), Expect = 6e-23
 Identities = 36/150 (24%), Positives = 64/150 (42%), Gaps = 42/150 (28%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------- 49
           E+ N+ ++DV G++ AK+ LKE V   +K P  F     K   G+LL             
Sbjct: 11  EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 69

Query: 50  -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                      + V+ LF  A++  P ++FID++D++   R   
Sbjct: 70  AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 129

Query: 85  VLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
                + +   +LL +M+G  + ++GV+VL
Sbjct: 130 E-SEASRRIKTELLVQMNGVGNDSQGVLVL 158

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

 Score = 89.0 bits (221), Expect = 8e-23
 Identities = 39/152 (25%), Positives = 64/152 (42%), Gaps = 43/152 (28%)

Query: 3   PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------ 49
            E  N+ + DV G++ AK+ LKE V   +K P  F T      +G+LL            
Sbjct: 4   IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF-TGKRTPWRGILLFGPPGTGKSYLA 62

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                        + V++LF+ A++  P ++FIDEIDS+   R+
Sbjct: 63  KAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS 122

Query: 83  NSVLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
            +     A +   + L +M G    N+G++VL
Sbjct: 123 ENE-SEAARRIKTEFLVQMQGVGVDNDGILVL 153

>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 = 89.4 bits (222), Expect = 9e-23
 Identities = 38/154 (24%), Positives = 67/154 (43%), Gaps = 43/154 (27%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------- 49
           +      + ++D+ GV+ AK  +KEIV + +  P+ F+ L    PKG+LL          
Sbjct: 74  IMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTL 132

Query: 50  ----------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR 81
                                       G + VR LF  A+ + P V+FIDEIDS+ ++R
Sbjct: 133 IGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR 192

Query: 82  TNSVLHPYANQTINQLLAEMDGFH--QNEGVVVL 113
            +   H  + +   + L ++DG      + ++V+
Sbjct: 193 GDGE-HESSRRIKTEFLVQLDGATTSSEDRILVV 225

>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 = 84.9 bits (210), Expect = 4e-21
 Identities = 36/150 (24%), Positives = 64/150 (42%), Gaps = 42/150 (28%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------- 49
           E+ N+ ++DV G++ AK+ LKE V   +K P  F     K   G+LL             
Sbjct: 44  EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 102

Query: 50  -------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS 84
                                      + V+ LF  A++  P ++FID++D++   R   
Sbjct: 103 AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 162

Query: 85  VLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
                + +   +LL +M+G  + ++GV+VL
Sbjct: 163 E-SEASRRIKTELLVQMNGVGNDSQGVLVL 191

>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 = 83.5 bits (206), Expect = 2e-20
 Identities = 39/152 (25%), Positives = 64/152 (42%), Gaps = 43/152 (28%)

Query: 3   PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL------------ 49
            E  N+ + DV G++ AK+ LKE V   +K P  F T      +G+LL            
Sbjct: 126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF-TGKRTPWRGILLFGPPGTGKSYLA 184

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT 82
                                        + V++LF+ A++  P ++FIDEIDS+   R+
Sbjct: 185 KAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS 244

Query: 83  NSVLHPYANQTINQLLAEMDGF-HQNEGVVVL 113
            +     A +   + L +M G    N+G++VL
Sbjct: 245 ENE-SEAARRIKTEFLVQMQGVGVDNDGILVL 275

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 61.4 bits (149), Expect = 1e-12
 Identities = 20/157 (12%), Positives = 49/157 (31%), Gaps = 57/157 (36%)

Query: 12  DVRGVDEAKQELKEIVEFLKNPEKFSTLGG-KLPKGVLL--------------------- 49
            + G   A   + ++V  +   + F  L   K+P  + +                     
Sbjct: 5   KLDGFYIAPAFMDKLV--VHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI 62

Query: 50  -----------------GARRVRDLFKAA----KDRTPCVVFIDEIDSVGAKRTNSVLHP 88
                             A+ +R  ++ A    +    C +FI+++D+   +   +  + 
Sbjct: 63  NPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYT 122

Query: 89  YANQTINQLL---------AEMDGFHQNE---GVVVL 113
             NQ +N  L          ++ G +  +    V ++
Sbjct: 123 VNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPII 159

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Length = 272

 Score = 59.4 bits (144), Expect = 5e-12
 Identities = 14/155 (9%), Positives = 40/155 (25%), Gaps = 47/155 (30%)

Query: 1   VDPEEI-NITFKDVRGVDEAKQELKEIVE-FLKNPEKFSTLGGKLPKGVLLG-------- 50
            + E+  +     +    +    + +  E  ++  +            VLL         
Sbjct: 22  TNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTP---LVSVLLEGPPHSGKT 78

Query: 51  -------------------------------ARRVRDLFKAAKDRTPCVVFIDEIDSVGA 79
                                           + ++ +F  A       V +D+I+ +  
Sbjct: 79  ALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLD 138

Query: 80  KRTNSVLHPYANQTINQLLAEMDGFH-QNEGVVVL 113
                    ++N  +  LL  +     Q   ++++
Sbjct: 139 YVPIG--PRFSNLVLQALLVLLKKAPPQGRKLLII 171

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	113
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.96
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.95
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.95
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.95
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.95
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.95
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.93
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.92
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.81
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.78
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.78
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.77
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.74
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.73
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.7
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.7
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.7
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.67
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.67
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.65
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.62
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.59
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.58
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.58
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.58
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.58
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.54
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.49
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.29
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.2
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.15
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.72
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.3
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.25
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.22
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.02
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.55
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.49
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.47
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.43
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.32
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.24
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.2
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.06
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.02
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.73
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.63
3pvs_A	447	Replication-associated recombination protein A; ma	96.35
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.82
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.66
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	95.66
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.62
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	95.52
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	95.02
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.98
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.92
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	94.53
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	94.47
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	94.33
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	93.85
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	93.84
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	93.74
3co5_A	143	Putative two-component system transcriptional RES	93.47
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	93.39
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	93.25
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	93.06
2chq_A	319	Replication factor C small subunit; DNA-binding pr	92.2
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	92.02
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	91.97
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	91.95
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	90.82
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	90.71
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	90.55
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	88.81
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	88.18
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	87.35
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	86.86
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	86.66
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	86.14
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	86.04
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	85.03
1xp8_A	366	RECA protein, recombinase A; recombination, radior	84.06
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	83.85
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	82.57
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	80.77

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

Probab=99.96  E-value=1e-29  Score=190.06  Aligned_cols=110  Identities=36%  Similarity=0.703  Sum_probs=101.6

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||||++++|++|++.+.+ +++|+.|.++|++||+|+||                                 
T Consensus       141 ~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~s  220 (405)
T 4b4t_J          141 KVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQ  220 (405)
T ss_dssp             CSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSC
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhc
Confidence            56899999999999999999999999 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++++|+.|++++||||||||+|+++++|+.+++  +....+++++||++|||+.+..+|+||
T Consensus       221 k~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vI  291 (405)
T 4b4t_J          221 KYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKII  291 (405)
T ss_dssp             SSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEE
T ss_pred             cccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEE
Confidence                 7999999999999999999999999999999975443  346678999999999999998888875

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

Probab=99.95  E-value=2.7e-28  Score=183.37  Aligned_cols=110  Identities=40%  Similarity=0.694  Sum_probs=101.6

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||||++++|++|++.+.+ +++|+.|..+|+++|+|+||                                 
T Consensus       175 ~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~s  254 (437)
T 4b4t_I          175 KSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQ  254 (437)
T ss_dssp             SSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCC
T ss_pred             cCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhh
Confidence            57899999999999999999999999 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++.+|+.|++++||||||||+|+++++|+.++.  +....+++++||++||++....+|+||
T Consensus       255 k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVI  325 (437)
T 4b4t_I          255 KYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVI  325 (437)
T ss_dssp             SSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEE
T ss_pred             ccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEE
Confidence                 7999999999999999999999999999999965442  456779999999999999988888876

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

Probab=99.95  E-value=5.8e-28  Score=182.27  Aligned_cols=110  Identities=41%  Similarity=0.750  Sum_probs=101.2

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||||++++|++|++.+.+ +++|+.|.++|++||+|+||                                 
T Consensus       174 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~s  253 (437)
T 4b4t_L          174 EQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVD  253 (437)
T ss_dssp             ESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCC
T ss_pred             cCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhcc
Confidence            47899999999999999999999999 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++.+|..|+.++||||||||+|+++++|.+++.  +....+++++||++|||+.+..+|+||
T Consensus       254 k~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI  324 (437)
T 4b4t_L          254 KYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKII  324 (437)
T ss_dssp             SSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEE
T ss_pred             ccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEE
Confidence                 7899999999999999999999999999999965442  356678999999999999988888875

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

Probab=99.95  E-value=5.2e-28  Score=182.19  Aligned_cols=110  Identities=40%  Similarity=0.727  Sum_probs=101.4

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||||++++|++|++.+.+ +++|+.|.++|++||+|+||                                 
T Consensus       165 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~  244 (428)
T 4b4t_K          165 EKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVH  244 (428)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhc
Confidence            57899999999999999999999988 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++++|..|++++|||+||||+|+++++|.+..  .+....+++++||++|||+.+..+|+||
T Consensus       245 ~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI  315 (428)
T 4b4t_K          245 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVI  315 (428)
T ss_dssp             SSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEE
T ss_pred             cccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEE
Confidence                 789999999999999999999999999999996443  3456789999999999999988888876

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

Probab=99.95  E-value=1.3e-27  Score=180.91  Aligned_cols=110  Identities=40%  Similarity=0.767  Sum_probs=101.5

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||||++++|++|++.+.+ +++|+.|.++|+++|+|+||                                 
T Consensus       202 e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~s  281 (467)
T 4b4t_H          202 EKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQ  281 (467)
T ss_dssp             SSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhc
Confidence            57999999999999999999999998 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++++|..|+.++||||||||+|+++.+|+.++.  +....+++++||++||++....+|+||
T Consensus       282 k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVI  352 (467)
T 4b4t_H          282 KYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVM  352 (467)
T ss_dssp             CSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEE
T ss_pred             ccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEE
Confidence                 7899999999999999999999999999999976543  345678999999999999988888876

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

Probab=99.95  E-value=6.6e-28  Score=181.85  Aligned_cols=110  Identities=40%  Similarity=0.705  Sum_probs=100.9

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +.|+++|+||||++++|++|++.+.+ +++|+.|.++|+++|+|+||                                 
T Consensus       174 ~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~  253 (434)
T 4b4t_M          174 EKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQ  253 (434)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCS
T ss_pred             CCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhh
Confidence            57899999999999999999998888 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++.+|..|++++||||||||+|+++++|.+++.  +....+++++||++|||+.+.++|+||
T Consensus       254 ~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVI  324 (434)
T 4b4t_M          254 MYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVL  324 (434)
T ss_dssp             SCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEE
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEE
Confidence                 7899999999999999999999999999999975442  345678999999999999988888875

>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=99.93  E-value=1.7e-26  Score=184.42  Aligned_cols=111  Identities=36%  Similarity=0.701  Sum_probs=94.8

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      ++.|+++|+||+|++++|++|++.+.+ +++|+.|.++|.++|+|+||                                
T Consensus       469 ~~~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~  548 (806)
T 3cf2_A          469 VEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELL  548 (806)
T ss_dssp             CBCCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHH
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhh
Confidence            567899999999999999999999999 99999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            +|++++++|+.|++++||||||||+|+++++|+.+  ++++..+|++|+||++|||+.+.++|+||
T Consensus       549 s~~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi  620 (806)
T 3cf2_A          549 TMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFII  620 (806)
T ss_dssp             TTTCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEE
T ss_pred             ccccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEE
Confidence                  89999999999999999999999999999999743  33567789999999999999988888886

>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=99.92  E-value=2.4e-25  Score=177.80  Aligned_cols=108  Identities=32%  Similarity=0.650  Sum_probs=100.9

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      .|.++|+||+|+++++++|++++.+ +++|+.|..+|++||+|+||                                  
T Consensus       198 ~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk  277 (806)
T 3cf2_A          198 LNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  277 (806)
T ss_dssp             SSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSS
T ss_pred             CCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcc
Confidence            4789999999999999999999998 99999999999999999999                                  


Q ss_pred             ----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                          ++++++++|+.|+.++||||||||+|+|+++|++++ ++..++++++||++||++..+.+|+||
T Consensus       278 ~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~-~~~~~riv~~LL~~mdg~~~~~~V~VI  344 (806)
T 3cf2_A          278 LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-GEVERRIVSQLLTLMDGLKQRAHVIVM  344 (806)
T ss_dssp             CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCC-CTTHHHHHHHHHTHHHHCCGGGCEEEE
T ss_pred             cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCC-ChHHHHHHHHHHHHHhcccccCCEEEE
Confidence                789999999999999999999999999999998765 556789999999999999888888875

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

Probab=99.81  E-value=2.8e-19  Score=129.97  Aligned_cols=109  Identities=35%  Similarity=0.603  Sum_probs=95.2

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|+++|+||+|++++|+.|++.+.+ +++++.|.. +..+++|+||                                
T Consensus         4 ~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l   82 (322)
T 1xwi_A            4 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL   82 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSS
T ss_pred             ecCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHH
Confidence            467899999999999999999999888 999999874 3677899999                                


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC-CCceEEc
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ-NEGVVVL  113 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~-~~~v~vi  113 (113)
                             +++.++.+|..|+..+||||||||+|+++++|.... +....+++++||++||++.. ..+++||
T Consensus        83 ~~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~-~~~~~~~~~~ll~~ld~~~~~~~~v~vI  153 (322)
T 1xwi_A           83 VSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENE-SEAARRIKTEFLVQMQGVGVDNDGILVL  153 (322)
T ss_dssp             CCSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCC-TTHHHHHHHHHHHHHHCSSSCCTTEEEE
T ss_pred             HhhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhcccccccc-chHHHHHHHHHHHHHhcccccCCCEEEE
Confidence                   578999999999999999999999999999987664 56678999999999999863 5666654

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

Probab=99.78  E-value=5.1e-19  Score=127.25  Aligned_cols=111  Identities=36%  Similarity=0.719  Sum_probs=97.0

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|.++|+||+|+++++++|++.+.+ +.+++.|..+|+.+++|+||                                
T Consensus         7 ~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~   86 (301)
T 3cf0_A            7 VEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELL   86 (301)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHH
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHH
Confidence            456899999999999999999999988 99999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            +++.++.+|..|+...|||+||||+|+++..|+...  .++...+++++||+.||++....+++||
T Consensus        87 ~~~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi  158 (301)
T 3cf0_A           87 TMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFII  158 (301)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEE
T ss_pred             hhhcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEE
Confidence                  456789999999999999999999999999886432  2345578999999999998777777765

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

Probab=99.78  E-value=1.1e-18  Score=132.94  Aligned_cols=112  Identities=57%  Similarity=0.975  Sum_probs=94.6

Q ss_pred             CCC-CCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec-------------------------------
Q psy5205           2 DPE-EINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------------------------   49 (113)
Q Consensus         2 ~~~-~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl-------------------------------   49 (113)
                      .+. .+.++|+||+|.+++++++++++..+.++..|..+|.++|+|+||                               
T Consensus         6 ~~~~~~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~   85 (476)
T 2ce7_A            6 KPSGNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDF   85 (476)
T ss_dssp             CCCCSCCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGT
T ss_pred             ccCCCCCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHH
Confidence            345 788999999999999999999998899999999999999999999                               


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                             ++++++.+|+.|+..+||||||||+|+++.+|+.+  +.+....+++++||.+||++....+++||
T Consensus        86 ~~~~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVI  158 (476)
T 2ce7_A           86 VELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVM  158 (476)
T ss_dssp             TTCCTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEE
T ss_pred             HHHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEE
Confidence                   56789999999999999999999999999988642  23445668999999999998776677665

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

Probab=99.77  E-value=1.3e-18  Score=124.13  Aligned_cols=110  Identities=35%  Similarity=0.668  Sum_probs=82.4

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|+++|+||+|++++|++|++.+.+ +.+++.|..+++.+++|++|                                
T Consensus         2 ~~~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~   81 (274)
T 2x8a_A            2 MTVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELL   81 (274)
T ss_dssp             ----------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTC
T ss_pred             CCCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHH
Confidence            456899999999999999999997777 99999999999999999888                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            ++++++.+|..|+...||++|+||+|.++..|+... .....+++++++++|||......++++
T Consensus        82 ~~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~-~~~~~~~~~~~l~~Lsgg~~~~~~i~i  150 (274)
T 2x8a_A           82 NMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRE-TGASVRVVNQLLTEMDGLEARQQVFIM  150 (274)
T ss_dssp             SSTTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC----------CTTHHHHHHHHHHTCCSTTCEEEE
T ss_pred             hhhhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCc-chHHHHHHHHHHHhhhcccccCCEEEE
Confidence                  467899999999999999999999999998776432 334567899999999999877766653

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

Probab=99.74  E-value=6.9e-18  Score=122.27  Aligned_cols=109  Identities=33%  Similarity=0.608  Sum_probs=90.2

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|.++|+||+|++.++++|++.+.+ +.+++.|.. +..+++|+||                                
T Consensus        10 ~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~   88 (322)
T 3eie_A           10 SEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV   88 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHH
T ss_pred             ecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHh
Confidence            356899999999999999999998888 999998876 5577899999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC-CCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH-QNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~-~~~~v~vi  113 (113)
                            +++.++.+|..|+...|+||||||+|.++++|+.+. +...+++.++|+..|+++. ...+++||
T Consensus        89 ~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~v~vi  158 (322)
T 3eie_A           89 SKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVL  158 (322)
T ss_dssp             TTTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC-------CCTHHHHHHHHHHHGGGGTSCCCEEEE
T ss_pred             hcccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCc-chHHHHHHHHHHHHhccccccCCceEEE
Confidence                  578899999999999999999999999999886554 5567899999999999984 45556654

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

Probab=99.73  E-value=1e-17  Score=123.10  Aligned_cols=109  Identities=33%  Similarity=0.607  Sum_probs=86.8

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      ...|.++|+||+|++.+++.|++.+.+ +++++.|.. +..+++|+||                                
T Consensus        43 ~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~  121 (355)
T 2qp9_X           43 SEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV  121 (355)
T ss_dssp             ----CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHH
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHh
Confidence            456889999999999999999998888 999999987 5678899999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC-CCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ-NEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~-~~~v~vi  113 (113)
                            +++.++.+|..|+...|+||||||+|.++++|+.+. +...++++++||++||++.. ..+++||
T Consensus       122 ~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~-~~~~~~~~~~ll~~l~~~~~~~~~v~vI  191 (355)
T 2qp9_X          122 SKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVL  191 (355)
T ss_dssp             SCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC-------CTHHHHHHHHHHHHHHHCC---CCEEEE
T ss_pred             hhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCc-chHHHHHHHHHHHHhhcccccCCCeEEE
Confidence                  578899999999999999999999999999887654 56778999999999999854 4556554

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

Probab=99.70  E-value=4.3e-17  Score=122.97  Aligned_cols=109  Identities=35%  Similarity=0.603  Sum_probs=92.6

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.|.++|+||+|++.+++.|.+.+.+ +++++.|.. +..+++|+||                                
T Consensus       126 ~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l  204 (444)
T 2zan_A          126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL  204 (444)
T ss_dssp             CCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC--
T ss_pred             ccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHH
Confidence            457899999999999999999998887 999998874 3567799999                                


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC-CCceEEc
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ-NEGVVVL  113 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~-~~~v~vi  113 (113)
                             +++.++.+|..|+..+|+||||||+|+++++|.... +....+++++||++||++.. ..+++||
T Consensus       205 ~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~-~~~~~~~~~~lL~~l~~~~~~~~~v~vI  275 (444)
T 2zan_A          205 VSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENE-SEAARRIKTEFLVQMQGVGVDNDGILVL  275 (444)
T ss_dssp             -------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCC-CGGGHHHHHHHHTTTTCSSCCCSSCEEE
T ss_pred             HhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCcc-ccHHHHHHHHHHHHHhCcccCCCCEEEE
Confidence                   356789999999999999999999999999887654 56778999999999999853 4556554

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

Probab=99.70  E-value=1.1e-16  Score=111.79  Aligned_cols=108  Identities=55%  Similarity=0.957  Sum_probs=77.5

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec------------------------------------
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL------------------------------------   49 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl------------------------------------   49 (113)
                      |+++|++|+|++.+++++++++..+.+++.|..+|..+++|+||                                    
T Consensus         1 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~   80 (262)
T 2qz4_A            1 MGVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIG   80 (262)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSST
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhcc
Confidence            67899999999999999999998899999999999999999999                                    


Q ss_pred             --hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC---CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 --GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV---LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 --~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~---~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                        +++.++.+|..|+...|+||||||+|.++.+|+...   .+......+++|+.++++.....+++||
T Consensus        81 ~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi  149 (262)
T 2qz4_A           81 GLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVL  149 (262)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEE
T ss_pred             ChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEE
Confidence              467899999999999999999999999998886432   1234457899999999998766666664

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

Probab=99.70  E-value=1.1e-16  Score=112.12  Aligned_cols=111  Identities=55%  Similarity=0.982  Sum_probs=90.9

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      +..+..+|+||+|++.+++++.+++.++.+++.|..+|..+|+|+++                                 
T Consensus         4 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~   83 (257)
T 1lv7_A            4 EDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE   83 (257)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTT
T ss_pred             ccCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHH
Confidence            46688999999999999999999998899999999999999999998                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +++.++.+|..|+...|+++||||+|.++..|...  +......++++++|+.||++....+++||
T Consensus        84 ~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI  154 (257)
T 1lv7_A           84 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVI  154 (257)
T ss_dssp             SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEE
T ss_pred             HhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEE
Confidence                 46789999999999999999999999999887643  22334458999999999998777666664

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

Probab=99.67  E-value=2.7e-16  Score=120.17  Aligned_cols=107  Identities=33%  Similarity=0.665  Sum_probs=96.2

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      +.++|++|+|.+.++++|++.+.. +++++.|..+|..+++|+||                                   
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~  278 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  278 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSC
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhh
Confidence            457899999999999999999998 99999999999999999999                                   


Q ss_pred             ---hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ---GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ---~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                         ++..++.+|..|...+|++|||||+|+++++|+... +....+++++||..||+.....+++||
T Consensus       279 ~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~-~~~~~~~~~~LL~~ld~~~~~~~v~vI  344 (489)
T 3hu3_A          279 AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-GEVERRIVSQLLTLMDGLKQRAHVIVM  344 (489)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCC-CHHHHHHHHHHHHHHHHSCTTSCEEEE
T ss_pred             cchhHHHHHHHHHHHHhcCCcEEEecchhhhcccccccc-chHHHHHHHHHHHHhhccccCCceEEE
Confidence               467899999999999999999999999999987654 556789999999999998777777764

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

Probab=99.67  E-value=6.6e-16  Score=109.27  Aligned_cols=110  Identities=45%  Similarity=0.813  Sum_probs=95.9

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      ..|+++|++|+|++.++++|.+.+.. +.+++.|..+|..+++++||                                 
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   89 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVK   89 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHH
Confidence            56789999999999999999999888 99999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           +++.++.+|..|+...|+||||||+|.++++|.+...  .....+.+.+++.+++++....+++||
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI  160 (285)
T 3h4m_A           90 KFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKII  160 (285)
T ss_dssp             CSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEE
T ss_pred             hccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEE
Confidence                 4678999999999999999999999999998875432  234568889999999988776666664

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

Probab=99.65  E-value=6.9e-16  Score=118.16  Aligned_cols=108  Identities=60%  Similarity=0.988  Sum_probs=93.8

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec------------------------------------
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL------------------------------------   49 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl------------------------------------   49 (113)
                      +.++|+||+|.++++.++++++..+.++..|..++.+.|+|+||                                    
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~  105 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV  105 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCT
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhh
Confidence            88999999999999999999998899999999999999999988                                    


Q ss_pred             --hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 --GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 --~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                        ++++++.+|+.|+...||++||||+|.++.+|..+  ..+....+.++++|.+||+......++++
T Consensus       106 g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~vivi  173 (499)
T 2dhr_A          106 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVM  173 (499)
T ss_dssp             THHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEE
T ss_pred             hhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEE
Confidence              35679999999988899999999999999888642  22445568999999999998776666654

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

Probab=99.59  E-value=1.5e-14  Score=101.13  Aligned_cols=111  Identities=59%  Similarity=0.952  Sum_probs=90.0

Q ss_pred             CCCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           2 DPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         2 ~~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .++.|.++|++++|++.++.+++++...+.++..+..++...++|+++                                
T Consensus         7 ~~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~   86 (254)
T 1ixz_A            7 LTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFV   86 (254)
T ss_dssp             -CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             ccCCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHH
Confidence            467899999999999999999999888888899999999999999888                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEE
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVV  112 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~v  112 (113)
                            +++.++.+|+.+....|+++|+||+|.++..|..+  ..+....+.+++++.+|++......+++
T Consensus        87 ~~~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~  157 (254)
T 1ixz_A           87 EMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVV  157 (254)
T ss_dssp             HSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEE
T ss_pred             HHHhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEE
Confidence                  34678899999988899999999999999877542  2244567889999999999876665554

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

Probab=99.58  E-value=1e-14  Score=103.78  Aligned_cols=109  Identities=38%  Similarity=0.618  Sum_probs=86.6

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      ...|.++|++|+|.+.+++.|++.+.. ..+++.|...+ .+++++||                                
T Consensus        13 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~   91 (297)
T 3b9p_A           13 EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLT   91 (297)
T ss_dssp             CCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTS
T ss_pred             cCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHh
Confidence            456789999999999999999998888 88899887665 46788888                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC---CceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN---EGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~---~~v~vi  113 (113)
                            +++.++.+|..|+...|++|||||+|.++..|.... +....++.++||..+|+....   .+++||
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi  163 (297)
T 3b9p_A           92 SKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSE-HEASRRLKTEFLVEFDGLPGNPDGDRIVVL  163 (297)
T ss_dssp             SSSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC------CCSHHHHHHHHHHHHHCC------CEEEE
T ss_pred             hcccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCc-chHHHHHHHHHHHHHhcccccCCCCcEEEE
Confidence                  578899999999999999999999999999886543 445578999999999988643   345543

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

Probab=99.58  E-value=1.1e-14  Score=106.90  Aligned_cols=108  Identities=35%  Similarity=0.636  Sum_probs=85.8

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      ..+.++|++|+|.+.+++.|.+.+.+ +.+++.|...+ .+++++||                                 
T Consensus        77 ~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~  155 (357)
T 3d8b_A           77 HGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTS  155 (357)
T ss_dssp             CSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhc
Confidence            45789999999999999999999888 88999887765 57788888                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC--CCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ--NEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~--~~~v~vi  113 (113)
                           +++.++.+|..|+...|+||||||+|.++.+|+.+. +....+++++||..|++...  ..+++||
T Consensus       156 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~-~~~~~~~~~~lL~~l~~~~~~~~~~v~vI  225 (357)
T 3d8b_A          156 KWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGE-HESSRRIKTEFLVQLDGATTSSEDRILVV  225 (357)
T ss_dssp             SSTTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC-------CHHHHHHHHHHHHHHC----CCCCEEEE
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCc-chHHHHHHHHHHHHHhcccccCCCCEEEE
Confidence                 467899999999999999999999999999887544 55678999999999999753  3455553

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

Probab=99.58  E-value=2.5e-16  Score=110.72  Aligned_cols=112  Identities=54%  Similarity=0.891  Sum_probs=88.6

Q ss_pred             CCCCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec-------------------------------
Q psy5205           1 VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------------------------   49 (113)
Q Consensus         1 ~~~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl-------------------------------   49 (113)
                      |.++.|.++|++|+|.+.+++++++++..+.+++.|..++..+++|+||                               
T Consensus         1 i~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~   80 (268)
T 2r62_A            1 INAEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSF   80 (268)
T ss_dssp             CCCCCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTT
T ss_pred             CCccCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHH
Confidence            5688999999999999999999999988899999999999999999999                               


Q ss_pred             -------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC---CCchhHHHHHHHHHHhcCCCCC-CceEE
Q psy5205          50 -------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV---LHPYANQTINQLLAEMDGFHQN-EGVVV  112 (113)
Q Consensus        50 -------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~---~~~~~~~i~~~lL~~ld~~~~~-~~v~v  112 (113)
                             +++.++.+|+.|....|+||||||+|.+..+|..++   .+....+++++|+..|++.... ..++|
T Consensus        81 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~v  154 (268)
T 2r62_A           81 IEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIV  154 (268)
T ss_dssp             TTSCSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEE
T ss_pred             HHhhcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEE
Confidence                   234567889999999999999999999998875322   1233346788999999987643 33444

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

Probab=99.54  E-value=2.6e-14  Score=105.79  Aligned_cols=108  Identities=35%  Similarity=0.616  Sum_probs=83.8

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      ..+.++|++|+|.+.+++.|.+.+.. ..+++.|...+ .+++++||                                 
T Consensus       108 ~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~  186 (389)
T 3vfd_A          108 NGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTS  186 (389)
T ss_dssp             CSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-CCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC--
T ss_pred             cCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccC-CCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhc
Confidence            34678999999999999999998888 88888888776 46788888                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC--CCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ--NEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~--~~~v~vi  113 (113)
                           ++..++.+|..|+...|+||||||+|.++..|..+. +....++.++|+..|+++..  ...++||
T Consensus       187 ~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~v~vI  256 (389)
T 3vfd_A          187 KYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGE-HDASRRLKTEFLIEFDGVQSAGDDRVLVM  256 (389)
T ss_dssp             -----CHHHHHHHHHHHHHSSSEEEEEETGGGGC---------CTHHHHHHHHHHHHHHHC-----CEEEE
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCcc-chHHHHHHHHHHHHhhcccccCCCCEEEE
Confidence                 567899999999999999999999999998886543 45678999999999998764  3445554

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

Probab=99.49  E-value=3.8e-13  Score=95.30  Aligned_cols=110  Identities=60%  Similarity=0.973  Sum_probs=89.2

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      .+.|.++|++++|.+++++++++++..+.++..+..++...++|+++                                 
T Consensus        32 ~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~  111 (278)
T 1iy2_A           32 TEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE  111 (278)
T ss_dssp             CCCCCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             cCCCCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHH
Confidence            34588999999999999999999988888899999999999999888                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCC--CCCchhHHHHHHHHHHhcCCCCCCceEE
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS--VLHPYANQTINQLLAEMDGFHQNEGVVV  112 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~--~~~~~~~~i~~~lL~~ld~~~~~~~v~v  112 (113)
                           ..+.++.+|+.+....|+++|+||+|.++..|...  .......+.+++++.+|++......+++
T Consensus       112 ~~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~  181 (278)
T 1iy2_A          112 MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVV  181 (278)
T ss_dssp             STTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEE
T ss_pred             HHhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEE
Confidence                 24568899999988899999999999998877532  1234557889999999999876655554

>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=99.29  E-value=1.8e-12  Score=109.92  Aligned_cols=111  Identities=17%  Similarity=0.205  Sum_probs=77.9

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHH-hcC----------hhhHhh------cCCC----------CCce--eec----
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEF-LKN----------PEKFST------LGGK----------LPKG--VLL----   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~-~~~----------~~~~~~------~g~~----------~~~g--iLl----   49 (113)
                      +..+.++|+|++|+++.|+.+.+.+.+ +.+          ++.++.      .|+.          +|+|  +|+    
T Consensus      1012 ~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~ 1091 (1706)
T 3cmw_A         1012 GSASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPE 1091 (1706)
T ss_dssp             ------------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECST
T ss_pred             cccCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCC
Confidence            345679999999999999999998888 744          556665      3333          5666  666    


Q ss_pred             -----------------------------------------------------hHHHHHHHHHHHHhCCCeEEEEccccc
Q psy5205          50 -----------------------------------------------------GARRVRDLFKAAKDRTPCVVFIDEIDS   76 (113)
Q Consensus        50 -----------------------------------------------------~e~~l~~~F~~A~~~~p~ilfiDEiD~   76 (113)
                                                                           +|+.++.+|..||+.+||++|+||+|+
T Consensus      1092 g~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~a 1171 (1706)
T 3cmw_A         1092 SSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAA 1171 (1706)
T ss_dssp             TSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGG
T ss_pred             CCChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHh
Confidence                                                                 288999999999999999999999999


Q ss_pred             cccccC---CCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          77 VGAKRT---NSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        77 l~~~R~---~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                      |+++|+   ..+  ..+...|+++++|++||++...++|+||
T Consensus      1172 l~~~~~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~~~~v~v~ 1213 (1706)
T 3cmw_A         1172 LTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLI 1213 (1706)
T ss_dssp             CCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHTTCEEE
T ss_pred             cCcccccccccccccccHHHHHHHHHHHHHHhhhccCCeEEE
Confidence            999953   222  1256778999999999998777777663

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.20  E-value=6.8e-12  Score=94.71  Aligned_cols=73  Identities=19%  Similarity=0.242  Sum_probs=57.7

Q ss_pred             CCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec----------------------------------
Q psy5205           4 EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------------------------------   49 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl----------------------------------   49 (113)
                      ..|...|++++|.+.+++++.+++..++.       |..+++|+||                                  
T Consensus        30 ~~~~~~~~~iiG~~~~~~~l~~~~~~~~~-------~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~  102 (456)
T 2c9o_A           30 GLAKQAASGLVGQENAREACGVIVELIKS-------KKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVY  102 (456)
T ss_dssp             SCBCSEETTEESCHHHHHHHHHHHHHHHT-------TCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGC
T ss_pred             cChhhchhhccCHHHHHHHHHHHHHHHHh-------CCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHH
Confidence            45678899999999999999998866432       4456778888                                  


Q ss_pred             ------hHHHHHHHHHHH---HhCCCeEEEEccccccccccCCC
Q psy5205          50 ------GARRVRDLFKAA---KDRTPCVVFIDEIDSVGAKRTNS   84 (113)
Q Consensus        50 ------~e~~l~~~F~~A---~~~~p~ilfiDEiD~l~~~R~~~   84 (113)
                            +++ ++++|..|   +...||||||||+|+++++|+..
T Consensus       103 ~~~~~~~~~-~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~  145 (456)
T 2c9o_A          103 STEIKKTEV-LMENFRRAIGLRIKETKEVYEGEVTELTPCETEN  145 (456)
T ss_dssp             CSSSCHHHH-HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC----
T ss_pred             HHhhhhhHH-HHHHHHHHHhhhhcCCcEEEEechhhcccccCCC
Confidence                  344 88999999   88899999999999999999755

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.15  E-value=3.8e-11  Score=85.98  Aligned_cols=56  Identities=16%  Similarity=0.304  Sum_probs=36.5

Q ss_pred             hHHHHHHHHHHH----HhCCCeEEEEccccccccccCCCCC-CchhHHHHHHHHHHhcCCC
Q psy5205          50 GARRVRDLFKAA----KDRTPCVVFIDEIDSVGAKRTNSVL-HPYANQTINQLLAEMDGFH  105 (113)
Q Consensus        50 ~e~~l~~~F~~A----~~~~p~ilfiDEiD~l~~~R~~~~~-~~~~~~i~~~lL~~ld~~~  105 (113)
                      +++.++++|..|    +...||||||||+|++++++++... ....+++.+.|++.||+..
T Consensus        80 ~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~  140 (293)
T 3t15_A           80 PAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPT  140 (293)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSCCCEEEECCC--------------CHHHHHHHHHHHHHCCC
T ss_pred             hHHHHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhcccc
Confidence            567899999999    5789999999999999997664332 2345678899999998553

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

Probab=98.72  E-value=6.1e-08  Score=68.80  Aligned_cols=87  Identities=22%  Similarity=0.304  Sum_probs=65.2

Q ss_pred             cccccHHHHHHHHHHHHHhcChhhHhhcCCCCCc---eeec---------------------------------------
Q psy5205          12 DVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPK---GVLL---------------------------------------   49 (113)
Q Consensus        12 di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~---giLl---------------------------------------   49 (113)
                      +|+|++.+++.|.+++..+..+..+..+|+.+++   ++||                                       
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            7999999999999998885557777777755543   4666                                       


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                            +++.++.+|..+   .++||||||+|.+++++.+.   .....+.+.|+..|+.-
T Consensus       112 ~~~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~---~~~~~~~~~Ll~~l~~~  166 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNER---DYGQEAIEILLQVMENN  166 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC------CCTHHHHHHHHHHHHHC
T ss_pred             hhcccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcc---cccHHHHHHHHHHHhcC
Confidence                  345567777766   57899999999999776542   23467889999999864

>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=98.30  E-value=2.2e-07  Score=70.35  Aligned_cols=90  Identities=18%  Similarity=0.198  Sum_probs=49.1

Q ss_pred             CcccccHHHHHHHHHHHHH-hcChhhHhhcCCC-CCceeec---------------------------------------
Q psy5205          11 KDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGK-LPKGVLL---------------------------------------   49 (113)
Q Consensus        11 ~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~-~~~giLl---------------------------------------   49 (113)
                      ++|+|.+++|+.|...+.. ++++..+...+.. +++++||                                       
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            4799999999999888766 6666665554432 5678888                                       


Q ss_pred             -hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCC
Q psy5205          50 -GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNE  108 (113)
Q Consensus        50 -~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~  108 (113)
                       +++.++++|..|+...    ++||+|.+.....    +...++++++||++|||+.+..
T Consensus        95 d~e~~lr~lf~~a~~~~----~~De~d~~~~~~~----~~~e~rvl~~LL~~~dg~~~~~  146 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKLV----RQQEIAKNRARAE----DVAEERILDALLPPAKNQWGEV  146 (444)
T ss_dssp             CTHHHHHHHHHHHHHHH----HHHHHHSCC------------------------------
T ss_pred             cHHHHHHHHHHHHHhcc----hhhhhhhhhccch----hhHHHHHHHHHHHHhhcccccc
Confidence             4778999999997754    4899888754322    3456899999999999996543

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=98.25  E-value=1.5e-06  Score=63.41  Aligned_cols=93  Identities=24%  Similarity=0.277  Sum_probs=60.3

Q ss_pred             cccccHHHHHHHHHHHHH-hcChhhHhh-cC-CCCCceeec---------------------------------------
Q psy5205          12 DVRGVDEAKQELKEIVEF-LKNPEKFST-LG-GKLPKGVLL---------------------------------------   49 (113)
Q Consensus        12 di~G~~~~k~~l~~~i~~-~~~~~~~~~-~g-~~~~~giLl---------------------------------------   49 (113)
                      .|+|.+.+++.+...+.. ......... .+ ..+++++||                                       
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~   95 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE   95 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccc
Confidence            369999999999887754 222111000 11 124566777                                       


Q ss_pred             -hHHHHHHHHHHH----HhCCCeEEEEccccccccccCCCCCC--chhHHHHHHHHHHhcCC
Q psy5205          50 -GARRVRDLFKAA----KDRTPCVVFIDEIDSVGAKRTNSVLH--PYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 -~e~~l~~~F~~A----~~~~p~ilfiDEiD~l~~~R~~~~~~--~~~~~i~~~lL~~ld~~  104 (113)
                       .++.++.+|..+    ....|+||||||+|.+..+|++.+.+  ....++.+.||+.||+.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~  157 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGT  157 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCc
Confidence             134567777766    45679999999999999888654422  22235999999999953

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.22  E-value=1.6e-05  Score=55.62  Aligned_cols=59  Identities=14%  Similarity=0.254  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC-CCceEE
Q psy5205          52 RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ-NEGVVV  112 (113)
Q Consensus        52 ~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~-~~~v~v  112 (113)
                      ..++.+|+.|....|++|||||+|.+++.+..+.  .....+++.|+..+++... ...++|
T Consensus       111 ~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~--~~~~~~l~~L~~~~~~~~~~~~~~~i  170 (272)
T 1d2n_A          111 QAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGP--RFSNLVLQALLVLLKKAPPQGRKLLI  170 (272)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTT--BCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             HHHHHHHHHHHhcCCcEEEEEChhhhhccCCCCh--hHHHHHHHHHHHHhcCccCCCCCEEE
Confidence            5788999999888999999999999988775432  2346788888888887653 334433

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.02  E-value=6.7e-06  Score=57.88  Aligned_cols=94  Identities=24%  Similarity=0.286  Sum_probs=58.8

Q ss_pred             CcccccHHHHHHHHHHHHH-hcChhhHhhc-CCCCCceeec---------------------------------------
Q psy5205          11 KDVRGVDEAKQELKEIVEF-LKNPEKFSTL-GGKLPKGVLL---------------------------------------   49 (113)
Q Consensus        11 ~di~G~~~~k~~l~~~i~~-~~~~~~~~~~-g~~~~~giLl---------------------------------------   49 (113)
                      ++|+|.+.+++.+...+.. +.++...... +..++.++|+                                       
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            4699999999999887755 3332211110 0123445555                                       


Q ss_pred             -hHHHHHHHHHHH-----HhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          50 -GARRVRDLFKAA-----KDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 -~e~~l~~~F~~A-----~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                       .+..++++|..+     +...++||||||+|.+...+...+.+.....+.+.|+..|++.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~  155 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGS  155 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCC
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCC
Confidence             124567776643     1234899999999999987764432333335678899999874

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.55  E-value=0.0005  Score=49.57  Aligned_cols=27  Identities=15%  Similarity=0.218  Sum_probs=21.6

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHHhc
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEFLK   31 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~~~   31 (113)
                      +|..+|++++|.+..++.+..+...+.
T Consensus        38 ~p~~~~~~ivG~~~~~~~l~~l~~~~~   64 (368)
T 3uk6_A           38 EPRQASQGMVGQLAARRAAGVVLEMIR   64 (368)
T ss_dssp             CBCSEETTEESCHHHHHHHHHHHHHHH
T ss_pred             CcCcchhhccChHHHHHHHHHHHHHHH
Confidence            566679999999999998877765543

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=97.49  E-value=0.00022  Score=51.98  Aligned_cols=52  Identities=25%  Similarity=0.362  Sum_probs=29.0

Q ss_pred             HHHHHHHHHH----hCCCeEEEEccccccccccCCCCCC--chhHHHHHHHHHHhcCC
Q psy5205          53 RVRDLFKAAK----DRTPCVVFIDEIDSVGAKRTNSVLH--PYANQTINQLLAEMDGF  104 (113)
Q Consensus        53 ~l~~~F~~A~----~~~p~ilfiDEiD~l~~~R~~~~~~--~~~~~i~~~lL~~ld~~  104 (113)
                      .+..+|..+.    ...++|+||||+|.+...|++....  .....+.+.|+..|++-
T Consensus       121 ~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~  178 (376)
T 1um8_A          121 ILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGS  178 (376)
T ss_dssp             HHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCC
T ss_pred             HHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhcc
Confidence            3555555432    3468999999999999876543211  11224889999999963

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.47  E-value=4e-05  Score=59.06  Aligned_cols=44  Identities=25%  Similarity=0.348  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          52 RRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        52 ~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      ..+...|..|....| |+||||+|.+...+.+        ...+.||..||..
T Consensus       163 ~~~~~~~~~a~~~~~-vl~lDEid~l~~~~~~--------~~~~~LL~~ld~~  206 (543)
T 3m6a_A          163 GRIIQGMKKAGKLNP-VFLLDEIDKMSSDFRG--------DPSSAMLEVLDPE  206 (543)
T ss_dssp             -CHHHHHHTTCSSSE-EEEEEESSSCC-----------------CCGGGTCTT
T ss_pred             hHHHHHHHHhhccCC-EEEEhhhhhhhhhhcc--------CHHHHHHHHHhhh
Confidence            345667877766666 9999999999876532        1456788888754

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.43  E-value=0.0017  Score=41.72  Aligned_cols=31  Identities=32%  Similarity=0.565  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHhC-CCeEEEEccccccccccC
Q psy5205          52 RRVRDLFKAAKDR-TPCVVFIDEIDSVGAKRT   82 (113)
Q Consensus        52 ~~l~~~F~~A~~~-~p~ilfiDEiD~l~~~R~   82 (113)
                      ..++++|..+... .|++|||||+|.+.+++.
T Consensus       101 ~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~  132 (187)
T 2p65_A          101 ERLKSILKEVQDAEGQVVMFIDEIHTVVGAGA  132 (187)
T ss_dssp             HHHHHHHHHHHHTTTSEEEEETTGGGGSSSSS
T ss_pred             HHHHHHHHHHHhcCCceEEEEeCHHHhccccc
Confidence            4577777777665 789999999999987765

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.32  E-value=0.00042  Score=52.91  Aligned_cols=42  Identities=17%  Similarity=0.257  Sum_probs=29.7

Q ss_pred             CCCCcccccHHHHHHHHHHHHH--hcChhhHhhcCCC---CCceeec
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF--LKNPEKFSTLGGK---LPKGVLL   49 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~--~~~~~~~~~~g~~---~~~giLl   49 (113)
                      .+|++++|.+.+++.|.+.+..  ..++..+.+.|..   +++++||
T Consensus        36 ~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL   82 (516)
T 1sxj_A           36 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAML   82 (516)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEE
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEE
Confidence            4899999999999999988765  2333445544433   5567777

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.24  E-value=0.0026  Score=40.81  Aligned_cols=33  Identities=15%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHH-hCCCeEEEEccccccccccCC
Q psy5205          51 ARRVRDLFKAAK-DRTPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        51 e~~l~~~F~~A~-~~~p~ilfiDEiD~l~~~R~~   83 (113)
                      ++.++++|..+. ...|++|||||+|.+..++..
T Consensus       100 ~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~  133 (195)
T 1jbk_A          100 EERLKGVLNDLAKQEGNVILFIDELHTMVGAGKA  133 (195)
T ss_dssp             HHHHHHHHHHHHHSTTTEEEEEETGGGGTT----
T ss_pred             HHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcc
Confidence            345677777654 456999999999999876643

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.20  E-value=0.0003  Score=61.41  Aligned_cols=64  Identities=13%  Similarity=0.181  Sum_probs=49.8

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEcccccccccc---CCCCCCch--hHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR---TNSVLHPY--ANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R---~~~~~~~~--~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                      +|+.++.++..++..+|++|||||++++.+.+   +..+++..  ..|+++++|.+|++.....+++||
T Consensus      1490 ~E~~l~~~~~lvr~~~~~lVVIDsi~al~p~~~~~g~~~~~~~~~~~R~lsqlL~~L~~~~~~~~v~VI 1558 (2050)
T 3cmu_A         1490 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLI 1558 (2050)
T ss_dssp             HHHHHHHHHHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEE
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEcChhHhcccccccccccccccchHHHHHHHHHHHHHHHHHhCCcEEE
Confidence            45788999999999999999999999999854   22222222  468999999999998766666654

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.06  E-value=0.0026  Score=45.14  Aligned_cols=85  Identities=20%  Similarity=0.153  Sum_probs=51.2

Q ss_pred             CCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec---------------------hHHHHHHHHHHHHhC--
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------GARRVRDLFKAAKDR--   64 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------~e~~l~~~F~~A~~~--   64 (113)
                      .+|++++|.+.+++.+++.+..-+.+..|- ++.+++.|--.                     +...+++.+..+...  
T Consensus        23 ~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L-~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~~~~i~~~~~~~~~~~~  101 (324)
T 3u61_B           23 STIDECILPAFDKETFKSITSKGKIPHIIL-HSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGPLTNFASAAS  101 (324)
T ss_dssp             CSTTTSCCCHHHHHHHHHHHHTTCCCSEEE-ECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCCHHHHHTHHHHHHHBCC
T ss_pred             CCHHHHhCcHHHHHHHHHHHHcCCCCeEEE-eeCcCCCCHHHHHHHHHHHhCCCEEEEcccccCHHHHHHHHHHHHhhcc
Confidence            578999999999999988876422121111 12223333211                     245566655544333  


Q ss_pred             ---CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          65 ---TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        65 ---~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                         .+.++||||+|.+.+           ....+.|+..|+..
T Consensus       102 ~~~~~~vliiDEi~~l~~-----------~~~~~~L~~~le~~  133 (324)
T 3u61_B          102 FDGRQKVIVIDEFDRSGL-----------AESQRHLRSFMEAY  133 (324)
T ss_dssp             CSSCEEEEEEESCCCGGG-----------HHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCcccCc-----------HHHHHHHHHHHHhC
Confidence               679999999999952           22445666666644

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.02  E-value=0.0015  Score=51.71  Aligned_cols=34  Identities=26%  Similarity=0.433  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~   83 (113)
                      .++.++.+|+.+....++||||||+|.+++.++.
T Consensus       263 ~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~  296 (758)
T 1r6b_X          263 FEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAA  296 (758)
T ss_dssp             HHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCS
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCC
Confidence            4778999999998888999999999999987654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.73  E-value=0.0057  Score=43.56  Aligned_cols=76  Identities=17%  Similarity=0.288  Sum_probs=49.4

Q ss_pred             CCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec--------------------------------hHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL--------------------------------GARRVR   55 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl--------------------------------~e~~l~   55 (113)
                      .+|++++|.+.+++++...+.....+       ..++..+|+                                ....+.
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~~-------~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~~~~~   98 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKKR-------NECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSGDLA   98 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHHT-------TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSHHHHH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHhc-------CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccchhHHH
Confidence            38999999999999999987763211       112333444                                233444


Q ss_pred             HHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          56 DLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        56 ~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      ..+..  ...+++|||||+|.+.            ....+.|+..|+.-
T Consensus        99 ~~~~~--~~~~~vl~lDEi~~l~------------~~~~~~Ll~~l~~~  133 (338)
T 3pfi_A           99 AILTN--LSEGDILFIDEIHRLS------------PAIEEVLYPAMEDY  133 (338)
T ss_dssp             HHHHT--CCTTCEEEEETGGGCC------------HHHHHHHHHHHHTS
T ss_pred             HHHHh--ccCCCEEEEechhhcC------------HHHHHHHHHHHHhc
Confidence            44432  3468999999999984            24556677777653

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.63  E-value=0.0025  Score=51.44  Aligned_cols=34  Identities=18%  Similarity=0.333  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHHHHhC-CCeEEEEccccccccccCC
Q psy5205          50 GARRVRDLFKAAKDR-TPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~-~p~ilfiDEiD~l~~~R~~   83 (113)
                      .++.++.+|..+... .|+||||||+|.+.+.++.
T Consensus       247 ~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~  281 (854)
T 1qvr_A          247 FEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKA  281 (854)
T ss_dssp             HHHHHHHHHHHHHTTCSSEEEEECCC---------
T ss_pred             HHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCc
Confidence            456789999999875 7999999999999877654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.35  E-value=0.0035  Score=47.20  Aligned_cols=69  Identities=16%  Similarity=0.285  Sum_probs=44.6

Q ss_pred             CCCCcccccHHHH---HHHHHHHHHhc-ChhhHhhcCCCCCceeec---------------------hHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAK---QELKEIVEFLK-NPEKFSTLGGKLPKGVLL---------------------GARRVRDLFKAAK   62 (113)
Q Consensus         8 ~~~~di~G~~~~k---~~l~~~i~~~~-~~~~~~~~g~~~~~giLl---------------------~e~~l~~~F~~A~   62 (113)
                      .+|++++|.+.++   +.|+..+..-+ ++-++  + ++|+.|--.                     +.+.++++|..|.
T Consensus        23 ~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL--~-GppGtGKTtlAr~ia~~~~~~f~~l~a~~~~~~~ir~~~~~a~   99 (447)
T 3pvs_A           23 ENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMIL--W-GPPGTGKTTLAEVIARYANADVERISAVTSGVKEIREAIERAR   99 (447)
T ss_dssp             CSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEE--E-CSTTSSHHHHHHHHHHHTTCEEEEEETTTCCHHHHHHHHHHHH
T ss_pred             CCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEE--E-CCCCCcHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHHHHHH
Confidence            5789999999999   67777665511 11111  1 123333211                     5677888888886


Q ss_pred             h----CCCeEEEEcccccccc
Q psy5205          63 D----RTPCVVFIDEIDSVGA   79 (113)
Q Consensus        63 ~----~~p~ilfiDEiD~l~~   79 (113)
                      .    ..+++|||||+|.+..
T Consensus       100 ~~~~~~~~~iLfIDEI~~l~~  120 (447)
T 3pvs_A          100 QNRNAGRRTILFVDEVHRFNK  120 (447)
T ss_dssp             HHHHTTCCEEEEEETTTCC--
T ss_pred             HhhhcCCCcEEEEeChhhhCH
Confidence            4    4689999999999843

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=95.82  E-value=0.088  Score=34.19  Aligned_cols=23  Identities=43%  Similarity=0.433  Sum_probs=19.0

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++++|.+..++.+.+.+..
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~   35 (226)
T 2chg_A           13 PRTLDEVVGQDEVIQRLKGYVER   35 (226)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHT
T ss_pred             CCCHHHHcCcHHHHHHHHHHHhC
Confidence            45789999999999998887654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=95.66  E-value=0.093  Score=34.41  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=18.3

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..|++++|.+..++.+.+.+..
T Consensus        20 ~~~~~~~g~~~~~~~l~~~l~~   41 (250)
T 1njg_A           20 QTFADVVGQEHVLTALANGLSL   41 (250)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHH
T ss_pred             ccHHHHhCcHHHHHHHHHHHHc
Confidence            4678999999999999887755

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=95.66  E-value=0.017  Score=40.67  Aligned_cols=23  Identities=26%  Similarity=0.327  Sum_probs=19.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++++|.+..++.+.+.+..
T Consensus         8 p~~~~~~ig~~~~~~~l~~~l~~   30 (324)
T 1hqc_A            8 PKTLDEYIGQERLKQKLRVYLEA   30 (324)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHH
T ss_pred             cccHHHhhCHHHHHHHHHHHHHH
Confidence            34899999999999999988765

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=95.62  E-value=0.0041  Score=45.38  Aligned_cols=55  Identities=16%  Similarity=0.156  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ  106 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~  106 (113)
                      .+..++.+++.+.+..  +|+||+++++...+.+....+...+.+++++..|+++..
T Consensus       169 le~~l~~i~~~l~~~~--LLVIDsI~aL~~~~~~~s~~G~v~~~lrqlL~~L~~~~k  223 (331)
T 2vhj_A          169 FNVFVDDIARAMLQHR--VIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAA  223 (331)
T ss_dssp             HHHHHHHHHHHHHHCS--EEEEECCTTTC-----------CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCC--EEEEecccccccccccccccchHHHHHHHHHHHHHHHHh
Confidence            3556666777776555  999999999976554322222334567777777776533

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=95.52  E-value=0.021  Score=41.32  Aligned_cols=42  Identities=5%  Similarity=0.109  Sum_probs=31.7

Q ss_pred             hHHHHHHHHHHH--HhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhc
Q psy5205          50 GARRVRDLFKAA--KDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMD  102 (113)
Q Consensus        50 ~e~~l~~~F~~A--~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld  102 (113)
                      +.+.++++|..+  ....|+|+|+||+|.+.     .      ..++..|+.+.+
T Consensus       115 ~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~-----~------q~~L~~l~~~~~  158 (318)
T 3te6_A          115 SLEALNFYITNVPKAKKRKTLILIQNPENLL-----S------EKILQYFEKWIS  158 (318)
T ss_dssp             CHHHHHHHHHHSCGGGSCEEEEEEECCSSSC-----C------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccCCceEEEEecHHHhh-----c------chHHHHHHhccc
Confidence            467789999875  45679999999999997     1      246677776554

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.02  E-value=0.042  Score=38.32  Aligned_cols=23  Identities=22%  Similarity=0.312  Sum_probs=18.9

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++++|.+..++.|.+.+..
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~   39 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKD   39 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHS
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHc
Confidence            35689999999999999887654

>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=94.98  E-value=0.043  Score=41.43  Aligned_cols=37  Identities=32%  Similarity=0.399  Sum_probs=26.0

Q ss_pred             eEEEEccccccccccCCCCCCchh-HHHHHHHHHHhcCC
Q psy5205          67 CVVFIDEIDSVGAKRTNSVLHPYA-NQTINQLLAEMDGF  104 (113)
Q Consensus        67 ~ilfiDEiD~l~~~R~~~~~~~~~-~~i~~~lL~~ld~~  104 (113)
                      .|+|+||+|.++.+.++.+ ...+ ..+..+||..||+-
T Consensus       252 ~il~~DEidki~~~~~~~~-~D~s~egvq~aLL~~le~~  289 (444)
T 1g41_A          252 GIVFIDEIDKICKKGEYSG-ADVSREGVQRDLLPLVEGS  289 (444)
T ss_dssp             CEEEEETGGGGSCCSSCSS-SHHHHHHHHHHHHHHHHCC
T ss_pred             CeeeHHHHHHHhhccCCCC-CCchHHHHHHHHHHHhccc
Confidence            5899999999987654322 2222 23778999999984

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.92  E-value=0.045  Score=39.05  Aligned_cols=45  Identities=13%  Similarity=0.144  Sum_probs=30.2

Q ss_pred             HHHHHHHHHhC-CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC
Q psy5205          54 VRDLFKAAKDR-TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH  105 (113)
Q Consensus        54 l~~~F~~A~~~-~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~  105 (113)
                      ++.++..+... .|++|||||+|.+...+       .....+..++..++...
T Consensus       118 ~~~l~~~l~~~~~~~vlilDEi~~l~~~~-------~~~~~l~~l~~~~~~~~  163 (387)
T 2v1u_A          118 YERLVKRLSRLRGIYIIVLDEIDFLPKRP-------GGQDLLYRITRINQELG  163 (387)
T ss_dssp             HHHHHHHHTTSCSEEEEEEETTTHHHHST-------THHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHhccCCeEEEEEccHhhhcccC-------CCChHHHhHhhchhhcC
Confidence            44555554444 48999999999997543       12467788888877653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=94.53  E-value=0.2  Score=39.75  Aligned_cols=33  Identities=21%  Similarity=0.398  Sum_probs=25.1

Q ss_pred             HHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          59 KAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        59 ~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      ..++...++||||||+|.+-            ..+.+.||+.||.
T Consensus       573 ~~~~~~~~~vl~lDEi~~~~------------~~~~~~Ll~~le~  605 (758)
T 3pxi_A          573 EKVRRKPYSVVLLDAIEKAH------------PDVFNILLQVLED  605 (758)
T ss_dssp             HHHHHCSSSEEEEECGGGSC------------HHHHHHHHHHHHH
T ss_pred             HHHHhCCCeEEEEeCccccC------------HHHHHHHHHHhcc
Confidence            44455667999999998772            3678888888886

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=94.47  E-value=0.15  Score=35.57  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=19.3

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..+|++++|.+.+++.+...+..
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~   43 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKT   43 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHc
Confidence            35789999999999999887755

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.33  E-value=0.098  Score=37.18  Aligned_cols=43  Identities=28%  Similarity=0.349  Sum_probs=29.3

Q ss_pred             HHHHHHHHHhCC-CeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          54 VRDLFKAAKDRT-PCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        54 l~~~F~~A~~~~-p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      ++.+++...... |++|+|||+|.+...++        ...+..++..++..
T Consensus       116 ~~~l~~~l~~~~~~~vlilDE~~~l~~~~~--------~~~l~~l~~~~~~~  159 (386)
T 2qby_A          116 YRRLVKAVRDYGSQVVIVLDEIDAFVKKYN--------DDILYKLSRINSEV  159 (386)
T ss_dssp             HHHHHHHHHTCCSCEEEEEETHHHHHHSSC--------STHHHHHHHHHHSC
T ss_pred             HHHHHHHHhccCCeEEEEEcChhhhhccCc--------CHHHHHHhhchhhc
Confidence            445555554444 99999999999975432        13567787777765

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=93.85  E-value=0.19  Score=35.41  Aligned_cols=16  Identities=13%  Similarity=0.405  Sum_probs=13.7

Q ss_pred             CCeEEEEccccccccc
Q psy5205          65 TPCVVFIDEIDSVGAK   80 (113)
Q Consensus        65 ~p~ilfiDEiD~l~~~   80 (113)
                      .|++|||||+|.+..+
T Consensus        98 ~~~vL~iDEi~~l~~~  113 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGK  113 (324)
T ss_dssp             TCSEEEEECGGGGTTC
T ss_pred             CCCEEEEcCcccccCC
Confidence            4899999999999753

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=93.84  E-value=0.11  Score=37.12  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=18.9

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|++++|.+.+++.+...+..
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~   34 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSL   34 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHH
T ss_pred             CchhhccCcHHHHHHHHHHHHh
Confidence            4789999999999999888765

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=93.74  E-value=0.31  Score=38.55  Aligned_cols=35  Identities=31%  Similarity=0.433  Sum_probs=26.3

Q ss_pred             HHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          57 LFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        57 ~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      +....+...++||||||+|.+-            ..+.+.|++.||.
T Consensus       549 l~~~~~~~~~~vl~lDEi~~~~------------~~~~~~Ll~~le~  583 (758)
T 1r6b_X          549 LTDAVIKHPHAVLLLDEIEKAH------------PDVFNILLQVMDN  583 (758)
T ss_dssp             HHHHHHHCSSEEEEEETGGGSC------------HHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcEEEEeCccccC------------HHHHHHHHHHhcC
Confidence            3444556668999999999762            3588899999884

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=93.47  E-value=0.2  Score=31.29  Aligned_cols=63  Identities=21%  Similarity=0.196  Sum_probs=33.0

Q ss_pred             cccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCcee--------------e-c-----hHHHHHHHHHHHHhCCCeEEE
Q psy5205          12 DVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGV--------------L-L-----GARRVRDLFKAAKDRTPCVVF   70 (113)
Q Consensus        12 di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~gi--------------L-l-----~e~~l~~~F~~A~~~~p~ilf   70 (113)
                      +++|.+...+++.+.+.. ...+.-.-=+| .++.|-              . +     .+......|+.|.   +.++|
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G-~~GtGKt~lA~~i~~~~~~~~~~~~~~~~~~~~~~~~~~a~---~~~l~   80 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTG-EAGSPFETVARYFHKNGTPWVSPARVEYLIDMPMELLQKAE---GGVLY   80 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEE-ETTCCHHHHHGGGCCTTSCEECCSSTTHHHHCHHHHHHHTT---TSEEE
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEEC-CCCccHHHHHHHHHHhCCCeEEechhhCChHhhhhHHHhCC---CCeEE
Confidence            577888888888887765 32221000000 111111              1 1     2233556676653   58999


Q ss_pred             Eccccccc
Q psy5205          71 IDEIDSVG   78 (113)
Q Consensus        71 iDEiD~l~   78 (113)
                      |||+|.+.
T Consensus        81 lDei~~l~   88 (143)
T 3co5_A           81 VGDIAQYS   88 (143)
T ss_dssp             EEECTTCC
T ss_pred             EeChHHCC
Confidence            99999984

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=93.39  E-value=0.08  Score=37.47  Aligned_cols=22  Identities=23%  Similarity=0.299  Sum_probs=17.6

Q ss_pred             CCCCCcccccHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVE   28 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~   28 (113)
                      ..+|++++|.+.+++.+...+.
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~   54 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLK   54 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTT
T ss_pred             CCCHHHhhCCHHHHHHHHHHHh
Confidence            3578999999999888877654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=93.25  E-value=0.16  Score=31.76  Aligned_cols=37  Identities=11%  Similarity=0.143  Sum_probs=23.3

Q ss_pred             HHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC
Q psy5205          54 VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH  105 (113)
Q Consensus        54 l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~  105 (113)
                      ....|..|   .+++|||||+|.+..            .....|+..|....
T Consensus        68 ~~~~~~~a---~~g~l~ldei~~l~~------------~~q~~Ll~~l~~~~  104 (145)
T 3n70_A           68 LNDFIALA---QGGTLVLSHPEHLTR------------EQQYHLVQLQSQEH  104 (145)
T ss_dssp             HHHHHHHH---TTSCEEEECGGGSCH------------HHHHHHHHHHHSSS
T ss_pred             hhcHHHHc---CCcEEEEcChHHCCH------------HHHHHHHHHHhhcC
Confidence            44555555   457999999998842            23455666665443

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=93.06  E-value=0.62  Score=32.25  Aligned_cols=29  Identities=28%  Similarity=0.432  Sum_probs=21.8

Q ss_pred             hCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          63 DRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        63 ~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      ....+++||||+|.+.            ..+.+.|+..|+.
T Consensus       117 ~~~~~vl~lDEi~~l~------------~~~~~~Ll~~le~  145 (311)
T 4fcw_A          117 RRPYSVILFDAIEKAH------------PDVFNILLQMLDD  145 (311)
T ss_dssp             HCSSEEEEEETGGGSC------------HHHHHHHHHHHHH
T ss_pred             hCCCeEEEEeChhhcC------------HHHHHHHHHHHhc
Confidence            4455999999999883            2567788888775

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=92.20  E-value=0.039  Score=38.43  Aligned_cols=22  Identities=45%  Similarity=0.501  Sum_probs=17.8

Q ss_pred             CCCCCcccccHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVE   28 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~   28 (113)
                      ..+|++++|.+.+++.+.+.+.
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~   34 (319)
T 2chq_A           13 PRTLDEVVGQDEVIQRLKGYVE   34 (319)
T ss_dssp             CSSGGGSCSCHHHHHHHHTTTT
T ss_pred             CCCHHHHhCCHHHHHHHHHHHh
Confidence            3578999999999988877654

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=92.02  E-value=0.38  Score=33.92  Aligned_cols=22  Identities=18%  Similarity=0.229  Sum_probs=16.5

Q ss_pred             CCCCCCCCcccccHHHHHHHHH
Q psy5205           4 EEINITFKDVRGVDEAKQELKE   25 (113)
Q Consensus         4 ~~~~~~~~di~G~~~~k~~l~~   25 (113)
                      ..+..+|++++|.+.+++.+..
T Consensus        17 ~~~~~~f~~i~G~~~~~~~l~~   38 (350)
T 1g8p_A           17 TRPVFPFSAIVGQEDMKLALLL   38 (350)
T ss_dssp             -CCCCCGGGSCSCHHHHHHHHH
T ss_pred             CCCCCCchhccChHHHHHHHHH
Confidence            3467899999999998776543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=91.97  E-value=0.1  Score=46.06  Aligned_cols=60  Identities=8%  Similarity=0.186  Sum_probs=41.6

Q ss_pred             HHHHHHHHHh----CCCeEEEEcccccccc-cc----CCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          54 VRDLFKAAKD----RTPCVVFIDEIDSVGA-KR----TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        54 l~~~F~~A~~----~~p~ilfiDEiD~l~~-~R----~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                      +.++++.+++    ..|++++||.++++.. .+    .++...+...|.+++++..|..+....++.||
T Consensus       795 i~~i~~~~r~l~~~~~~~LVIIDsLq~i~~~~~~~~~~Gs~~q~La~Reis~ilr~Lk~lAke~~v~VI  863 (2050)
T 3cmu_A          795 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLI  863 (2050)
T ss_dssp             HHHHHHHHHHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEE
T ss_pred             HHHHHHHHHHHhhccCCCEEEEcchhhhcccccccCCCCchhhHHHHHHHHHHHHHHHHHHHHhCCEEE
Confidence            6777777765    7899999999999986 32    11111123356789999999988665555553

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=91.95  E-value=0.079  Score=42.07  Aligned_cols=61  Identities=20%  Similarity=0.293  Sum_probs=40.4

Q ss_pred             CCCCcccccHHHHHHHHHHHHH-h-cChhhHhhcCCCCCceeec-----------------------------------h
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF-L-KNPEKFSTLGGKLPKGVLL-----------------------------------G   50 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~-~-~~~~~~~~~g~~~~~giLl-----------------------------------~   50 (113)
                      -++++++|.+..++++.+++.. - .+.-++    +.|+.|--.                                   .
T Consensus       177 ~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~----G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~~  252 (758)
T 3pxi_A          177 DSLDPVIGRSKEIQRVIEVLSRRTKNNPVLI----GEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEF  252 (758)
T ss_dssp             SCSCCCCCCHHHHHHHHHHHHCSSSCEEEEE----SCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------
T ss_pred             CCCCCccCchHHHHHHHHHHhCCCCCCeEEE----CCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccchH
Confidence            4678999999999988887644 1 111111    112112111                                   2


Q ss_pred             HHHHHHHHHHHHhCCCeEEEEc
Q psy5205          51 ARRVRDLFKAAKDRTPCVVFID   72 (113)
Q Consensus        51 e~~l~~~F~~A~~~~p~ilfiD   72 (113)
                      +.+++.+|..+....|+|||||
T Consensus       253 e~~l~~~~~~~~~~~~~iLfiD  274 (758)
T 3pxi_A          253 EDRLKKVMDEIRQAGNIILFID  274 (758)
T ss_dssp             CTTHHHHHHHHHTCCCCEEEEC
T ss_pred             HHHHHHHHHHHHhcCCEEEEEc
Confidence            3478999999999999999999

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=90.82  E-value=0.42  Score=38.51  Aligned_cols=35  Identities=31%  Similarity=0.464  Sum_probs=25.9

Q ss_pred             HHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          57 LFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        57 ~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      +....+...+++|||||+|.+-            ..+.+.|++.||.
T Consensus       652 l~~~~~~~~~~vl~lDEi~~l~------------~~~~~~Ll~~l~~  686 (854)
T 1qvr_A          652 LTEAVRRRPYSVILFDEIEKAH------------PDVFNILLQILDD  686 (854)
T ss_dssp             HHHHHHHCSSEEEEESSGGGSC------------HHHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeEEEEecccccC------------HHHHHHHHHHhcc
Confidence            3334445567999999998762            3688999999985

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=90.71  E-value=0.41  Score=34.08  Aligned_cols=24  Identities=13%  Similarity=0.047  Sum_probs=19.1

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHH
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      +...++++.|.+...+++.+.+..
T Consensus        12 ~~~~p~~l~gr~~~~~~l~~~l~~   35 (389)
T 1fnn_A           12 PSYVPKRLPHREQQLQQLDILLGN   35 (389)
T ss_dssp             TTCCCSCCTTCHHHHHHHHHHHHH
T ss_pred             CccCCCCCCChHHHHHHHHHHHHH
Confidence            455668899999999998887765

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=90.55  E-value=0.53  Score=32.08  Aligned_cols=23  Identities=17%  Similarity=0.062  Sum_probs=12.6

Q ss_pred             CCCCCcccccHHHHHHHHHHHHH
Q psy5205           7 NITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         7 ~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      +.+|++++|.+...+++.+.+..
T Consensus         2 ~~~f~~~ig~~~~~~~~~~~~~~   24 (265)
T 2bjv_A            2 AEYKDNLLGEANSFLEVLEQVSH   24 (265)
T ss_dssp             --------CCCHHHHHHHHHHHH
T ss_pred             CcccccceeCCHHHHHHHHHHHH
Confidence            35799999999999988877665

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=88.81  E-value=0.4  Score=35.76  Aligned_cols=16  Identities=19%  Similarity=0.326  Sum_probs=14.2

Q ss_pred             CCeEEEEccccccccc
Q psy5205          65 TPCVVFIDEIDSVGAK   80 (113)
Q Consensus        65 ~p~ilfiDEiD~l~~~   80 (113)
                      .|++|||||+|.+.++
T Consensus       194 ~~~vL~IDEi~~l~~~  209 (440)
T 2z4s_A          194 KVDILLIDDVQFLIGK  209 (440)
T ss_dssp             TCSEEEEECGGGGSSC
T ss_pred             CCCEEEEeCcccccCC
Confidence            7999999999999754

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=88.18  E-value=0.92  Score=30.26  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=17.3

Q ss_pred             hCCCeEEEEccccccccccCC
Q psy5205          63 DRTPCVVFIDEIDSVGAKRTN   83 (113)
Q Consensus        63 ~~~p~ilfiDEiD~l~~~R~~   83 (113)
                      +..+++|+|||++.+.++|..
T Consensus        85 ~~~~~vliIDEAq~l~~~~~~  105 (199)
T 2r2a_A           85 ENIGSIVIVDEAQDVWPARSA  105 (199)
T ss_dssp             GGTTCEEEETTGGGTSBCCCT
T ss_pred             ccCceEEEEEChhhhccCccc
Confidence            456899999999999887743

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=87.35  E-value=1.9  Score=30.49  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=18.2

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+|+++.|.+.+++.|...+..
T Consensus        22 ~~~~~~~g~~~~~~~L~~~i~~   43 (340)
T 1sxj_C           22 ETLDEVYGQNEVITTVRKFVDE   43 (340)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHT
T ss_pred             CcHHHhcCcHHHHHHHHHHHhc
Confidence            4689999999999988887654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=86.86  E-value=0.47  Score=35.61  Aligned_cols=21  Identities=19%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHhCCCeEEEEc
Q psy5205          52 RRVRDLFKAAKDRTPCVVFID   72 (113)
Q Consensus        52 ~~l~~~F~~A~~~~p~ilfiD   72 (113)
                      ..++.+|..++...|+|||||
T Consensus       254 ~~~~~~~~~~~~~~~~iLfiD  274 (468)
T 3pxg_A          254 DRLKKVMDEIRQAGNIILFID  274 (468)
T ss_dssp             TTHHHHHHHHHTCCCCEEEEC
T ss_pred             HHHHHHHHHHHhcCCeEEEEe
Confidence            568899999998999999999

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=86.66  E-value=0.67  Score=33.00  Aligned_cols=21  Identities=10%  Similarity=0.289  Sum_probs=16.2

Q ss_pred             CCCcccccHHHHHHHHHHHHH
Q psy5205           9 TFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         9 ~~~di~G~~~~k~~l~~~i~~   29 (113)
                      ..++++|.+...+++.+.+..
T Consensus        18 ~p~~l~gr~~~~~~l~~~l~~   38 (384)
T 2qby_B           18 VFKEIPFREDILRDAAIAIRY   38 (384)
T ss_dssp             HCSSCTTCHHHHHHHHHHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHH
Confidence            347888998888888877655

>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=86.14  E-value=0.75  Score=40.16  Aligned_cols=73  Identities=16%  Similarity=0.197  Sum_probs=54.2

Q ss_pred             ChhhHhhcCCCCCceeec-----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC-----CCchhHHHHHHHHHHh
Q psy5205          32 NPEKFSTLGGKLPKGVLL-----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV-----LHPYANQTINQLLAEM  101 (113)
Q Consensus        32 ~~~~~~~~g~~~~~giLl-----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~-----~~~~~~~i~~~lL~~l  101 (113)
                      ++...+++|+...+ +++     +|..+..+...++..+|+++++|.+.++.++.+-.+     .-+-..|..++-|..|
T Consensus      1472 ~~~~~~~~Gv~~~~-l~~~~p~~~e~~l~~~~~~~~s~~~~~vvvDsv~al~~~~e~~~~~~~~~~~~~ar~m~~~lr~l 1550 (1706)
T 3cmw_A         1472 DPIYARKLGVDIDN-LLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKL 1550 (1706)
T ss_dssp             CHHHHHHTTCCGGG-CEEECCSSHHHHHHHHHHHHHHTCCSEEEESCSTTCCCTTTTC-------CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHcCCCHHH-eEEeCCCcHHHHHHHHHHHHHcCCCCEEEEccHHhCCccccccccccccchhHHHHHHHHHHHHH
Confidence            44566778877655 333     799999999999999999999999999998765321     1133457778888877


Q ss_pred             cCCC
Q psy5205         102 DGFH  105 (113)
Q Consensus       102 d~~~  105 (113)
                      .+.-
T Consensus      1551 ~~~~ 1554 (1706)
T 3cmw_A         1551 AGNL 1554 (1706)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7753

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=86.04  E-value=1.7  Score=30.90  Aligned_cols=44  Identities=18%  Similarity=0.294  Sum_probs=32.3

Q ss_pred             hHHHHHHHHHHHHh----CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCC
Q psy5205          50 GARRVRDLFKAAKD----RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFH  105 (113)
Q Consensus        50 ~e~~l~~~F~~A~~----~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~  105 (113)
                      +-..++++.+.+..    ..+.|++|||+|.+..            ...|.||..|+.-.
T Consensus        89 ~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~------------~a~naLLk~lEep~  136 (334)
T 1a5t_A           89 GVDAVREVTEKLNEHARLGGAKVVWVTDAALLTD------------AAANALLKTLEEPP  136 (334)
T ss_dssp             CHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCH------------HHHHHHHHHHTSCC
T ss_pred             CHHHHHHHHHHHhhccccCCcEEEEECchhhcCH------------HHHHHHHHHhcCCC
Confidence            34568888888753    3478999999999832            35688999998643

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=85.03  E-value=5.4  Score=25.20  Aligned_cols=30  Identities=13%  Similarity=0.257  Sum_probs=19.0

Q ss_pred             CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHh
Q psy5205          65 TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEM  101 (113)
Q Consensus        65 ~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~l  101 (113)
                      .|.+|++||+++...       +......+.+++...
T Consensus       100 ~~~llilDE~~~~~~-------~~~~~~~l~~ll~~~  129 (180)
T 3ec2_A          100 NSPVLVLDDLGSERL-------SDWQRELISYIITYR  129 (180)
T ss_dssp             TCSEEEEETCSSSCC-------CHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCcC-------CHHHHHHHHHHHHHH
Confidence            689999999986522       334445555555544

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=84.06  E-value=1.6  Score=31.91  Aligned_cols=57  Identities=11%  Similarity=0.121  Sum_probs=32.0

Q ss_pred             HHHHHHHHHhCCCeEEEEccccccccccCCC---CCC--chhHHHHHHHHHHhcCCCCCCce
Q psy5205          54 VRDLFKAAKDRTPCVVFIDEIDSVGAKRTNS---VLH--PYANQTINQLLAEMDGFHQNEGV  110 (113)
Q Consensus        54 l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~---~~~--~~~~~i~~~lL~~ld~~~~~~~v  110 (113)
                      +..+-..++...+.+|+||.+.++..+....   ++.  +...+.+++++..|..+....++
T Consensus       141 l~~l~~l~~~~~~~lVVIDsl~~l~~~~e~~g~~gd~~~~~~~r~~~~~lr~L~~~a~~~~~  202 (366)
T 1xp8_A          141 LEIMELLVRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGT  202 (366)
T ss_dssp             HHHHHHHHTTTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHhcCCCCEEEEeChHHhccccccccccccchhhHHHHHHHHHHHHHHHHHHHcCC
Confidence            3333334445789999999999998533211   101  11225667777777655333333

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=83.85  E-value=2  Score=30.45  Aligned_cols=45  Identities=16%  Similarity=0.234  Sum_probs=32.7

Q ss_pred             hHHHHHHHHHHHHhC----CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCC
Q psy5205          50 GARRVRDLFKAAKDR----TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQ  106 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~  106 (113)
                      +-..++++.+.|...    ...|++|||+|.+-            ....|.||.-|+....
T Consensus        63 ~id~ir~li~~~~~~p~~~~~kvviIdead~lt------------~~a~naLLk~LEep~~  111 (305)
T 2gno_A           63 GIDDIRTIKDFLNYSPELYTRKYVIVHDCERMT------------QQAANAFLKALEEPPE  111 (305)
T ss_dssp             CHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBC------------HHHHHHTHHHHHSCCT
T ss_pred             CHHHHHHHHHHHhhccccCCceEEEeccHHHhC------------HHHHHHHHHHHhCCCC
Confidence            445688999888532    24699999999983            2346889999986543

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=82.57  E-value=1.2  Score=31.90  Aligned_cols=35  Identities=20%  Similarity=0.226  Sum_probs=22.9

Q ss_pred             CCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          64 RTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        64 ~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      ..|.+|+|||+|.+...+..      ....+..++..++..
T Consensus       137 ~~~~llvlDe~~~l~~~~~~------~~~~l~~l~~~~~~~  171 (412)
T 1w5s_A          137 NHYLLVILDEFQSMLSSPRI------AAEDLYTLLRVHEEI  171 (412)
T ss_dssp             TCEEEEEEESTHHHHSCTTS------CHHHHHHHHTHHHHS
T ss_pred             CCeEEEEEeCHHHHhhccCc------chHHHHHHHHHHHhc
Confidence            56999999999999654221      134555566555544

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=80.77  E-value=1.1  Score=32.36  Aligned_cols=29  Identities=7%  Similarity=0.075  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHhCCCeEEEEcccccccc
Q psy5205          51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGA   79 (113)
Q Consensus        51 e~~l~~~F~~A~~~~p~ilfiDEiD~l~~   79 (113)
                      +..+..+...+++..|.+|+||++.++..
T Consensus       125 e~~l~~~~~l~~~~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          125 EQALEIADMLVRSGALDIIVIDSVAALVP  153 (349)
T ss_dssp             HHHHHHHHHHHTTTCCSEEEEECGGGCCC
T ss_pred             HHHHHHHHHHHhcCCCCEEEEcChHhhcc
Confidence            34444444455567899999999999985

---

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	113
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	8e-40
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	9e-38
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	7e-27
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	2e-18
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	2e-18
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	9e-05
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	2e-04
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	4e-04
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	0.004

>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 =  130 bits (329), Expect = 8e-40
 Identities = 61/153 (39%), Positives = 83/153 (54%), Gaps = 40/153 (26%)

Query: 1   VDPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL----------- 49
           +  ++I  TF DV G DEAK+E+ E+VE+L+ P +F  LGGK+PKGVL+           
Sbjct: 2   LTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLL 61

Query: 50  ---------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKR- 81
                                      GA RVRD+F+ AK   PC++FIDEID+VG +R 
Sbjct: 62  AKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG 121

Query: 82  -TNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
                 H    QT+NQ+L EMDGF  NEG++V+
Sbjct: 122 AGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVI 154

>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 =  125 bits (315), Expect = 9e-38
 Identities = 67/150 (44%), Positives = 84/150 (56%), Gaps = 40/150 (26%)

Query: 4   EEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL-------------- 49
           E   +TFKDV G +EAK+ELKEIVEFLKNP +F  +G ++PKGVLL              
Sbjct: 2   EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 61

Query: 50  ------------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV 85
                                   GA RVRDLF+ AK   PC+VFIDEID+VG KR + V
Sbjct: 62  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV 121

Query: 86  --LHPYANQTINQLLAEMDGFHQNEGVVVL 113
              +    QT+NQLL EMDGF ++  +VV+
Sbjct: 122 GGGNDEREQTLNQLLVEMDGFEKDTAIVVM 151

>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 = 97.6 bits (242), Expect = 7e-27
 Identities = 39/148 (26%), Positives = 69/148 (46%), Gaps = 41/148 (27%)

Query: 7   NITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL---------------- 49
            +T++D+ G+++ K+EL+E+V++ +++P+KF   G    KGVL                 
Sbjct: 3   QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 62

Query: 50  ----------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV-- 85
                                     VR++F  A+   PCV+F DE+DS+   R  ++  
Sbjct: 63  NECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD 122

Query: 86  LHPYANQTINQLLAEMDGFHQNEGVVVL 113
               A++ INQ+L EMDG    + V ++
Sbjct: 123 GGGAADRVINQILTEMDGMSTKKNVFII 150

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score = 76.2 bits (187), Expect = 2e-18
 Identities = 18/163 (11%), Positives = 40/163 (24%), Gaps = 53/163 (32%)

Query: 2   DPEEINITFKDVRGVDEAKQELKEIVEFLK----------NPEKFSTLGGKLPKGVLL-- 49
             + +      V  V      +K+                +P      G +   G+++  
Sbjct: 70  KEKSVKAEDGSVSVVQVENGFMKQGHRGWLVDLTGELVGCSPVVAEFGGHRYASGMVIVT 129

Query: 50  ---------------------------------------GARRVRDLFKAAKDRTPCVVF 70
                                                      V D+ +A       V+ 
Sbjct: 130 GKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HRVIV 187

Query: 71  IDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
           ID + +V      +      ++    LL+++     + G VV+
Sbjct: 188 IDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVI 230

>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 = 75.4 bits (184), Expect = 2e-18
 Identities = 36/145 (24%), Positives = 61/145 (42%), Gaps = 40/145 (27%)

Query: 8   ITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL----------------- 49
           + + DV G  +   ++KE+VE  L++P  F  +G K P+G+LL                 
Sbjct: 1   VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 60

Query: 50  ---------------------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHP 88
                                    +R  F+ A+   P ++FIDE+D++  KR  +    
Sbjct: 61  ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-GE 119

Query: 89  YANQTINQLLAEMDGFHQNEGVVVL 113
              + ++QLL  MDG  Q   V+V+
Sbjct: 120 VERRIVSQLLTLMDGLKQRAHVIVM 144

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 37.9 bits (87), Expect = 9e-05
 Identities = 12/48 (25%), Positives = 19/48 (39%)

Query: 66  PCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL 113
             +VFIDEID +  K   S            LL  ++G   +    ++
Sbjct: 116 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMV 163

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 36.6 bits (84), Expect = 2e-04
 Identities = 8/67 (11%), Positives = 18/67 (26%), Gaps = 8/67 (11%)

Query: 50  GARRVRDLFKAAK------DRTPCVVFIDEIDSVGAKR--TNSVLHPYANQTINQLLAEM 101
              +   +F+  K         P    I+ +D++      +  V     +      +   
Sbjct: 199 AIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPP 258

Query: 102 DGFHQNE 108
                NE
Sbjct: 259 GIVTMNE 265

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 36.1 bits (82), Expect = 4e-04
 Identities = 19/132 (14%), Positives = 37/132 (28%), Gaps = 28/132 (21%)

Query: 9   TFKDVRGVDEAKQELKEIVEFLKNPEKF--------------STLGGKLPK--------- 45
           T  +  G +  KQ+L+  +E  K  ++               +TL   +           
Sbjct: 7   TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVT 66

Query: 46  -GVLLGARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYAN----QTINQLLAE 100
            G  +          A       ++FIDEI  +  +    +     +      I Q  A 
Sbjct: 67  SGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAA 126

Query: 101 MDGFHQNEGVVV 112
                +     +
Sbjct: 127 RTIRLELPRFTL 138

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 33.2 bits (74), Expect = 0.004
 Identities = 9/46 (19%), Positives = 18/46 (39%), Gaps = 5/46 (10%)

Query: 9  TFKDVRGVDEAKQELKEIVEFLKNPEKFSTL-----GGKLPKGVLL 49
            + V G   +  +LK  +   +N +K S       G  + +  +L
Sbjct: 12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAML 57

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	113
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.94
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.94
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.9
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.88
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.64
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.31
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.3
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.24
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.24
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.97
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.42
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.2
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	95.56
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.45
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.33
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	94.78
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.37
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.29
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.23
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.62
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	89.41
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	89.4
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	88.01
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	87.91
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	85.21
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.39
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	81.81
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	81.21

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

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

Probab=99.94  E-value=6.3e-27  Score=163.73  Aligned_cols=111  Identities=60%  Similarity=0.993  Sum_probs=96.7

Q ss_pred             CCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec---------------------------------
Q psy5205           3 PEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL---------------------------------   49 (113)
Q Consensus         3 ~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl---------------------------------   49 (113)
                      .+.|+++|+||+|++++|++|++++..+++++.|.++|.++|+|+||                                 
T Consensus         1 ~~~p~~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~   80 (247)
T d1ixza_           1 TEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE   80 (247)
T ss_dssp             CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             CCCCCCcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhh
Confidence            37899999999999999999999998899999999999999999999                                 


Q ss_pred             -----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC--CCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV--LHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~--~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                           ++++++++|+.|+.++||||||||+|+++++|++..  .+....+++++||++||++..+.+|+||
T Consensus        81 ~~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi  151 (247)
T d1ixza_          81 MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVM  151 (247)
T ss_dssp             SCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEE
T ss_pred             ccccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEE
Confidence                 678999999999999999999999999999997543  2456678999999999999888888875

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

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

Probab=99.94  E-value=9e-27  Score=163.73  Aligned_cols=112  Identities=54%  Similarity=0.989  Sum_probs=96.5

Q ss_pred             CCCCCCCCCCcccccHHHHHHHHHHHHHhcChhhHhhcCCCCCceeec--------------------------------
Q psy5205           2 DPEEINITFKDVRGVDEAKQELKEIVEFLKNPEKFSTLGGKLPKGVLL--------------------------------   49 (113)
Q Consensus         2 ~~~~~~~~~~di~G~~~~k~~l~~~i~~~~~~~~~~~~g~~~~~giLl--------------------------------   49 (113)
                      .+.++.++|+||+|++++|++|++++.++++++.|.++|.++|+|+||                                
T Consensus         3 ~~~~~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~   82 (256)
T d1lv7a_           3 TEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFV   82 (256)
T ss_dssp             EECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSST
T ss_pred             CCCCCCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhh
Confidence            356789999999999999999999998899999999999999999999                                


Q ss_pred             ------hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ------GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ------~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                            ++++++++|+.|++++||||||||+|++++.|+++..  +....+++++||++||++..+++|+||
T Consensus        83 ~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vI  154 (256)
T d1lv7a_          83 EMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVI  154 (256)
T ss_dssp             TSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEE
T ss_pred             hcchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEE
Confidence                  6899999999999999999999999999999875543  345678999999999999888888876

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

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

Probab=99.90  E-value=3.3e-24  Score=150.28  Aligned_cols=105  Identities=34%  Similarity=0.684  Sum_probs=97.3

Q ss_pred             CCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-------------------------------------
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-------------------------------------   49 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-------------------------------------   49 (113)
                      |+|+||+|++++|++|++.+.. +++++.|.++|+++|+|+||                                     
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG   80 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTT
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccc
Confidence            6899999999999999999888 99999999999999999999                                     


Q ss_pred             -hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 -GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 -~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                       ++++++++|+.|+.++||||||||+|+++++|+++. ++...++++.++..+++...+.+|+||
T Consensus        81 ~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~-~~~~~~~~~~~~~~~~~~~~~~~vlvi  144 (258)
T d1e32a2          81 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-GEVERRIVSQLLTLMDGLKQRAHVIVM  144 (258)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCC-CTTHHHHHHHHHHHHHTCCCSSCEEEE
T ss_pred             cHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCC-CchHHHHHHHhccccccccccCCccEE
Confidence             589999999999999999999999999999998655 556789999999999999888888875

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

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

Probab=99.88  E-value=1e-23  Score=148.45  Aligned_cols=108  Identities=36%  Similarity=0.739  Sum_probs=92.0

Q ss_pred             CCCCCCcccccHHHHHHHHHHHHH-hcChhhHhhcCCCCCceeec-----------------------------------
Q psy5205           6 INITFKDVRGVDEAKQELKEIVEF-LKNPEKFSTLGGKLPKGVLL-----------------------------------   49 (113)
Q Consensus         6 ~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~~~~g~~~~~giLl-----------------------------------   49 (113)
                      |+++|+||+|++++|++|++.+.+ +.+++.|.++|+++++|+||                                   
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~   81 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW   81 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSC
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhcc
Confidence            799999999999999999998887 99999999999999999999                                   


Q ss_pred             ---hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          50 ---GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        50 ---~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                         ++.+++.+|..|+.++||||||||+|+++.+|+....  ....+++++.||++||++..+++++||
T Consensus        82 ~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi  150 (265)
T d1r7ra3          82 FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFII  150 (265)
T ss_dssp             TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEE
T ss_pred             ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEE
Confidence               6789999999999999999999999999999864332  345678999999999999877777765

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.64  E-value=6e-18  Score=121.61  Aligned_cols=82  Identities=18%  Similarity=0.202  Sum_probs=62.5

Q ss_pred             hcChhhHhhcCCCCCceeec-----------------------------------------hHHHHHHHHHHHHhCCCeE
Q psy5205          30 LKNPEKFSTLGGKLPKGVLL-----------------------------------------GARRVRDLFKAAKDRTPCV   68 (113)
Q Consensus        30 ~~~~~~~~~~g~~~~~giLl-----------------------------------------~e~~l~~~F~~A~~~~p~i   68 (113)
                      ...|..+..+|.++|+|++|                                         +|++++++|+.|++  |||
T Consensus       108 ~~~~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~--~~i  185 (321)
T d1w44a_         108 GCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HRV  185 (321)
T ss_dssp             SBCCEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH--CSE
T ss_pred             ccchHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh--ccE
Confidence            35677888888888888776                                         79999999999975  899


Q ss_pred             EEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEEc
Q psy5205          69 VFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVVL  113 (113)
Q Consensus        69 lfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~vi  113 (113)
                      |||||+|+++++|+++..+....|++|+||++|||+....+|+||
T Consensus       186 lf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~vi  230 (321)
T d1w44a_         186 IVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVI  230 (321)
T ss_dssp             EEEECCTTTC-----------CCHHHHHHHHHHHHHHHHHTCEEE
T ss_pred             EEeehhhhhccccccCCCCCcchhhhhhhhhhccccccCCCeEEE
Confidence            999999999999987665666779999999999999887778775

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.31  E-value=6.5e-12  Score=86.61  Aligned_cols=61  Identities=13%  Similarity=0.265  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC-CceEEc
Q psy5205          51 ARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN-EGVVVL  113 (113)
Q Consensus        51 e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~-~~v~vi  113 (113)
                      .+.++++|+.|++++||||||||+|.++..+..+.  ...++++++|++.|++.... .+|+||
T Consensus        86 ~~~i~~if~~A~~~~p~il~iDEid~l~~~~~~~~--~~~~~~~~~ll~~l~~~~~~~~~v~vi  147 (246)
T d1d2na_          86 CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGP--RFSNLVLQALLVLLKKAPPQGRKLLII  147 (246)
T ss_dssp             HHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTT--BCCHHHHHHHHHHTTCCCSTTCEEEEE
T ss_pred             hhhhhhhhhhhhhcccceeehhhhhhHhhhccccc--chhHHHHHHHHHHhcCCCccccceeee
Confidence            47799999999999999999999999998876543  34578999999999998543 455554

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.30  E-value=5.9e-13  Score=94.54  Aligned_cols=93  Identities=25%  Similarity=0.290  Sum_probs=69.6

Q ss_pred             cccccHHHHHHHHHHHHH-hcChhhHhhcC-CCCCceeec----------------------------------------
Q psy5205          12 DVRGVDEAKQELKEIVEF-LKNPEKFSTLG-GKLPKGVLL----------------------------------------   49 (113)
Q Consensus        12 di~G~~~~k~~l~~~i~~-~~~~~~~~~~g-~~~~~giLl----------------------------------------   49 (113)
                      .|+|.+++++.+...+.. +++........ -.||+|+||                                        
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~   94 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeee
Confidence            479999999999987743 33332222111 237789998                                        


Q ss_pred             hHHHHHHHHHHHHhC-----CCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCC
Q psy5205          50 GARRVRDLFKAAKDR-----TPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGF  104 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~-----~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~  104 (113)
                      +++.++.+|..|+..     +||||||||+|++++++.+.........++|+||+.|||.
T Consensus        95 ~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~  154 (309)
T d1ofha_          95 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGS  154 (309)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCC
T ss_pred             ccccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCC
Confidence            678899999999653     6999999999999988876653334456899999999985

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.24  E-value=0.00028  Score=46.50  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=20.4

Q ss_pred             CCCCcccccHHHHHHHHHHHHHh
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEFL   30 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~~   30 (113)
                      .+|+|++|.++++++|+.++...
T Consensus         6 ~~~ddivGq~~~~~~L~~~i~~~   28 (239)
T d1ixsb2           6 KTLDEYIGQERLKQKLRVYLEAA   28 (239)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHH
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHH
Confidence            48999999999999999998763

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.24  E-value=0.00023  Score=46.89  Aligned_cols=71  Identities=18%  Similarity=0.222  Sum_probs=44.0

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH-hcChhhH---hhcCCCCCceeec----------------------hHHHHHHHH
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF-LKNPEKF---STLGGKLPKGVLL----------------------GARRVRDLF   58 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~-~~~~~~~---~~~g~~~~~giLl----------------------~e~~l~~~F   58 (113)
                      +|. +|+|++|.++++++|+.++.. ..+.+..   -=+ ++|+.|--.                      ....+..++
T Consensus         4 RP~-~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~-GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~~~~~~~~   81 (238)
T d1in4a2           4 RPK-SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLA-GPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAIL   81 (238)
T ss_dssp             SCS-SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEE-SSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHH
T ss_pred             CCC-cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEE-CCCCCcHHHHHHHHHhccCCCcccccCcccccHHHHHHHH
Confidence            454 799999999999999998865 2111100   001 233333222                      344555555


Q ss_pred             HHHHhCCCeEEEEcccccccc
Q psy5205          59 KAAKDRTPCVVFIDEIDSVGA   79 (113)
Q Consensus        59 ~~A~~~~p~ilfiDEiD~l~~   79 (113)
                      ..+  ...+++||||+|.+.+
T Consensus        82 ~~~--~~~~~~~ide~~~~~~  100 (238)
T d1in4a2          82 TSL--ERGDVLFIDEIHRLNK  100 (238)
T ss_dssp             HHC--CTTCEEEEETGGGCCH
T ss_pred             Hhh--ccCCchHHHHHHHhhh
Confidence            443  4568999999999854

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=96.97  E-value=0.0024  Score=42.18  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      +|+ +|+|++|.+++++.|...+..
T Consensus         7 rP~-~~~dlig~~~~~~~L~~~i~~   30 (239)
T d1njfa_           7 RPQ-TFADVVGQEHVLTALANGLSL   30 (239)
T ss_dssp             CCS-SGGGSCSCHHHHHHHHHHHHT
T ss_pred             CCC-CHHHccChHHHHHHHHHHHHc
Confidence            454 899999999999999888755

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.42  E-value=0.0015  Score=44.61  Aligned_cols=33  Identities=27%  Similarity=0.449  Sum_probs=29.4

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEccccccccccC
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRT   82 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~   82 (113)
                      -|+.++.+++.+.+..++|+||||++.+++.-+
T Consensus        95 ~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~  127 (268)
T d1r6bx2          95 FEKRFKALLKQLEQDTNSILFIDEIHTIIGAGA  127 (268)
T ss_dssp             HHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCC
T ss_pred             HHHHHHHHHHHhhccCCceEEecchHHHhcCCC
Confidence            588999999999999999999999999987543

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.20  E-value=0.0084  Score=38.96  Aligned_cols=33  Identities=15%  Similarity=0.351  Sum_probs=25.5

Q ss_pred             hHHHHHHHHHHHHhCC-CeEEEEccccccccccC
Q psy5205          50 GARRVRDLFKAAKDRT-PCVVFIDEIDSVGAKRT   82 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~-p~ilfiDEiD~l~~~R~   82 (113)
                      -|.+++.+++++.+.. +.||||||+..+++.-+
T Consensus        99 ~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~  132 (195)
T d1jbka_          99 FEERLKGVLNDLAKQEGNVILFIDELHTMVGAGK  132 (195)
T ss_dssp             HHHHHHHHHHHHHHSTTTEEEEEETGGGGTT---
T ss_pred             HHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCC
Confidence            4778999999886654 78999999999986543

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.56  E-value=0.022  Score=36.76  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=19.8

Q ss_pred             CCCcccccHHHHHHHHHHHHHh
Q psy5205           9 TFKDVRGVDEAKQELKEIVEFL   30 (113)
Q Consensus         9 ~~~di~G~~~~k~~l~~~i~~~   30 (113)
                      +|+||+|.+.+++.|+.++..-
T Consensus        22 ~~~diig~~~~~~~l~~~i~~~   43 (231)
T d1iqpa2          22 RLDDIVGQEHIVKRLKHYVKTG   43 (231)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHT
T ss_pred             CHHHccCcHHHHHHHHHHHHcC
Confidence            8999999999999999988763

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=95.45  E-value=0.018  Score=40.53  Aligned_cols=53  Identities=25%  Similarity=0.385  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHH----HhCCCeEEEEccccccccccCCCCC--CchhHHHHHHHHHHhcC
Q psy5205          51 ARRVRDLFKAA----KDRTPCVVFIDEIDSVGAKRTNSVL--HPYANQTINQLLAEMDG  103 (113)
Q Consensus        51 e~~l~~~F~~A----~~~~p~ilfiDEiD~l~~~R~~~~~--~~~~~~i~~~lL~~ld~  103 (113)
                      +..++++...+    +....+|+++||+|...+.......  ......+.+.||+-||+
T Consensus       115 ~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~  173 (364)
T d1um8a_         115 ENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEG  173 (364)
T ss_dssp             THHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHC
T ss_pred             ccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcC
Confidence            44566666544    3456799999999999865432211  11234689999999996

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.33  E-value=0.012  Score=41.90  Aligned_cols=33  Identities=18%  Similarity=0.346  Sum_probs=21.2

Q ss_pred             hHHHHHHHHHHHHhC-CCeEEEEccccccccccC
Q psy5205          50 GARRVRDLFKAAKDR-TPCVVFIDEIDSVGAKRT   82 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~-~p~ilfiDEiD~l~~~R~   82 (113)
                      -|..+..+...+... +++||||||+..+++.-+
T Consensus        99 ~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~  132 (387)
T d1qvra2          99 FEERLKAVIQEVVQSQGEVILFIDELHTVVGAGK  132 (387)
T ss_dssp             HHHHHHHHHHHHHTTCSSEEEEECCC--------
T ss_pred             HHHHHHHHHHHhccCCCceEEEeccHHHHhcCCC
Confidence            477899999888776 479999999999987544

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.78  E-value=0.012  Score=37.85  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.4

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+++|++|.+++++.|+.++..
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~   32 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDE   32 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHT
T ss_pred             CCHHHccCcHHHHHHHHHHHHc
Confidence            4899999999999999998765

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.37  E-value=0.048  Score=35.29  Aligned_cols=21  Identities=19%  Similarity=0.237  Sum_probs=18.9

Q ss_pred             CCCcccccHHHHHHHHHHHHH
Q psy5205           9 TFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         9 ~~~di~G~~~~k~~l~~~i~~   29 (113)
                      +|+|++|.++.+++|.+.+..
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~   32 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLAN   32 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHT
T ss_pred             CHHHhcCCHHHHHHHHHHHHh
Confidence            799999999999999997765

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=94.29  E-value=0.13  Score=35.15  Aligned_cols=35  Identities=31%  Similarity=0.433  Sum_probs=25.9

Q ss_pred             HHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          57 LFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        57 ~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      +....+++..+|++|||+|...            ..+.+.||+.||.
T Consensus       113 l~~~~~~~~~~vvl~DeieKa~------------~~V~~~lLqild~  147 (315)
T d1r6bx3         113 LTDAVIKHPHAVLLLDEIEKAH------------PDVFNILLQVMDN  147 (315)
T ss_dssp             HHHHHHHCSSEEEEEETGGGSC------------HHHHHHHHHHHHH
T ss_pred             hhHHHHhCccchhhhccccccc------------chHhhhhHHhhcc
Confidence            3344556778999999999863            3578888888864

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.23  E-value=0.075  Score=36.43  Aligned_cols=35  Identities=31%  Similarity=0.464  Sum_probs=26.0

Q ss_pred             HHHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcC
Q psy5205          57 LFKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDG  103 (113)
Q Consensus        57 ~F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~  103 (113)
                      +.+..+++.-||+||||+|...            ..+.+.|++.||.
T Consensus       117 l~~~~~~~p~~Vvl~DEieK~~------------~~v~~~ll~~l~~  151 (315)
T d1qvra3         117 LTEAVRRRPYSVILFDEIEKAH------------PDVFNILLQILDD  151 (315)
T ss_dssp             HHHHHHHCSSEEEEESSGGGSC------------HHHHHHHHHHHTT
T ss_pred             HHHHHHhCCCcEEEEehHhhcC------------HHHHHHHHHHhcc
Confidence            3344556667999999999873            3578888888876

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=90.62  E-value=0.3  Score=32.99  Aligned_cols=23  Identities=17%  Similarity=0.213  Sum_probs=18.3

Q ss_pred             CCCCCCCcccccHHHHHHHHHHH
Q psy5205           5 EINITFKDVRGVDEAKQELKEIV   27 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i   27 (113)
                      .|.+.|.+|.|.+.+|..|.-.+
T Consensus         1 ~~~~~f~~I~Gq~~~kral~laa   23 (333)
T d1g8pa_           1 RPVFPFSAIVGQEDMKLALLLTA   23 (333)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHH
T ss_pred             CCCCChhhccCcHHHHHHHHHHH
Confidence            36778999999999998776543

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=89.41  E-value=1.2  Score=28.20  Aligned_cols=42  Identities=14%  Similarity=0.091  Sum_probs=25.4

Q ss_pred             hCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCC
Q psy5205          63 DRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQN  107 (113)
Q Consensus        63 ~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~  107 (113)
                      ...+.++++||+|.+......+   ......+..+.+.+......
T Consensus       130 ~~~~~~~iide~d~l~~~~~~~---~~~~~~l~~l~~~l~~~~~~  171 (287)
T d1w5sa2         130 ENHYLLVILDEFQSMLSSPRIA---AEDLYTLLRVHEEIPSRDGV  171 (287)
T ss_dssp             HTCEEEEEEESTHHHHSCTTSC---HHHHHHHHTHHHHSCCTTSC
T ss_pred             ccCccccceeEEEEeccccccc---hhHHHHHHHHHHhcchhhcc
Confidence            4567889999999998766533   22333444455555554433

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=89.40  E-value=1.5  Score=27.54  Aligned_cols=29  Identities=21%  Similarity=0.249  Sum_probs=23.3

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHHH-hcCh
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVEF-LKNP   33 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~~-~~~~   33 (113)
                      .|++..+.++|-+.+.+.|.+++.. ++++
T Consensus        10 ~~~y~p~~l~~Re~ei~~l~~~l~~~l~~~   39 (276)
T d1fnna2          10 SPSYVPKRLPHREQQLQQLDILLGNWLRNP   39 (276)
T ss_dssp             STTCCCSCCTTCHHHHHHHHHHHHHHHHST
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHhCC
Confidence            5677778899999999999888876 5554

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.01  E-value=0.36  Score=30.77  Aligned_cols=23  Identities=13%  Similarity=0.212  Sum_probs=18.3

Q ss_pred             CCCCCCCcccccHHHHHHHHHHHH
Q psy5205           5 EINITFKDVRGVDEAKQELKEIVE   28 (113)
Q Consensus         5 ~~~~~~~di~G~~~~k~~l~~~i~   28 (113)
                      +|+ +|+|++|.+++++.|+..+.
T Consensus         6 ~P~-~~~diig~~~~~~~L~~~~~   28 (252)
T d1sxje2           6 RPK-SLNALSHNEELTNFLKSLSD   28 (252)
T ss_dssp             CCC-SGGGCCSCHHHHHHHHTTTT
T ss_pred             CCC-CHHHccCcHHHHHHHHHHHH
Confidence            344 79999999999988877654

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.91  E-value=0.31  Score=30.89  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.1

Q ss_pred             CCCCcccccHHHHHHHHHHHHH
Q psy5205           8 ITFKDVRGVDEAKQELKEIVEF   29 (113)
Q Consensus         8 ~~~~di~G~~~~k~~l~~~i~~   29 (113)
                      .+++|++|.+++++.|+.++..
T Consensus        12 ~~~~d~ig~~~~~~~L~~~~~~   33 (224)
T d1sxjb2          12 QVLSDIVGNKETIDRLQQIAKD   33 (224)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHS
T ss_pred             CCHHHhcCCHHHHHHHHHHHHc
Confidence            4679999999999999988765

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=85.21  E-value=1.6  Score=25.85  Aligned_cols=28  Identities=25%  Similarity=0.387  Sum_probs=22.0

Q ss_pred             hHHHHHHHHHHHHhCCCeEEEEcccccc
Q psy5205          50 GARRVRDLFKAAKDRTPCVVFIDEIDSV   77 (113)
Q Consensus        50 ~e~~l~~~F~~A~~~~p~ilfiDEiD~l   77 (113)
                      .....+..++.|....|+++++||+...
T Consensus        84 ~~~~~~~~l~~~~~~~~~vlllDE~~~~  111 (178)
T d1ye8a1          84 AIPILERAYREAKKDRRKVIIIDEIGKM  111 (178)
T ss_dssp             HHHHHHHHHHHHHHCTTCEEEECCCSTT
T ss_pred             hhhhHHHHHHHHHhcCCCceeecCCCcc
Confidence            3455677788888999999999997433

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.81  E-value=1.7  Score=29.37  Aligned_cols=53  Identities=19%  Similarity=0.251  Sum_probs=28.6

Q ss_pred             hHHHHHHH---HHHHHhCCCeEEEEccccccccccCCCCCCchhHHHHHHHHHHhcCCCCCCceEE
Q psy5205          50 GARRVRDL---FKAAKDRTPCVVFIDEIDSVGAKRTNSVLHPYANQTINQLLAEMDGFHQNEGVVV  112 (113)
Q Consensus        50 ~e~~l~~~---F~~A~~~~p~ilfiDEiD~l~~~R~~~~~~~~~~~i~~~lL~~ld~~~~~~~v~v  112 (113)
                      +|+.+..+   |+......+.+++|||+|+-.        +......+..+|..+.  ..+..++|
T Consensus       336 GEk~~~~lal~lal~~~~~~pililDE~d~~L--------d~~~~~~~~~~l~~~~--~~~~Q~I~  391 (427)
T d1w1wa_         336 GEKTVAALALLFAINSYQPSPFFVLDEVDAAL--------DITNVQRIAAYIRRHR--NPDLQFIV  391 (427)
T ss_dssp             HHHHHHHHHHHHHHHTSSCCSEEEESSTTTTC--------CHHHHHHHHHHHHHHC--BTTBEEEE
T ss_pred             chHHHHHHHHHHHHhcCCCCCEEEEeCCCCCC--------CHHHHHHHHHHHHHHh--CCCCEEEE
Confidence            45554333   444544555699999999865        3233344455555442  22334554

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=81.21  E-value=1.9  Score=28.45  Aligned_cols=79  Identities=14%  Similarity=0.175  Sum_probs=46.1

Q ss_pred             hhhHhhcCCCCCceeec----hHHHHHHHHHHHHhCCCeEEEEccccccccccCCCC-----CCchhHHHHHHHHHHhcC
Q psy5205          33 PEKFSTLGGKLPKGVLL----GARRVRDLFKAAKDRTPCVVFIDEIDSVGAKRTNSV-----LHPYANQTINQLLAEMDG  103 (113)
Q Consensus        33 ~~~~~~~g~~~~~giLl----~e~~l~~~F~~A~~~~p~ilfiDEiD~l~~~R~~~~-----~~~~~~~i~~~lL~~ld~  103 (113)
                      ++..+++|+.+.+=+..    .|+.++-+-...+...+.++++|=+-++.++.+-.+     ..+...+.++.++..+-.
T Consensus        99 ~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~~~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr~l~~  178 (268)
T d1xp8a1          99 PVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTA  178 (268)
T ss_dssp             HHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHhcCCCcEEEEecccccccHHHHcccccchhHHHHHHHHHHHHHHHHh
Confidence            45667778776543333    455554444444456789999999999886544211     112355777877777766


Q ss_pred             CCCCCceE
Q psy5205         104 FHQNEGVV  111 (113)
Q Consensus       104 ~~~~~~v~  111 (113)
                      +....++.
T Consensus       179 ~~~~~~~~  186 (268)
T d1xp8a1         179 ILSKTGTA  186 (268)
T ss_dssp             HHTTTCCE
T ss_pred             hhhhcCCe
Confidence            54333333