Citrus Sinensis ID: 045618

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------35
Protein Sequence
MRAAVNTDDLLAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVLKKTKVRIYLAFVATVICQTNNMHQ
Secondary Structure (PSIPRED)
ccccccccccccEEEEEcccHHHHHHHHHHHHHHHccHHHHHcccccccccccHHHHHccccHHHHHHHHHHHHHccccccccccHHHHHHHHccccEEEEEcccccHHHHHHHHccccccccccEEEEEcccHHHHHHcccccEEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHcccccccccHHHHHHHHHccccccHHHHHHHHcccccccccHHHHHccccEEEccccEEEccHHHHHHHHHHHHHccccccccccccccccHHHHHHccccccccEEEEEEEccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccEEEEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHcccEEEEEEccccHHHHHHHHHccccccccccEEEEEcccHHHHHHccccEEEEEccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHHccccHHHHHHHHHHHHccccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHccccHHHcHHHHEEcEEEEEccccEEEHHHHHHHHcHHHHHccccccccccEEEccHHHHHHHHHccccccEEEEEEEEccccHHHcc
Coil and Loop (DISEMBL)
MRAAVNTDDLLAELNRATSCGIVKIRRCLMVFRLCSTEClsealwkpsylnsraIRESRSIMNQRVSNKFLGWLVEqeqirtpnlpEYVRERLRRTKVLIVLDDVNKVGQLEYLIGglerfgpgsriivttrdrrvldnfgvgniykvngLKYREALELFCncafkenhcpedllVHSKRildyangnPLAVRVLGSFLRQKSKLDWESALDnlkrisdpdiyDVLKISYNEIKAEEKSLFLDIAcffngqdkdSVLKMigdssfahyGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRqesieqpgkrsrlWYYEDVYNVLKKTKVRIYLAFVATVICQTNNMHQ
Flexible Loop (DISEMBL)
mraavntddlLAELNRATSCGIVKIRRCLMVFRLCSTEClsealwkpsylnSRAIRESRSIMNQRVSNKFLgwlveqeqirtpnlpeyvreRLRRTKvlivlddvnkvGQLEyligglerfgpgsriivttrdrrvldnfgvgniykvnGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALdnlkrisdpdiyDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRqesieqpgkrsrlwyYEDVYNVLKKTKVRIYLAFVATVIcqtnnmhq
Low Complexity Region (SEG)
MRAAVNTDDLLAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVLKKTKVRIYLAFVATVICQTNNMHQ
Disordered region (IsUnstruct)
********DLLAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQE*****************SRLWYYEDVYNVLKKTKVRIYLAFVATVICQT*****
Disordered Region (DISOPRED)
*****NTDDLLAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVLKKTKVRIYLAFVATVICQT*****
Disordered Region (DISEMBL)
MRAAVNTDDLLAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVLKKTKVRIYLAFVATVICQTNNMHQ
Disordered Region (DISPRO)
*****NTDDLLAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVLKKTKVRIYLAFVATVICQTN****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRAAVNTDDLLAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVLKKTKVRIYLAFVATVICQTNNMHQ
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	349	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.659	0.201	0.449	2e-47
O82500	1095	Putative disease resistan	no	no	0.744	0.237	0.387	9e-46
Q9FL92	1372	Probable WRKY transcripti	no	no	0.647	0.164	0.413	3e-42
Q9FH83	1288	Probable WRKY transcripti	no	no	0.647	0.175	0.424	5e-41
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.704	0.129	0.383	9e-38
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.779	0.209	0.341	3e-37
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.621	0.134	0.372	2e-30
Q9M667	835	Disease resistance protei	no	no	0.633	0.264	0.290	2e-10
Q9FLB4	874	Putative disease resistan	no	no	0.627	0.250	0.276	2e-08
Q9FW44	787	Disease resistance protei	no	no	0.547	0.242	0.269	1e-07

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  190 bits (482), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 106/236 (44%), Positives = 157/236 (66%), Gaps = 6/236 (2%)

Query: 92  RLRRTKVLIVLDDV-NKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNG 150
           RLR  KVLIVLDD+ NK   LEYL G L+ FG GSRII+TTRD+ +++   +  IY+V  
Sbjct: 290 RLRSKKVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTA 347

Query: 151 LKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESA 210
           L   E+++LF   AF +    E+    S  +++YA G PLA++V GS L      +W+SA
Sbjct: 348 LPDHESIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSA 407

Query: 211 LDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSF-AHYG 269
           ++++K  S   I D LKISY+ ++ +++ +FLDIACF  G++KD +L+++      A YG
Sbjct: 408 IEHMKNNSYSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYG 467

Query: 270 LNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVL 325
           L +L+DKSLV +S  NQ+QMHDL+Q+MG+ IV  +  + PG+RSRLW  ++V  V+
Sbjct: 468 LRILIDKSLVFISEYNQVQMHDLIQDMGKYIVNFQ--KDPGERSRLWLAKEVEEVM 521

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  184 bits (467), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 102/263 (38%), Positives = 165/263 (62%), Gaps = 3/263 (1%)

Query: 65  RVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPG 124
            +  +FL  L++Q+ +R  +L   + ERL+  KVLI+LDDV+ + QL+ L    + FG  
Sbjct: 259 HLQQRFLSKLLDQKDLRVRHLGA-IEERLKSQKVLIILDDVDNIEQLKALAKENQWFGNK 317

Query: 125 SRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDY 184
           SRI+VTT+++++L +  + ++Y+V     +EAL +FC  AFK++   +DL   +      
Sbjct: 318 SRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQSSPSDDLKHLAIEFTTL 377

Query: 185 ANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDI 244
           A   PLA+RVLGSF+R K K +WE +L  LK   D ++  VLK+ Y+ +   EK LFL I
Sbjct: 378 AGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVLKVGYDGLHDHEKDLFLHI 437

Query: 245 ACFFNGQDKDSVLKMI--GDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVR 302
           AC F+GQ ++ + +MI   + ++  +GL VL DKSL+      +++MH LL+++G+E+VR
Sbjct: 438 ACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFENGRIEMHSLLRQLGKEVVR 497

Query: 303 QESIEQPGKRSRLWYYEDVYNVL 325
           ++SI +PGKR  L   ++   VL
Sbjct: 498 KQSIYEPGKRQFLMNAKETCGVL 520

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score =  172 bits (436), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 95/230 (41%), Positives = 149/230 (64%), Gaps = 4/230 (1%)

Query: 89  VRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV 148
           +R+RL   +VL+VLDDV     +E  +GG + FGP S II+T++D+ V     V  IY+V
Sbjct: 234 LRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEV 293

Query: 149 NGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLG-SFLRQKSKLDW 207
            GL  +EAL+LF  CA  ++   ++L   S +++ YANG+PLA+ + G   + +K   + 
Sbjct: 294 QGLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEM 353

Query: 208 ESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMI-GDSSFA 266
           E A   LK        D +K SY+ +   EK++FLDIACFF G++ D V++++ G   F 
Sbjct: 354 EIAFLKLKECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFP 413

Query: 267 HYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLW 316
           H G++VLV+KSLVT+S  N+++MH+L+Q++GR+I+ +E+  Q  +RSRLW
Sbjct: 414 HVGIDVLVEKSLVTISE-NRVRMHNLIQDVGRQIINRET-RQTKRRSRLW 461

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  168 bits (426), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 98/231 (42%), Positives = 148/231 (64%), Gaps = 5/231 (2%)

Query: 89  VRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV 148
           +R+RL   +VL+VLDDV      E  + G +  GPGS II+T+RD++V    G+  IY+V
Sbjct: 240 LRDRLNSKRVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQIYEV 299

Query: 149 NGLKYREALELF-CNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKL-D 206
            GL  +EA +LF  + + KE+   ++L   S R+++YANGNPLA+ V G  L+ K KL +
Sbjct: 300 QGLNEKEARQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGRELKGKKKLSE 359

Query: 207 WESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMI-GDSSF 265
            E+A   LKR     I D  K +Y+ +   EK++FLDIACFF G++ + V++++ G   F
Sbjct: 360 METAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEGCGFF 419

Query: 266 AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLW 316
            H  ++VLVDK LVT+S  N++ +H L Q++GREI+  E++ Q  +R RLW
Sbjct: 420 PHVEIDVLVDKCLVTISE-NRVWLHKLTQDIGREIINGETV-QIERRRRLW 468

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  157 bits (398), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 97/253 (38%), Positives = 146/253 (57%), Gaps = 7/253 (2%)

Query: 75   VEQEQIRTPNL-PEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRD 133
            VE   IR  ++   ++R RL+R ++L++LDDVN    ++  +G L  FGPGSRII+T+R+
Sbjct: 897  VEPHVIRISDIKTSFLRSRLQRKRILVILDDVNDYRDVDTFLGTLNYFGPGSRIIMTSRN 956

Query: 134  RRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVR 193
            RRV     + ++Y+V  L   ++L L      +    PE     S  ++ ++NGNP  ++
Sbjct: 957  RRVFVLCKIDHVYEVKPLDIPKSLLLLDRGTCQIVLSPEVYKTLSLELVKFSNGNPQVLQ 1016

Query: 194  VLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDK 253
             L S  R+ +KL  E     +K  S   I  + + S   +   E+ +FLDIACFFN  DK
Sbjct: 1017 FLSSIDREWNKLSQE-----VKTTSPIYIPGIFEKSCCGLDDNERGIFLDIACFFNRIDK 1071

Query: 254  DSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKR 312
            D+V  ++    F AH G   LVDKSL+T+S+ N + M   +Q  GREIVRQES ++PG R
Sbjct: 1072 DNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNLVDMLSFIQATGREIVRQESADRPGDR 1131

Query: 313  SRLWYYEDVYNVL 325
            SRLW  + + +V 
Sbjct: 1132 SRLWNADYIRHVF 1144

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  155 bits (393), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 95/278 (34%), Positives = 156/278 (56%), Gaps = 6/278 (2%)

Query: 60  SIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLE 119
           S M  R   + L  ++ Q+ I+  +    V +RL++ KVLI+LDDV+ +  L+ L+G  E
Sbjct: 250 SGMKLRWEKELLSEILGQKDIKIEHF-GVVEQRLKQQKVLILLDDVDSLEFLKTLVGKAE 308

Query: 120 RFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSK 179
            FG GSRIIV T+DR++L    +  IY+V       AL + C  AF ++  P+D    + 
Sbjct: 309 WFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRSAFGKDSPPDDFKELAF 368

Query: 180 RILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKS 239
            +   A   PL + VLGS L+ ++K  W   +  L+   + DI   L++SY+ +  +++ 
Sbjct: 369 EVAKLAGNLPLGLSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMKTLRVSYDRLHQKDQD 428

Query: 240 LFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGRE 299
           +FL IAC FNG +   V  ++ D    + G  +L +KSL+ ++    ++MH+LL+++GRE
Sbjct: 429 MFLYIACLFNGFEVSYVKDLLKD----NVGFTMLTEKSLIRITPDGYIEMHNLLEKLGRE 484

Query: 300 IVRQESIEQPGKRSRLWYYEDVYNVL-KKTKVRIYLAF 336
           I R +S   PGKR  L  +ED++ V+ +KT     L  
Sbjct: 485 IDRAKSKGNPGKRRFLTNFEDIHEVVTEKTGTETLLGI 522

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  133 bits (334), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 82/220 (37%), Positives = 127/220 (57%), Gaps = 3/220 (1%)

Query: 86  PEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNI 145
           P   R++L   ++L+VLDDV      E  +  L+ FG GS II+T+ D++V     +  I
Sbjct: 261 PTLHRDKLYDKRILVVLDDVRDSLAAESFLKRLDWFGSGSLIIITSVDKQVFAFCQINQI 320

Query: 146 YKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKL 205
           Y V GL   EAL+LF    F  N   ++    S +++DY NGNPLA+ + G  L  K K 
Sbjct: 321 YTVQGLNVHEALQLFSQSVFGINEPEQNDRKLSMKVIDYVNGNPLALSIYGRELMGK-KS 379

Query: 206 DWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSS- 264
           + E+A   LK      I DVLK +Y+ +   EK++ LDIA FF G+  + V++++ +S  
Sbjct: 380 EMETAFFELKHCPPLKIQDVLKNAYSALSDNEKNIVLDIAFFFKGETVNYVMQLLEESHY 439

Query: 265 FAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQE 304
           F    ++VLVDK ++T+S  N +QM++L+Q+  +EI   E
Sbjct: 440 FPRLAIDVLVDKCVLTISE-NTVQMNNLIQDTCQEIFNGE 478

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M667|RPP13_ARATH Disease resistance protein RPP13 OS=Arabidopsis thaliana GN=RPP13 PE=2 SV=2

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 73/251 (29%), Positives = 119/251 (47%), Gaps = 30/251 (11%)

Query: 76  EQEQIRT---PNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTR 132
           E E+IR      L  Y+   L   K L+V+DD+ +    + L   L     GSR+I+TTR
Sbjct: 247 ELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIWEREAWDSLKRALPCNHEGSRVIITTR 306

Query: 133 DRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKE-NHCPEDLLVHSKRILDYANGNPL 190
            + V +   G    +K+  L + E+ ELF   AF+      EDLL   K ++    G PL
Sbjct: 307 IKAVAEGVDGRFYAHKLRFLTFEESWELFEQRAFRNIQRKDEDLLKTGKEMVQKCRGLPL 366

Query: 191 AVRVLGSFLRQKSKLDWESALDNL-KRISDPDIY---DVLKISYNEIKAEEKSLFLDIAC 246
            + VL   L +K+  +W    ++L +R+ D  I+    V  +S+ E++ E K  FL ++ 
Sbjct: 367 CIVVLAGLLSRKTPSEWNDVCNSLWRRLKDDSIHVAPIVFDLSFKELRHESKLCFLYLSI 426

Query: 247 FFNGQDKDSVLKMI----------GDSSF-----AHYGLNVLVDKSLVTV---SRGNQL- 287
           F    + D + K+I          GD        A Y +  L+D+SL+      RG  + 
Sbjct: 427 FPEDYEID-LEKLIHLLVAEGFIQGDEEMMMEDVARYYIEELIDRSLLEAVRRERGKVMS 485

Query: 288 -QMHDLLQEMG 297
            ++HDLL+++ 
Sbjct: 486 CRIHDLLRDVA 496

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. In contrast to other resistance proteins, it works independently of ESD1 and NSD1 proteins and does not require the accumulation of salicylic acid, suggesting the existence of an independent signaling pathway. The specificity to avirulence proteins differs in the different cultivars.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score = 60.5 bits (145), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 67/242 (27%), Positives = 111/242 (45%), Gaps = 23/242 (9%)

Query: 72  GWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDV-NKVGQLEYLIGGLERFGPGSRIIVT 130
           GW    EQ     +   ++  L   K +++LDD+  KV      I   +R   GS+I  T
Sbjct: 237 GW----EQKTENEIASTIKRSLENKKYMLLLDDMWTKVDLANIGIPVPKR--NGSKIAFT 290

Query: 131 TRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPL 190
           +R   V    GV    +V  L + +A +LF     +       +   +K I    NG PL
Sbjct: 291 SRSNEVCGKMGVDKEIEVTCLMWDDAWDLFTRNMKETLESHPKIPEVAKSIARKCNGLPL 350

Query: 191 AVRVLG-SFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEE-KSLFLDIACFF 248
           A+ V+G +  R+KS  +W  A+     I + DI  +LK SY+++K E+ KS FL  A F 
Sbjct: 351 ALNVIGETMARKKSIEEWHDAVGVFSGI-EADILSILKFSYDDLKCEKTKSCFLFSALFP 409

Query: 249 NGQD--KDSVLK-------MIGDSSFAHYG---LNVLVDKSLVTVSRGNQ-LQMHDLLQE 295
              +  KD +++       ++G     + G   +  L    L+  S   + ++MHD+++E
Sbjct: 410 EDYEIGKDDLIEYWVGQGIILGSKGINYKGYTIIGTLTRAYLLKESETKEKVKMHDVVRE 469

Query: 296 MG 297
           M 
Sbjct: 470 MA 471

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FW44|ADR1_ARATH Disease resistance protein ADR1 OS=Arabidopsis thaliana GN=ADR1 PE=2 SV=2

 Score = 58.2 bits (139), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 60/223 (26%), Positives = 100/223 (44%), Gaps = 32/223 (14%)

Query: 81  RTPN---LPEYVRERLR---RTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDR 134
           R+PN   L   +RE L      + L++LDDV     L+ L+  +     GS  +V +R +
Sbjct: 227 RSPNFENLESCIREFLYDGVHQRKLVILDDVWTRESLDRLMSKIR----GSTTLVVSRSK 282

Query: 135 RVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVH-SKRILDYANGNPLAVR 193
                      Y V  LK  EA+ L C CAF++   P     +  K+++D   G PL+++
Sbjct: 283 LA----DPRTTYNVELLKKDEAMSLLCLCAFEQKSPPSPFNKYLVKQVVDECKGLPLSLK 338

Query: 194 VLGSFLRQKSKLDWESALDNLKRISDPD------IYDVLKISYNEIKAEEKSLFLDIACF 247
           VLG+ L+ K +  WE  +  L R    D      ++  ++ S   +  + +  FLD+  F
Sbjct: 339 VLGASLKNKPERYWEGVVKRLLRGEAADETHESRVFAHMEESLENLDPKIRDCFLDMGAF 398

Query: 248 FNGQDKDSVLKMIG---------DSSFAHYGLNVLVDKSLVTV 281
              +DK   L ++          D   A   +  L DK+L+T+
Sbjct: 399 --PEDKKIPLDLLTSVWVERHDIDEETAFSFVLRLADKNLLTI 439

Disease resistance (R) protein that mediates resistance against Hyaloperonospora parasitica in a salicylic acid-dependent manner. Also mediates resistance against Erysiphe cichoracearum is both salicylic acid-dependent and partially NPR1-dependent. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.

Arabidopsis thaliana (taxid: 3702)

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	349
255561520	465	conserved hypothetical protein [Ricinus	0.742	0.556	0.505	1e-61
255579570	1116	TMV resistance protein N, putative [Rici	0.667	0.208	0.531	9e-61
147768286	1206	hypothetical protein VITISV_033530 [Viti	0.679	0.196	0.518	1e-60
255547496	1097	ATP binding protein, putative [Ricinus c	0.676	0.215	0.521	3e-60
225460354	1174	PREDICTED: TMV resistance protein N-like	0.679	0.201	0.518	5e-60
359495270	1154	PREDICTED: TMV resistance protein N-like	0.747	0.226	0.475	2e-59
224127917	1470	tir-nbs-lrr resistance protein [Populus	0.742	0.176	0.452	9e-59
105922867	1378	TIR-NBS-LRR-TIR type disease resistance	0.670	0.169	0.508	4e-58
255582274	943	leucine-rich repeat-containing protein,	0.696	0.257	0.485	4e-58
224145028	709	nbs-lrr resistance protein [Populus tric	0.747	0.368	0.490	5e-58

>gi|255561520|ref|XP_002521770.1| conserved hypothetical protein [Ricinus communis] gi|223538983|gb|EEF40580.1| conserved hypothetical protein [Ricinus communis]

 Score =  243 bits (619), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 133/263 (50%), Positives = 180/263 (68%), Gaps = 4/263 (1%)

Query: 88  YVRERLRRTKVLIVLDDVNKVGQL-EYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIY 146
           Y + RL   K LIVLDDVN   Q+ E L+ G   FG GS++IVT+RDR+VL N GV  IY
Sbjct: 95  YRKNRLSHGKALIVLDDVNSSLQMQELLVEGRHLFGEGSKVIVTSRDRQVLKN-GVDEIY 153

Query: 147 KVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLD 206
           +V+GL   EAL+LF    F +NH  E+ +  SKR++ YA GNPLA++VLG FL  KSK D
Sbjct: 154 EVDGLNLNEALQLFSINCFNQNHPLEEFMQLSKRVIYYAKGNPLALKVLGCFLLDKSKQD 213

Query: 207 WESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMI-GDSSF 265
           WE ALD LKR S+  + +VL++SY+ ++ E+K +FLDIACFF G+D   V +++ G   +
Sbjct: 214 WEIALDKLKRTSNIGMKNVLRLSYDGLEIEDKEIFLDIACFFKGEDVCFVERILDGCGFY 273

Query: 266 AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVL 325
              GLN LVDKSL+TVS G +L MHDL+QEMG E V+QES  +PG+RSRLW++ED+Y+VL
Sbjct: 274 VDIGLNNLVDKSLITVSNG-KLWMHDLIQEMGWETVQQESTGEPGERSRLWHHEDIYHVL 332

Query: 326 KKTKVRIYLAFVATVICQTNNMH 348
            K      +  +   + +T  +H
Sbjct: 333 TKNTGTKAVEGITLDLSETRELH 355

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579570|ref|XP_002530627.1| TMV resistance protein N, putative [Ricinus communis] gi|223529837|gb|EEF31770.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  240 bits (612), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 125/235 (53%), Positives = 169/235 (71%), Gaps = 2/235 (0%)

Query: 92  RLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGL 151
           R+ + +VL++LDDVN++ QL+ L G  + FG GSRII+TTRD  +L   GV  IYKV GL
Sbjct: 288 RMCKKRVLLILDDVNQLEQLKLLAGRHDWFGSGSRIIITTRDEHLLKCHGVDKIYKVQGL 347

Query: 152 KYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESAL 211
              E++ LFC  AFK ++  +D +  S   ++Y NG PLA+ VLGSFL  KS  +W SAL
Sbjct: 348 SQDESIHLFCLRAFKSDYPADDYVELSNEFVNYCNGLPLALDVLGSFLFDKSVNEWTSAL 407

Query: 212 DNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSF-AHYGL 270
             LK+I + +I + L IS++ ++  EK +FLDIACFFNG+DKD V+K++    F  H G+
Sbjct: 408 RRLKQIPNQEILEKLFISFDGLEEVEKKIFLDIACFFNGEDKDYVIKVLESRGFYPHVGI 467

Query: 271 NVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVL 325
             L++KSL+T+S+  ++ MHDLLQEMGREIVRQES E+PGKRSRLW YEDVY+VL
Sbjct: 468 RDLINKSLITISK-ERIWMHDLLQEMGREIVRQESQEEPGKRSRLWLYEDVYHVL 521

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147768286|emb|CAN64759.1| hypothetical protein VITISV_033530 [Vitis vinifera]

 Score =  239 bits (610), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 124/239 (51%), Positives = 167/239 (69%), Gaps = 2/239 (0%)

Query: 88  YVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYK 147
           +++ERL   KVLIVLDDV+   QLE L G  + FG GSRII+TT+D+ +L+  GV  IY 
Sbjct: 292 FIKERLHSRKVLIVLDDVDMYEQLEVLAGNHDWFGAGSRIIITTKDKTLLNMHGVDAIYN 351

Query: 148 VNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDW 207
           V GLKY EAL+LFC CAFK +    D +   K  + Y  G PLA++VLGSF++ K+  +W
Sbjct: 352 VEGLKYNEALKLFCWCAFKHDLPTADYMQLCKNFVKYIEGLPLAIKVLGSFVKNKTIDEW 411

Query: 208 ESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSS-FA 266
           +SALD LKRI   D+  VL+IS++ +   +K +FLDIACFF GQDKD V K++     F 
Sbjct: 412 KSALDKLKRIPHKDVQKVLRISFDGLDDNQKDIFLDIACFFKGQDKDFVAKILESCDFFP 471

Query: 267 HYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVL 325
              + VL + SL+ VS  N+L MHBLLQEMG EIVRQE+++ PGKRSRLW++++V +VL
Sbjct: 472 ANDIRVLEENSLILVSN-NKLCMHBLLQEMGWEIVRQENVKYPGKRSRLWFHDEVNHVL 529

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547496|ref|XP_002514805.1| ATP binding protein, putative [Ricinus communis] gi|223545856|gb|EEF47359.1| ATP binding protein, putative [Ricinus communis]

 Score =  238 bits (607), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 124/238 (52%), Positives = 168/238 (70%), Gaps = 2/238 (0%)

Query: 89  VRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV 148
           +  RL   +VLI+LDDVN++ QL+ L G  + FG GSRIIVT+RD  +L   GV  IY+V
Sbjct: 286 ISNRLAHKRVLIILDDVNQLDQLKMLAGMHDWFGKGSRIIVTSRDEHLLKCHGVDKIYRV 345

Query: 149 NGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWE 208
            GL   EAL LFC  AF+ +H  ED L  S + ++Y NG PLA+ V GSFL  KS  +W 
Sbjct: 346 EGLGRDEALHLFCLKAFRNDHPIEDFLELSNQFVNYCNGLPLALDVFGSFLFGKSLSEWR 405

Query: 209 SALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSS-FAH 267
           SALD LK I + +I D L IS++ ++  EK LFLDIACFFNG+D+D V +++     +  
Sbjct: 406 SALDRLKEIPNQEILDKLNISFDGLEEMEKKLFLDIACFFNGEDRDYVYEVLDSCGLYPD 465

Query: 268 YGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVL 325
           +G++VLV KSL+T+S+  ++ MHDLLQE+GR+IVR+ES E+PGKRSRLW Y+D+ +VL
Sbjct: 466 FGISVLVSKSLITISK-ERIWMHDLLQELGRDIVRRESQEEPGKRSRLWLYKDIRHVL 522

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460354|ref|XP_002263146.1| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  237 bits (605), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 124/239 (51%), Positives = 167/239 (69%), Gaps = 2/239 (0%)

Query: 88  YVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYK 147
           +++ERL   KVLIVLDDV+   QLE L G  + FG GSRII+TT+D+ +L+  GV  IY 
Sbjct: 292 FIKERLHSRKVLIVLDDVDMYEQLEVLAGNHDWFGAGSRIIITTKDKTLLNMHGVDAIYN 351

Query: 148 VNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDW 207
           V GLKY EAL+LFC CAFK +    D +   K  + Y  G PLA++VLGSF++ K+  +W
Sbjct: 352 VEGLKYNEALKLFCWCAFKHDLPTADYMQLCKNFVKYIEGLPLAIKVLGSFVKNKTIDEW 411

Query: 208 ESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSS-FA 266
           +SALD LKRI   D+  VL+IS++ +   +K +FLDIACFF GQDKD V K++     F 
Sbjct: 412 KSALDKLKRIPHKDVQKVLRISFDGLDDNQKDIFLDIACFFKGQDKDFVAKILESCDFFP 471

Query: 267 HYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVL 325
              + VL + SL+ VS  N+L MH+LLQEMG EIVRQE+++ PGKRSRLW++++V +VL
Sbjct: 472 ANDIRVLEENSLILVSN-NKLCMHNLLQEMGWEIVRQENVKYPGKRSRLWFHDEVNHVL 529

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495270|ref|XP_002276075.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  235 bits (600), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 125/263 (47%), Positives = 175/263 (66%), Gaps = 2/263 (0%)

Query: 66  VSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
           +  KFL  L+E+  +    L   ++ RL   KVLIVLD+VN    L+ L+G  + FG GS
Sbjct: 259 LQQKFLAQLLEEPNLNMKALTS-IKGRLHSKKVLIVLDNVNDPIILKCLVGNYDWFGRGS 317

Query: 126 RIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYA 185
           RII+TTRD+R+L + GV N Y+     Y EA E     + K     +D +  SK ++ YA
Sbjct: 318 RIIITTRDKRLLISHGVLNYYEAQRFNYDEASEFLTPYSLKHKIPCDDFMEVSKEVIGYA 377

Query: 186 NGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIA 245
            G PLA+ VLGSFL   +K +W + LD LK   +  I +VLK+SY+ +  +EK++ LDIA
Sbjct: 378 QGLPLALEVLGSFLFSMTKEEWRNQLDKLKSTPNMKIQEVLKVSYDGLDDKEKNILLDIA 437

Query: 246 CFFNGQDKDSVLKMI-GDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQE 304
           CFF G+DKD V++++ G   F+  G+  L+DKSLVT+S  N++ MHDL+QEMGREIVRQ+
Sbjct: 438 CFFKGEDKDYVMEILDGCGFFSLSGIRALIDKSLVTISWSNEIMMHDLIQEMGREIVRQQ 497

Query: 305 SIEQPGKRSRLWYYEDVYNVLKK 327
           S+E+PGKRSRLW++ED+  VLKK
Sbjct: 498 SLEEPGKRSRLWFHEDINGVLKK 520

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127917|ref|XP_002329209.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870990|gb|EEF08121.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  233 bits (594), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 120/265 (45%), Positives = 184/265 (69%), Gaps = 6/265 (2%)

Query: 65  RVSNKFLGWLVEQE--QIRTPNLPE-YVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERF 121
           R+ ++    + E+E   IRTP +   ++++R+ R K+LIV DDVN V Q+E L+GG E F
Sbjct: 257 RIRDELFSKITEEENLHIRTPRIGHPFIKDRICRKKILIVFDDVNDVDQIEMLLGGCESF 316

Query: 122 GPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRI 181
           GPGSRII+T+RD++VL  +    I++V GL +REAL LF   AFK+N  P + +  S R 
Sbjct: 317 GPGSRIILTSRDKQVLKKYA-DKIFEVEGLNHREALHLFSLHAFKDNQPPYNYMELSVRA 375

Query: 182 LDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLF 241
           ++YA GNPLA++VLGS L  ++  +WESAL+ +++++   ++ VL+ISY  + +EEKS+F
Sbjct: 376 INYAKGNPLALKVLGSSLFGRTTKEWESALNKVEKLTRQKVHSVLRISYEALDSEEKSIF 435

Query: 242 LDIACFFNGQDKDSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREI 300
           LDIACFF G   D V +++    F    G +VL+D+ L+ +S  ++++MHDLLQEM  ++
Sbjct: 436 LDIACFFRGHRVDFVKRILDGCGFKTDIGFSVLIDRCLIKIS-DDKVEMHDLLQEMAHDV 494

Query: 301 VRQESIEQPGKRSRLWYYEDVYNVL 325
           VR+ES+++ G +SRLW  +DVY VL
Sbjct: 495 VRKESLDELGGQSRLWSPKDVYQVL 519

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|105922867|gb|ABF81441.1| TIR-NBS-LRR-TIR type disease resistance protein [Populus trichocarpa] gi|105922933|gb|ABF81445.1| TIR-NBS-LRR-TIR type disease resistance protein [Populus trichocarpa]

 Score =  231 bits (589), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 120/236 (50%), Positives = 165/236 (69%), Gaps = 2/236 (0%)

Query: 87  EYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIY 146
           E ++ +L+R K+LIVLDDV+   QLE L    + FGPGSRII+T+RDR+VL   GV  IY
Sbjct: 350 EMIKRKLQRKKILIVLDDVDDRKQLESLAAESKWFGPGSRIIITSRDRQVLTRNGVARIY 409

Query: 147 KVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLD 206
           +   L   +AL LF   AFK +   ED +  SK+++ YANG PLA+ V+GSF+  +S L+
Sbjct: 410 EAEKLNDDDALMLFSQKAFKNDQPAEDFVELSKQVVGYANGLPLALEVIGSFMHGRSILE 469

Query: 207 WESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSF- 265
           W SA++ L  I D +I DVL+IS++ +   EK +FLDIACF  G  KD +++++    F 
Sbjct: 470 WGSAINRLNEIPDREIIDVLRISFDGLHELEKKIFLDIACFLKGFKKDRIIRILDSCGFH 529

Query: 266 AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDV 321
           AH G  VL++KSL++VSR +Q+ MH+LLQ MG+EIVR ES E+PG+RSRLW YEDV
Sbjct: 530 AHIGTQVLIEKSLISVSR-DQVWMHNLLQIMGKEIVRCESPEEPGRRSRLWTYEDV 584

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582274|ref|XP_002531928.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223528407|gb|EEF30442.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  231 bits (588), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 119/245 (48%), Positives = 172/245 (70%), Gaps = 2/245 (0%)

Query: 84  NLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVG 143
           N  + ++ RLR  +VL+V+DDVN++ QL+ L G  + FGPGSR+I+TTRD  +L + GV 
Sbjct: 104 NGTDMIKSRLRYKRVLVVIDDVNQLSQLQNLAGKSDWFGPGSRVIITTRDEHLLISHGVD 163

Query: 144 NIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKS 203
            IYKV GL   EAL+LF   AF+ NH  +D +  S  I+ YANG PLA+ VLGSFL  ++
Sbjct: 164 EIYKVKGLNKSEALQLFSLKAFRNNHPQKDYMTLSTDIVYYANGLPLALEVLGSFLFNRT 223

Query: 204 KLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMI-GD 262
             +  +ALD +K I   +I D L+IS++ ++  EK +FLDIACFF G++ D + K++ G 
Sbjct: 224 LEESRNALDRIKEIPKDEILDALQISFDGLEEMEKQIFLDIACFFKGKNIDHITKILDGC 283

Query: 263 SSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVY 322
             +   G+ VL++KSL+T+  G +L MHDLLQEMG ++V+QES E+PG+RSRLW Y+D++
Sbjct: 284 GFYPDIGIRVLIEKSLITIV-GERLWMHDLLQEMGWKLVQQESPEEPGRRSRLWLYKDIF 342

Query: 323 NVLKK 327
           +VL K
Sbjct: 343 HVLTK 347

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145028|ref|XP_002325500.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222862375|gb|EEE99881.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  231 bits (588), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 131/267 (49%), Positives = 180/267 (67%), Gaps = 6/267 (2%)

Query: 65  RVSNKFLGWLVEQEQIR--TPNL-PEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERF 121
           R+  +FL  ++EQE +R  TP +    ++ER+R  KV  VLDDV+ V Q+E LI   + F
Sbjct: 42  RLREEFLSRVLEQENLRIDTPRMGSTLIKERIRHKKVFTVLDDVSDVEQVECLIERHDMF 101

Query: 122 GPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRI 181
           GPGSRI+VT+RDR+VL N     IY+V  L   EA +LF    FK NH P+D    S R 
Sbjct: 102 GPGSRILVTSRDRQVLKNVA-DEIYEVEELNCSEARQLFSLSVFKGNHIPKDYKGLSIRA 160

Query: 182 LDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLF 241
           ++YA GNPLA++VLGSFL  + K DWE+AL+ L+R     IY++LK+S++ +  EEK++F
Sbjct: 161 VNYAKGNPLALKVLGSFLFDQRKEDWENALNKLERNPQLKIYNMLKVSFDALGDEEKNIF 220

Query: 242 LDIACFFNGQDKDSVLKMIGDSSFA-HYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREI 300
           LDIACFF G+  D V +++    F+ + G+  L ++ L+T+S G +L+MHDLLQEM  EI
Sbjct: 221 LDIACFFKGKQIDYVKRILDGCGFSTNIGVFFLAERCLITISNG-KLEMHDLLQEMAFEI 279

Query: 301 VRQESIEQPGKRSRLWYYEDVYNVLKK 327
           VRQESI++ GKRSRLW   DV  VL K
Sbjct: 280 VRQESIKELGKRSRLWSPRDVNQVLTK 306

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

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	349
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.681	0.183	0.448	1e-48
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.759	0.231	0.413	4.7e-46
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.747	0.219	0.418	1.4e-45
TAIR|locus:2155189	980	AT5G49140 [Arabidopsis thalian	0.750	0.267	0.403	4.4e-44
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.744	0.288	0.395	9.1e-44
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.739	0.235	0.395	9.7e-44
TAIR|locus:2147992	1189	AT5G11250 [Arabidopsis thalian	0.742	0.217	0.376	4.7e-42
TAIR|locus:2039405	1109	AT2G16870 [Arabidopsis thalian	0.851	0.267	0.369	1.4e-41
TAIR|locus:2152252	986	AT5G38850 [Arabidopsis thalian	0.750	0.265	0.371	3.6e-41
TAIR|locus:2155347	1372	TTR1 "TOLERANT TO TOBACCO RING	0.647	0.164	0.417	4.4e-41

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 520 (188.1 bits), Expect = 1.0e-48, P = 1.0e-48
 Identities = 108/241 (44%), Positives = 162/241 (67%)

Query:    89 VRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV 148
             ++ER R   V IVLDDV++  QL  L+     FGPGSRIIVTTRDR +L + G+  +YKV
Sbjct:   281 IKERFRHKMVFIVLDDVDRSEQLNELVKETGWFGPGSRIIVTTRDRHLLLSHGINLVYKV 340

Query:   149 NGLKYREALELFCNCAFKENHC-PEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDW 207
               L  +EAL+LFCN AF+E    P      S + ++YA+G PLA+RVLGSFL ++S+++W
Sbjct:   341 KCLPKKEALQLFCNYAFREEIILPHGFEELSVQAVNYASGLPLALRVLGSFLYRRSQIEW 400

Query:   208 ESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFA- 266
             ES L  LK     DI +VL++SY+ +  +EK++FL I+CF+N +  D V K++    +A 
Sbjct:   401 ESTLARLKTYPHSDIMEVLRVSYDGLDEQEKAIFLYISCFYNMKQVDYVRKLLDLCGYAA 460

Query:   267 HYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVLK 326
               G+ +L +KSL+  S G  +++HDLL++MGRE+VRQ+++  P +R  LW  ED+ ++L 
Sbjct:   461 EIGITILTEKSLIVESNGC-VKIHDLLEQMGRELVRQQAVNNPAQRLLLWDPEDICHLLS 519

Query:   327 K 327
             +
Sbjct:   520 E 520

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 494 (179.0 bits), Expect = 4.7e-46, P = 4.7e-46
 Identities = 114/276 (41%), Positives = 175/276 (63%)

Query:    55 IRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE---YVRERLRRTKVLIVLDDV-NKVGQ 110
             I+E++  M+  + N  L  L+ +E+    N  +    +  RLR  KVLIVLDD+ NK   
Sbjct:   252 IKENKRGMHS-LQNALLSELL-REKANYNNEEDGKHQMASRLRSKKVLIVLDDIDNKDHY 309

Query:   111 LEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHC 170
             LEYL G L+ FG GSRII+TTRD+ +++   +  IY+V  L   E+++LF   AF +   
Sbjct:   310 LEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQHAFGKEVP 367

Query:   171 PEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISY 230
              E+    S  +++YA G PLA++V GS L      +W+SA++++K  S   I D LKISY
Sbjct:   368 NENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISY 427

Query:   231 NEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQLQM 289
             + ++ +++ +FLDIACF  G++KD +L+++      A YGL +L+DKSLV +S  NQ+QM
Sbjct:   428 DGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQM 487

Query:   290 HDLLQEMGREIVRQESIEQPGKRSRLWYYEDVYNVL 325
             HDL+Q+MG+ IV  +  + PG+RSRLW  ++V  V+
Sbjct:   488 HDLIQDMGKYIVNFQ--KDPGERSRLWLAKEVEEVM 521

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 490 (177.5 bits), Expect = 1.4e-45, P = 1.4e-45
 Identities = 110/263 (41%), Positives = 164/263 (62%)

Query:    66 VSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
             + ++ L  ++ +  I    L   V+ER R  +VL+V+DDV+ V QL       + FG GS
Sbjct:   262 LQHQLLSDILRRNDIEFKGLDHAVKERFRSKRVLLVVDDVDDVHQLNSAAIDRDCFGHGS 321

Query:   126 RIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYA 185
             RII+TTR+  +L        Y    L   E+LELF   AF+ +  P++ L HS+ ++ Y 
Sbjct:   322 RIIITTRNMHLLKQLRAEGSYSPKELDGDESLELFSWHAFRTSEPPKEFLQHSEEVVTYC 381

Query:   186 NGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIA 245
              G PLAV VLG+FL ++S  +WES L  LKRI + +I   L+IS+N +  E+K +FLDIA
Sbjct:   382 AGLPLAVEVLGAFLIERSIREWESTLKLLKRIPNDNIQAKLQISFNALTIEQKDVFLDIA 441

Query:   246 CFFNGQDKDSVLKMI-GDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQE 304
             CFF G D   V  ++ G + +    L++L+++ L+T+S GN + MHDLL++MGR+IVR+ 
Sbjct:   442 CFFIGVDSYYVACILDGCNLYPDIVLSLLMERCLITIS-GNNIMMHDLLRDMGRQIVREI 500

Query:   305 SIEQPGKRSRLWYYEDVYNVLKK 327
             S ++ G+RSRLW + DV  VLKK
Sbjct:   501 SPKKCGERSRLWSHNDVVGVLKK 523

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2155189 AT5G49140 [Arabidopsis thaliana (taxid:3702)]

 Score = 474 (171.9 bits), Expect = 4.4e-44, P = 4.4e-44
 Identities = 107/265 (40%), Positives = 163/265 (61%)

Query:    62 MNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERF 121
             +  R+  +FL  +  Q+  +  +L + + ERL++ KVLIVL DV+KV QLE L      F
Sbjct:   260 LQARLQKEFLPIIFNQKDRKINHLWK-IEERLKKQKVLIVLGDVDKVEQLEALANETRWF 318

Query:   122 GPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRI 181
             GPGSRIIVTT+D+++L    + +IY+V     + ALE+ C  AFK+N  P+D +     +
Sbjct:   319 GPGSRIIVTTKDKQILVGHEINHIYEVKLPCRKTALEILCLYAFKQNVAPDDFMDVVVEV 378

Query:   182 LDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLF 241
              + +   PL +RVLGS +R KSK  W+  L  L    D  +  +LKISY+++   +K+LF
Sbjct:   379 AELSGHLPLGLRVLGSHMRGKSKDRWKLELGRLTTSLDEKVEKILKISYDDLHIRDKALF 438

Query:   242 LDIACFFNGQDKDSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREI 300
             L IAC FNG++ D V +M+ +S      GL +L+DKSL+ ++   ++ MH LL +MG+E+
Sbjct:   439 LHIACMFNGENIDLVKQMLVNSDLDVSLGLQLLLDKSLIQINDDREIVMHSLLLKMGKEV 498

Query:   301 VRQESIEQPGKRSRLWYYEDVYNVL 325
             V Q S E PGKR  L+  ++  N+L
Sbjct:   499 VCQHSSE-PGKRQFLFNTKETCNIL 522

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)]

 Score = 470 (170.5 bits), Expect = 9.1e-44, P = 9.1e-44
 Identities = 104/263 (39%), Positives = 170/263 (64%)

Query:    65 RVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPG 124
             R+  +FL  +++ + ++  +L   V+ERL+  KVL+VLDDV+K+ QL+ L+   + FG G
Sbjct:   261 RLQEQFLSEVIDHKHMKIHDLG-LVKERLQDLKVLVVLDDVDKLEQLDALVKQSQWFGSG 319

Query:   125 SRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDY 184
             SRIIVTT ++++L   G+  IY++      ++L++FC  AF E+  P+  +  +  I   
Sbjct:   320 SRIIVTTENKQLLRAHGITCIYELGFPSRSDSLQIFCQYAFGESSAPDGCIELATEITKL 379

Query:   185 ANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDI 244
             A   PLA++VLGS LR  SK + +SAL  L+   + DI +VL++ Y+ I  ++K +FL I
Sbjct:   380 AGYLPLALKVLGSSLRGMSKDEQKSALPRLRTSLNEDIRNVLRVGYDGIHDKDKVIFLHI 439

Query:   245 ACFFNGQDKDSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQ-LQMHDLLQEMGREIVR 302
             AC FNG++ D V +++  S     +GL VL  +SL+ +SR N+ + MH+LL+++GREIV 
Sbjct:   440 ACLFNGENVDYVKQILASSGLDVTFGLQVLTSRSLIHISRCNRTITMHNLLEQLGREIVC 499

Query:   303 QESIEQPGKRSRLWYYEDVYNVL 325
             ++SI +PGKR  L    ++Y+VL
Sbjct:   500 EQSIAEPGKRQFLMDASEIYDVL 522

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136108 AT4G11170 [Arabidopsis thaliana (taxid:3702)]

 Score = 472 (171.2 bits), Expect = 9.7e-44, P = 9.7e-44
 Identities = 104/263 (39%), Positives = 166/263 (63%)

Query:    66 VSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
             +  +FL  L++Q+ +R  +L   + ERL+  KVLI+LDDV+ + QL+ L    + FG  S
Sbjct:   260 LQQRFLSKLLDQKDLRVRHLGA-IEERLKSQKVLIILDDVDNIEQLKALAKENQWFGNKS 318

Query:   126 RIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVH-SKRILDY 184
             RI+VTT+++++L +  + ++Y+V     +EAL +FC  AFK++  P D L H +      
Sbjct:   319 RIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQSS-PSDDLKHLAIEFTTL 377

Query:   185 ANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDI 244
             A   PLA+RVLGSF+R K K +WE +L  LK   D ++  VLK+ Y+ +   EK LFL I
Sbjct:   378 AGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVLKVGYDGLHDHEKDLFLHI 437

Query:   245 ACFFNGQDKDSVLKMI--GDSSFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVR 302
             AC F+GQ ++ + +MI   + ++  +GL VL DKSL+      +++MH LL+++G+E+VR
Sbjct:   438 ACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFENGRIEMHSLLRQLGKEVVR 497

Query:   303 QESIEQPGKRSRLWYYEDVYNVL 325
             ++SI +PGKR  L   ++   VL
Sbjct:   498 KQSIYEPGKRQFLMNAKETCGVL 520

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

TAIR|locus:2147992 AT5G11250 [Arabidopsis thaliana (taxid:3702)]

 Score = 457 (165.9 bits), Expect = 4.7e-42, P = 4.7e-42
 Identities = 99/263 (37%), Positives = 164/263 (62%)

Query:    65 RVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPG 124
             ++   F+  + +Q+ I  P+L    ++RL+  KVL+VLD VN+  QL+ +      FGPG
Sbjct:   312 QLQQMFMSQITKQKDIEIPHLG-VAQDRLKDKKVLVVLDGVNQSVQLDAMAKEAWWFGPG 370

Query:   125 SRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVH-SKRILD 183
             SRII+TT+D+++    G+ +IYKV+     EAL++FC  AF +N  P+D   + + ++++
Sbjct:   371 SRIIITTQDQKLFRAHGINHIYKVDFPPTEEALQIFCMYAFGQNS-PKDGFQNLAWKVIN 429

Query:   184 YANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLD 243
              A   PL +R++GS+ R  S+ +W+ +L  L+   D DI  +LK SY+ +  E+K+LFL 
Sbjct:   430 LAGNLPLGLRIMGSYFRGMSREEWKKSLPRLESSLDADIQSILKFSYDALDDEDKNLFLH 489

Query:   244 IACFFNGQDKDSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVR 302
             IACFFNG++   + + +          LNVL +KSL++ S    ++MH LL ++G EIVR
Sbjct:   490 IACFFNGKEIKILEEHLAKKFVEVRQRLNVLAEKSLISFSNWGTIEMHKLLAKLGGEIVR 549

Query:   303 QESIEQPGKRSRLWYYEDVYNVL 325
              +SI +PG+R  L+  E++ +VL
Sbjct:   550 NQSIHEPGQRQFLFDGEEICDVL 572

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2039405 AT2G16870 [Arabidopsis thaliana (taxid:3702)]

 Score = 452 (164.2 bits), Expect = 1.4e-41, P = 1.4e-41
 Identities = 115/311 (36%), Positives = 176/311 (56%)

Query:    22 IVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIR 81
             I +    L++F+     C  + L + SY     I E    +  R+    L  ++ Q+ +R
Sbjct:   222 IARALHSLLLFKKFQLTCFVDNL-RGSY--PIGIDEYG--LKLRLQEHLLSKILNQDGMR 276

Query:    82 TPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFG 141
               +L   V+ERL   KVLI+LDDVN V QLE L      FGPGSR+IVTT ++ +L   G
Sbjct:   277 ISHLGA-VKERLCDMKVLIILDDVNDVKQLEALANDTTWFGPGSRVIVTTENKEILQRHG 335

Query:   142 VGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGN-PLAVRVLGSFLR 200
             + N+Y V      +A+E+ C  AFK++  P     +  + + +  GN PL +RV+GS LR
Sbjct:   336 IDNMYHVGFPSDEKAMEILCGYAFKQSS-PRPGFNYLAQKVTWLCGNLPLGLRVVGSSLR 394

Query:   201 QKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMI 260
              K + +W+S +  L  I D DI DVL++ Y  +   E+SLFL IA FFN +D D V  M+
Sbjct:   395 GKKEDEWKSVIRRLDTIIDRDIEDVLRVGYESLHENEQSLFLHIAVFFNCKDVDLVKAML 454

Query:   261 GDSSF--AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYY 318
              D +   AH GL +LV+KSL+ +S   +++MH LLQ++GR+ + ++   +P KR  L   
Sbjct:   455 ADDNLDIAH-GLKILVNKSLIYISTTGEIRMHKLLQQVGRQAINRQ---EPWKRLILTNA 510

Query:   319 EDVYNVLKKTK 329
             +++  VL+  K
Sbjct:   511 QEICYVLENDK 521

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2152252 AT5G38850 [Arabidopsis thaliana (taxid:3702)]

 Score = 447 (162.4 bits), Expect = 3.6e-41, P = 3.6e-41
 Identities = 100/269 (37%), Positives = 161/269 (59%)

Query:    66 VSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
             +  + L  ++ Q+ +R  +L   +R+RL   KVLI+LDDVN +  L  L      FGPGS
Sbjct:   253 LQERLLSKIMNQKGMRIEHLGT-IRDRLHDQKVLIILDDVNDL-DLYALADQTTWFGPGS 310

Query:   126 RIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYA 185
             RIIVTT D  +L    + N+Y V+    +EALE+FC CAF+++  P+ +L  ++R+ +  
Sbjct:   311 RIIVTTEDNELLQKHDINNVYHVDFPSRKEALEIFCRCAFRQSSAPDTILKLAERVTELC 370

Query:   186 NGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIA 245
                PL + V+GS L  K++ +WE  +  L+   D D    L++ Y+ +   E++LFL IA
Sbjct:   371 GNLPLGLCVIGSSLHGKTEDEWEILIRRLEISLDRDNEAQLRVGYDSLHENEQALFLSIA 430

Query:   246 CFFNGQDKDSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQE 304
              FFN +D+  V+ M+ DS+    YGL  L +KSL+ +SR  ++ MH+LLQ +GR+ ++++
Sbjct:   431 VFFNYKDRQLVMAMLLDSNLDVEYGLRTLANKSLIHISRNEKIVMHNLLQHVGRQAIQRQ 490

Query:   305 SIEQPGKRSRLWYYEDVYNVLKK-TKVRI 332
                +P KR  L   +++ NVL+  T  RI
Sbjct:   491 ---EPWKRHILIDADEICNVLENDTDARI 516

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2155347 TTR1 "TOLERANT TO TOBACCO RINGSPOT NEPOVIRUS 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 449 (163.1 bits), Expect = 4.4e-41, P = 4.4e-41
 Identities = 96/230 (41%), Positives = 149/230 (64%)

Query:    89 VRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV 148
             +R+RL   +VL+VLDDV     +E  +GG + FGP S II+T++D+ V     V  IY+V
Sbjct:   234 LRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEV 293

Query:   149 NGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKL-DW 207
              GL  +EAL+LF  CA  ++   ++L   S +++ YANG+PLA+ + G  L  K +  + 
Sbjct:   294 QGLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEM 353

Query:   208 ESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMI-GDSSFA 266
             E A   LK        D +K SY+ +   EK++FLDIACFF G++ D V++++ G   F 
Sbjct:   354 EIAFLKLKECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFP 413

Query:   267 HYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLW 316
             H G++VLV+KSLVT+S  N+++MH+L+Q++GR+I+ +E+  Q  +RSRLW
Sbjct:   414 HVGIDVLVEKSLVTISE-NRVRMHNLIQDVGRQIINRET-RQTKRRSRLW 461

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006952 "defense response" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009615 "response to virus" evidence=IMP

GO:0009626 "plant-type hypersensitive response" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	349
PLN03210	1153	PLN03210, PLN03210, Resistant to P	8e-48
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-30

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score =  172 bits (438), Expect = 8e-48
 Identities = 100/270 (37%), Positives = 157/270 (58%), Gaps = 5/270 (1%)

Query: 62  MNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERF 121
           M   +   FL  +++++ I+  +L   + ERL+  KVLI +DD++    L+ L G  + F
Sbjct: 263 MKLHLQRAFLSEILDKKDIKIYHLGA-MEERLKHRKVLIFIDDLDDQDVLDALAGQTQWF 321

Query: 122 GPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRI 181
           G GSRIIV T+D+  L   G+ +IY+V       ALE+FC  AFK+N  P+  +  +  +
Sbjct: 322 GSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEV 381

Query: 182 LDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIK-AEEKSL 240
              A   PL + VLGS+LR + K DW   L  L+   D  I   L++SY+ +   ++K++
Sbjct: 382 ALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAI 441

Query: 241 FLDIACFFNGQDKDSVLKMIGDSSF-AHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGRE 299
           F  IAC FNG+  + +  ++ +S    + GL  LVDKSL+ V R + ++MH LLQEMG+E
Sbjct: 442 FRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHV-REDIVEMHSLLQEMGKE 500

Query: 300 IVRQESIEQPGKRSRLWYYEDVYNVLKKTK 329
           IVR +S  +PG+R  L   +D+ +VL+   
Sbjct: 501 IVRAQS-NEPGEREFLVDAKDICDVLEDNT 529

syringae 6; Provisional. Length = 1153

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score =  116 bits (293), Expect = 2e-30
 Identities = 54/175 (30%), Positives = 85/175 (48%), Gaps = 14/175 (8%)

Query: 89  VRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGN-IYK 147
           ++E L R + L+VLDDV +    + +         GSR+IVTTR   V    G  +  ++
Sbjct: 93  IKEALLRKRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHE 152

Query: 148 VNGLKYREALELFCNCAFKENHCP----EDLLVHSKRILDYANGNPLAVRVLGSFLRQKS 203
           V  L+  E+ ELF N  F++   P    E++    K I++   G PLA++VLG  L  KS
Sbjct: 153 VESLEPEESWELFSNKVFEKELPPCPELEEVA---KEIVEKCKGLPLALKVLGGLLAFKS 209

Query: 204 KLD-WESALDNL-----KRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQD 252
            +  WE  L+ L      R    ++  +L +SY+ +    K  FL +A F    +
Sbjct: 210 TVQEWEHVLEQLNNELAGRDGLNEVLSILSLSYDNLPMHLKRCFLYLALFPEDYN 264

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	349
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.57
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.08
COG3903	414	Predicted ATPase [General function prediction only	99.06
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.84
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.8
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.57
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.57
PF05729	166	NACHT: NACHT domain	98.55
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.24
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.19
COG3899	849	Predicted ATPase [General function prediction only	98.13
PRK06893	229	DNA replication initiation factor; Validated	97.9
PF13173	128	AAA_14: AAA domain	97.81
PRK13342	413	recombination factor protein RarA; Reviewed	97.76
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.68
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.66
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.62
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.55
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.54
PRK09087	226	hypothetical protein; Validated	97.44
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.41
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.39
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.26
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.22
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.21
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.17
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.08
PRK13341	725	recombination factor protein RarA/unknown domain f	97.05
PRK08727	233	hypothetical protein; Validated	97.04
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.0
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	96.99
PRK07940	394	DNA polymerase III subunit delta'; Validated	96.97
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.95
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	96.93
PF14516	331	AAA_35: AAA-like domain	96.92
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.92
PRK12402	337	replication factor C small subunit 2; Reviewed	96.91
PRK04195	482	replication factor C large subunit; Provisional	96.91
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.9
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	96.87
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.82
PRK08084	235	DNA replication initiation factor; Provisional	96.81
PRK06620	214	hypothetical protein; Validated	96.81
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	96.8
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	96.79
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.77
PLN03025	319	replication factor C subunit; Provisional	96.76
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.73
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.73
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.71
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	96.69
PRK05642	234	DNA replication initiation factor; Validated	96.64
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.58
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	96.5
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	96.46
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.41
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.39
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.35
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.34
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.33
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.31
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.29
cd01128	249	rho_factor Transcription termination factor rho is	96.25
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	96.23
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	96.2
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.16
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.15
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.12
PRK04132	846	replication factor C small subunit; Provisional	96.11
PRK06871	325	DNA polymerase III subunit delta'; Validated	96.04
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	95.97
PRK14088	440	dnaA chromosomal replication initiation protein; P	95.95
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	95.91
PRK03992	389	proteasome-activating nucleotidase; Provisional	95.88
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	95.87
PRK00149	450	dnaA chromosomal replication initiation protein; R	95.87
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	95.86
PRK09376	416	rho transcription termination factor Rho; Provisio	95.85
PRK12422	445	chromosomal replication initiation protein; Provis	95.83
PRK08769	319	DNA polymerase III subunit delta'; Validated	95.83
PHA02544	316	44 clamp loader, small subunit; Provisional	95.77
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	95.74
PRK06090	319	DNA polymerase III subunit delta'; Validated	95.7
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	95.66
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	95.57
PTZ00112	1164	origin recognition complex 1 protein; Provisional	95.51
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	95.51
CHL00181	287	cbbX CbbX; Provisional	95.24
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.2
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	95.2
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	95.19
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	95.16
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	95.12
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	95.08
PRK14086	617	dnaA chromosomal replication initiation protein; P	95.07
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	95.04
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	95.0
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	94.99
PRK08116	268	hypothetical protein; Validated	94.98
PRK06526	254	transposase; Provisional	94.9
PRK07993	334	DNA polymerase III subunit delta'; Validated	94.85
PRK06964	342	DNA polymerase III subunit delta'; Validated	94.78
KOG2028	554	consensus ATPase related to the helicase subunit o	94.75
PF00004	132	AAA: ATPase family associated with various cellula	94.58
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	94.56
PRK07399	314	DNA polymerase III subunit delta'; Validated	94.52
CHL00176	638	ftsH cell division protein; Validated	94.48
TIGR00767	415	rho transcription termination factor Rho. Members	94.47
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	94.31
PRK08699	325	DNA polymerase III subunit delta'; Validated	94.28
COG0593	408	DnaA ATPase involved in DNA replication initiation	94.18
PRK08181	269	transposase; Validated	94.14
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	94.14
PRK09183	259	transposase/IS protein; Provisional	93.72
CHL00195	489	ycf46 Ycf46; Provisional	93.39
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	93.26
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	93.14
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	92.83
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	92.8
PRK08058	329	DNA polymerase III subunit delta'; Validated	92.78
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	92.63
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	92.25
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	92.23
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	91.86
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	91.7
smart00382	148	AAA ATPases associated with a variety of cellular	91.31
CHL00095	821	clpC Clp protease ATP binding subunit	91.05
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	91.03
COG1484	254	DnaC DNA replication protein [DNA replication, rec	90.72
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	90.6
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	90.37
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	90.22
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	90.18
PRK07952	244	DNA replication protein DnaC; Validated	89.64
PRK12377	248	putative replication protein; Provisional	89.62
PRK08939	306	primosomal protein DnaI; Reviewed	89.58
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	89.54
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	89.38
PRK08118	167	topology modulation protein; Reviewed	89.33
PRK10865	857	protein disaggregation chaperone; Provisional	89.3
CHL00095	821	clpC Clp protease ATP binding subunit	88.96
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	88.78
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	88.72
PRK10865	857	protein disaggregation chaperone; Provisional	88.68
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	88.67
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	88.45
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	88.4
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	87.79
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	87.37
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	87.33
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	86.67
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	86.66
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	86.14
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	86.06
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	86.01
PRK06921	266	hypothetical protein; Provisional	85.75
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	85.48
PRK06835	329	DNA replication protein DnaC; Validated	85.47
PRK07276	290	DNA polymerase III subunit delta'; Validated	84.9
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	84.35
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	83.77
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	83.2
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	82.9
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	82.24
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	81.96
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	81.3
PRK00409	782	recombination and DNA strand exchange inhibitor pr	80.28

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.9e-46  Score=379.17  Aligned_cols=284  Identities=24%  Similarity=0.298  Sum_probs=238.0

Q ss_pred             hhcccCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccC-CCC---CCHHH
Q 045618           12 AELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQ-IRT---PNLPE   87 (349)
Q Consensus        12 ~~~~~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~-~~~---~~~~~   87 (349)
                      +.++..||||+||||||+..|+....  +     .+.|..+.||.+++..+...++.+|+..+..... ...   .....
T Consensus       180 ~iv~i~GMGGvGKTTL~~qi~N~~~~--v-----~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~  252 (889)
T KOG4658|consen  180 GIVGIYGMGGVGKTTLARQIFNKFDE--V-----GNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELAS  252 (889)
T ss_pred             CEEEEECCCcccHHHHHHHHhcccch--h-----cccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHH
Confidence            56778999999999999966543221  1     1222444445555555999999999998833222 222   12333


Q ss_pred             HHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcc-cCcccEEEcCCCChHhHHHHHHHhhcc
Q 045618           88 YVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDN-FGVGNIYKVNGLKYREALELFCNCAFK  166 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~  166 (349)
                      .+.+.|+++|+||||||||+..+|+.+...++...+||+|++|||++.++.. ++....++++.|+++|||+||++.++.
T Consensus       253 ~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~  332 (889)
T KOG4658|consen  253 KLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGP  332 (889)
T ss_pred             HHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcc
Confidence            9999999999999999999999999999999888889999999999999988 777789999999999999999999977


Q ss_pred             CC-CCChhHHHHHHHHHHHcCCCchHHHHHhHHhccC-CHHHHHHHHHHhhcC-----C--CCcHHHHHHHhHhcCChhH
Q 045618          167 EN-HCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQK-SKLDWESALDNLKRI-----S--DPDIYDVLKISYNEIKAEE  237 (349)
Q Consensus       167 ~~-~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~-~~~~~~~~l~~l~~~-----~--~~~l~~~l~~s~~~L~~~~  237 (349)
                      .. ...+..+++|++++++|+|+|||+.++|+.|+.+ +..+|..+.+.+...     +  ...+..++.+||+.||++.
T Consensus       333 ~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~l  412 (889)
T KOG4658|consen  333 NTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEEL  412 (889)
T ss_pred             ccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHH
Confidence            63 4445589999999999999999999999999985 678999999988665     1  3568899999999999889


Q ss_pred             HHHHHHhcccCCC--CCHHHHHHHhccc-c------------cHHHhHHHHhhCcceEEcCC----CeEEecHHHHHHHH
Q 045618          238 KSLFLDIACFFNG--QDKDSVLKMIGDS-S------------FAHYGLNVLVDKSLVTVSRG----NQLQMHDLLQEMGR  298 (349)
Q Consensus       238 ~~~f~~la~fp~~--~~~~~l~~~~~~~-~------------~~~~~l~~L~~~sLl~~~~~----~~~~mH~lv~~~a~  298 (349)
                      |.||+|||+||++  ++++.++.+|.++ +            .+..++++|++++|+.....    .++.|||+||++|.
T Consensus       413 K~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al  492 (889)
T KOG4658|consen  413 KSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMAL  492 (889)
T ss_pred             HHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHH
Confidence            9999999999999  9999999999998 3            45678999999999997642    56999999999999


Q ss_pred             HHHh
Q 045618          299 EIVR  302 (349)
Q Consensus       299 ~~~~  302 (349)
                      ++++
T Consensus       493 ~ias  496 (889)
T KOG4658|consen  493 WIAS  496 (889)
T ss_pred             HHhc
Confidence            9999

>PLN03210 Resistant to P

Probab=100.00  E-value=2.7e-44  Score=379.47  Aligned_cols=323  Identities=33%  Similarity=0.522  Sum_probs=267.5

Q ss_pred             HhhcccCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhh----------hccHHHHHHHHHHHhhcccCC
Q 045618           11 LAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESR----------SIMNQRVSNKFLGWLVEQEQI   80 (349)
Q Consensus        11 ~~~~~~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~----------~~~~~~l~~~il~~l~~~~~~   80 (349)
                      .+..+..||||+||||||+..|....- .+....|..    ..++....          ......++++++.++.+....
T Consensus       207 ~~vvgI~G~gGiGKTTLA~~l~~~l~~-~F~g~vfv~----~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~  281 (1153)
T PLN03210        207 VRMVGIWGSSGIGKTTIARALFSRLSR-QFQSSVFID----RAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDI  281 (1153)
T ss_pred             eEEEEEEcCCCCchHHHHHHHHHHHhh-cCCeEEEee----ccccccchhhcccccccccchhHHHHHHHHHHHhCCCCc
Confidence            345678899999999999977654221 111111110    00111110          112345677778777655444


Q ss_pred             CCCCHHHHHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcccCcccEEEcCCCChHhHHHHH
Q 045618           81 RTPNLPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYREALELF  160 (349)
Q Consensus        81 ~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~~~~~~~l~~L~~~ea~~L~  160 (349)
                      ..... ..+++.|.++|+||||||||+..+|+.+.....+.++|++||||||++.++...+...+|+++.|+.++|++||
T Consensus       282 ~~~~~-~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF  360 (1153)
T PLN03210        282 KIYHL-GAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMF  360 (1153)
T ss_pred             ccCCH-HHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHH
Confidence            44333 46889999999999999999999999998877777899999999999999877767789999999999999999


Q ss_pred             HHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhhcCCCCcHHHHHHHhHhcCCh-hHHH
Q 045618          161 CNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKA-EEKS  239 (349)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~~~~~~~l~~~l~~s~~~L~~-~~~~  239 (349)
                      ++.||+...++..+.+++++|+++|+|+||||+++|++|++++..+|+++++++++..+..+..+|++||+.|++ ..|.
T Consensus       361 ~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~  440 (1153)
T PLN03210        361 CRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKA  440 (1153)
T ss_pred             HHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhh
Confidence            999998877777889999999999999999999999999999999999999999988888899999999999986 5899


Q ss_pred             HHHHhcccCCCCCHHHHHHHhccc-ccHHHhHHHHhhCcceEEcCCCeEEecHHHHHHHHHHHhhhcCCCCCCeeeeccc
Q 045618          240 LFLDIACFFNGQDKDSVLKMIGDS-SFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVRQESIEQPGKRSRLWYY  318 (349)
Q Consensus       240 ~f~~la~fp~~~~~~~l~~~~~~~-~~~~~~l~~L~~~sLl~~~~~~~~~mH~lv~~~a~~~~~~e~~~~~~~~~rl~~~  318 (349)
                      ||+++|+|+++.+.+.+..++... ..++..++.|+++||++.. .++|.||||+|++|++++++++ ..|++|+|+|..
T Consensus       441 ~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~-~~~~~r~~l~~~  518 (1153)
T PLN03210        441 IFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDA  518 (1153)
T ss_pred             hhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhhHHHHHHHHHHHhhc-CCCCcceeEeCH
Confidence            999999999998888877777666 7788889999999999987 6789999999999999999987 689999999999


Q ss_pred             hhHHHHHhcccccceEEeeeeec
Q 045618          319 EDVYNVLKKTKVRIYLAFVATVI  341 (349)
Q Consensus       319 ~d~~~~~~~~~~~~~~~~~~~~~  341 (349)
                      +|+++++.+++|++.+.++....
T Consensus       519 ~di~~vl~~~~g~~~v~~i~l~~  541 (1153)
T PLN03210        519 KDICDVLEDNTGTKKVLGITLDI  541 (1153)
T ss_pred             HHHHHHHHhCcccceeeEEEecc
Confidence            99999999999988888776543

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=100.00  E-value=8.2e-38  Score=284.41  Aligned_cols=245  Identities=29%  Similarity=0.416  Sum_probs=181.6

Q ss_pred             HHhhcccCCCCCchhhHHHHHHhhh-hcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccC-C-CCCCHH
Q 045618           10 LLAELNRATSCGIVKIRRCLMVFRL-CSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQ-I-RTPNLP   86 (349)
Q Consensus        10 ~~~~~~~~~~gGiGKT~la~~~f~~-~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~-~-~~~~~~   86 (349)
                      ....+...||||+|||+||..++.. ....++..         ..|+......+...++.+|+..+..... . ...+..
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~---------v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~   88 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDG---------VIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIE   88 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTE---------EEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHH
T ss_pred             CeEEEEEEcCCcCCcceeeeeccccccccccccc---------ccccccccccccccccccccccccccccccccccccc
Confidence            3444557889999999999976633 11122222         2345555555668888999999854422 1 223333


Q ss_pred             ---HHHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcccCc-ccEEEcCCCChHhHHHHHHH
Q 045618           87 ---EYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGV-GNIYKVNGLKYREALELFCN  162 (349)
Q Consensus        87 ---~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~~-~~~~~l~~L~~~ea~~L~~~  162 (349)
                         ..+++.|.++++||||||||+...|+.+...++....+++||||||++.++...+. ...+++++|+.+||++||.+
T Consensus        89 ~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~  168 (287)
T PF00931_consen   89 ELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKK  168 (287)
T ss_dssp             HHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHH
T ss_pred             cccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               38999999999999999999999998888777666779999999999988876643 67899999999999999999


Q ss_pred             hhccCC-CCChhHHHHHHHHHHHcCCCchHHHHHhHHhcc-CCHHHHHHHHHHhhcCC------CCcHHHHHHHhHhcCC
Q 045618          163 CAFKEN-HCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQ-KSKLDWESALDNLKRIS------DPDIYDVLKISYNEIK  234 (349)
Q Consensus       163 ~a~~~~-~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~-~~~~~~~~~l~~l~~~~------~~~l~~~l~~s~~~L~  234 (349)
                      .++... ...+...+.+.+|++.|+|+||||+++|++|+. .+..+|..+++++....      ...+..++.+||+.|+
T Consensus       169 ~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~s~~~L~  248 (287)
T PF00931_consen  169 RAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSALELSYDSLP  248 (287)
T ss_dssp             HHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHHHHHHHSSH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceechhcCC
Confidence            987655 334445677899999999999999999999965 25688999988876552      3569999999999999


Q ss_pred             hhHHHHHHHhcccCCC--CCHHHHHHHhccc
Q 045618          235 AEEKSLFLDIACFFNG--QDKDSVLKMIGDS  263 (349)
Q Consensus       235 ~~~~~~f~~la~fp~~--~~~~~l~~~~~~~  263 (349)
                      ++.|+||.+||+||.+  ++.+.++.+|.++
T Consensus       249 ~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e  279 (287)
T PF00931_consen  249 DELRRCFLYLSIFPEGVPIPRERLIRLWVAE  279 (287)
T ss_dssp             TCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-
T ss_pred             ccHHHHHhhCcCCCCCceECHHHHHHHHHHC
Confidence            9999999999999998  8899999999997

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.57  E-value=3.2e-13  Score=141.56  Aligned_cols=203  Identities=16%  Similarity=0.220  Sum_probs=136.0

Q ss_pred             CCceEEEEecCCCch--hHHHHH-cccCCCCCCcEEEEEeCcchhhcc--c-CcccEEEcC----CCChHhHHHHHHHhh
Q 045618           95 RTKVLIVLDDVNKVG--QLEYLI-GGLERFGPGSRIIVTTRDRRVLDN--F-GVGNIYKVN----GLKYREALELFCNCA  164 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~--~~~~l~-~~~~~~~~~~~IlvTTR~~~~~~~--~-~~~~~~~l~----~L~~~ea~~L~~~~a  164 (349)
                      +.+++|||||++...  .+..++ ..+....++.++|||||...-...  + ......++.    +|+.+|+.++|....
T Consensus       120 ~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~  199 (903)
T PRK04841        120 HQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRL  199 (903)
T ss_pred             CCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhcc
Confidence            678999999998542  222222 222223467789899998532211  1 112245555    899999999998765


Q ss_pred             ccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhhcCCCCcHHHHHHHh-HhcCChhHHHHHHH
Q 045618          165 FKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKIS-YNEIKAEEKSLFLD  243 (349)
Q Consensus       165 ~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~~~~~~~l~~~l~~s-~~~L~~~~~~~f~~  243 (349)
                      +.. .    ..+.+.+|.+.|+|+|+++..++..++..+. ........+...+...+...+.-. ++.||++.++++..
T Consensus       200 ~~~-~----~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~  273 (903)
T PRK04841        200 SSP-I----EAAESSRLCDDVEGWATALQLIALSARQNNS-SLHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLR  273 (903)
T ss_pred             CCC-C----CHHHHHHHHHHhCChHHHHHHHHHHHhhCCC-chhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHH
Confidence            221 1    2345678999999999999999987754321 011122222221233455554444 78999999999999


Q ss_pred             hcccCCCCCHHHHHHHhcccccHHHhHHHHhhCcceEEc-C--CCeEEecHHHHHHHHHHHhhhc
Q 045618          244 IACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVS-R--GNQLQMHDLLQEMGREIVRQES  305 (349)
Q Consensus       244 la~fp~~~~~~~l~~~~~~~~~~~~~l~~L~~~sLl~~~-~--~~~~~mH~lv~~~a~~~~~~e~  305 (349)
                      +|+++ .++.+.+..+... ......++.|.+.+|+... +  ..+|+.|++++++.+.....+.
T Consensus       274 ~a~~~-~~~~~l~~~l~~~-~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~~~~  336 (903)
T PRK04841        274 CSVLR-SMNDALIVRVTGE-ENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQWEL  336 (903)
T ss_pred             hcccc-cCCHHHHHHHcCC-CcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHHhcC
Confidence            99986 7887777766654 3567889999999997642 2  3479999999999999886553

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.08  E-value=5e-09  Score=103.54  Aligned_cols=199  Identities=17%  Similarity=0.233  Sum_probs=129.9

Q ss_pred             CceEEEEecCCCc---hh---HHHHHcccCCCCCCcEEEEEeCcchhhcccC---cccEEEcC----CCChHhHHHHHHH
Q 045618           96 TKVLIVLDDVNKV---GQ---LEYLIGGLERFGPGSRIIVTTRDRRVLDNFG---VGNIYKVN----GLKYREALELFCN  162 (349)
Q Consensus        96 ~~~LlVlDdv~~~---~~---~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~---~~~~~~l~----~L~~~ea~~L~~~  162 (349)
                      ++..+||||.+-.   ..   ++.|+..   ..++-.++||||+..-.....   ....++++    .++.+|+.++|..
T Consensus       129 ~pl~LVlDDyHli~~~~l~~~l~fLl~~---~P~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~  205 (894)
T COG2909         129 GPLYLVLDDYHLISDPALHEALRFLLKH---APENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLND  205 (894)
T ss_pred             CceEEEeccccccCcccHHHHHHHHHHh---CCCCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHH
Confidence            5789999999733   22   3444333   356889999999985332211   11233333    3889999999987


Q ss_pred             hhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhcc-CCHHHHHHHHHHhhcCCCCcHHH-HHHHhHhcCChhHHHH
Q 045618          163 CAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQ-KSKLDWESALDNLKRISDPDIYD-VLKISYNEIKAEEKSL  240 (349)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~-~~~~~~~~~l~~l~~~~~~~l~~-~l~~s~~~L~~~~~~~  240 (349)
                      .. +..    -....+..|.+..+|.+-|+.+++=.+++ .+...-..   .+... ...+.. ..+--++.||++.|..
T Consensus       206 ~~-~l~----Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~---~LsG~-~~~l~dYL~eeVld~Lp~~l~~F  276 (894)
T COG2909         206 RG-SLP----LDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLR---GLSGA-ASHLSDYLVEEVLDRLPPELRDF  276 (894)
T ss_pred             cC-CCC----CChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhh---hccch-HHHHHHHHHHHHHhcCCHHHHHH
Confidence            64 111    12345778999999999999999998884 23322221   11111 011111 1223478999999999


Q ss_pred             HHHhcccCCCCCHHHHHHHhcccccHHHhHHHHhhCcceEEc---CCCeEEecHHHHHHHHHHHhhhcCCC
Q 045618          241 FLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVS---RGNQLQMHDLLQEMGREIVRQESIEQ  308 (349)
Q Consensus       241 f~~la~fp~~~~~~~l~~~~~~~~~~~~~l~~L~~~sLl~~~---~~~~~~mH~lv~~~a~~~~~~e~~~~  308 (349)
                      ++-+|+++. +.-+-..++.+. ..+...+++|.+++|.-..   ++++|+.|.+..+|.+.....+.+..
T Consensus       277 Ll~~svl~~-f~~eL~~~Ltg~-~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~~~~~  345 (894)
T COG2909         277 LLQTSVLSR-FNDELCNALTGE-ENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRELAAR  345 (894)
T ss_pred             HHHHHhHHH-hhHHHHHHHhcC-CcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhccccCCc
Confidence            999998733 333333333333 4667789999999998843   26789999999999999988875443

>COG3903 Predicted ATPase [General function prediction only]

Probab=99.06  E-value=1.3e-10  Score=106.35  Aligned_cols=281  Identities=20%  Similarity=0.182  Sum_probs=182.6

Q ss_pred             HhhcccCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHHHHH
Q 045618           11 LAELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVR   90 (349)
Q Consensus        11 ~~~~~~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~l~   90 (349)
                      .+.+-..++||||||+++..+-...      ..|    .....+++...-.+.. +.--++....+.....-++.-..+.
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~~~------~~~----~~~v~~vdl~pitD~~-~v~~~~ag~~gl~~~~g~~~~~~~~   82 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAHAA------SEY----ADGVAFVDLAPITDPA-LVFPTLAGALGLHVQPGDSAVDTLV   82 (414)
T ss_pred             hheeeeeccCccceehhhhhhHhHh------hhc----ccceeeeeccccCchh-HhHHHHHhhcccccccchHHHHHHH
Confidence            3344466779999999987443210      011    0011122222222332 3333333323434433333444688


Q ss_pred             HHhCCCceEEEEecCCCch-hHHHHHcccCCCCCCcEEEEEeCcchhhcccCcccEEEcCCCChH-hHHHHHHHhhccCC
Q 045618           91 ERLRRTKVLIVLDDVNKVG-QLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKVNGLKYR-EALELFCNCAFKEN  168 (349)
Q Consensus        91 ~~L~~~~~LlVlDdv~~~~-~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~~~~~~~l~~L~~~-ea~~L~~~~a~~~~  168 (349)
                      ....+++.++|+||+.+.. ....+...+...++.-.|+.|+|+....   ..+..+.+++|+.. ++.++|...+....
T Consensus        83 ~~~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~  159 (414)
T COG3903          83 RRIGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVA  159 (414)
T ss_pred             HHHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhc
Confidence            8889999999999998764 3444444554446777899999987432   24557888888875 78899887663322


Q ss_pred             ---CCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHH----hhcC------CCCcHHHHHHHhHhcCCh
Q 045618          169 ---HCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDN----LKRI------SDPDIYDVLKISYNEIKA  235 (349)
Q Consensus       169 ---~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~----l~~~------~~~~l~~~l~~s~~~L~~  235 (349)
                         ...........+|+++..|.|++|..+++..+.....+....++.    +...      ........+.+||.-|+.
T Consensus       160 ~~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtg  239 (414)
T COG3903         160 LSFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTG  239 (414)
T ss_pred             cceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhh
Confidence               223344677889999999999999999999988655555444432    2222      235678899999999999


Q ss_pred             hHHHHHHHhcccCCCCCHHHHHHH-hcc----c-ccHHHhHHHHhhCcceEEcC---CCeEEecHHHHHHHHHHHhhhc
Q 045618          236 EEKSLFLDIACFFNGQDKDSVLKM-IGD----S-SFAHYGLNVLVDKSLVTVSR---GNQLQMHDLLQEMGREIVRQES  305 (349)
Q Consensus       236 ~~~~~f~~la~fp~~~~~~~l~~~-~~~----~-~~~~~~l~~L~~~sLl~~~~---~~~~~mH~lv~~~a~~~~~~e~  305 (349)
                      -.+-.|..++.|...|+.+..... ..+    + +.....+-.|+++|++....   .-.|+.-+-+|.|+....++..
T Consensus       240 we~~~~~rLa~~~g~f~~~l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~~  318 (414)
T COG3903         240 WERALFGRLAVFVGGFDLGLALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRSG  318 (414)
T ss_pred             HHHHHhcchhhhhhhhcccHHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999999999888777632222 111    2 34556678999999998664   2348888888988888777654

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.84  E-value=1.5e-07  Score=86.36  Aligned_cols=184  Identities=14%  Similarity=0.102  Sum_probs=113.7

Q ss_pred             HHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhccc--CcccEEEcCCCChHhHHHHHHHhhc
Q 045618           88 YVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNF--GVGNIYKVNGLKYREALELFCNCAF  165 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~a~  165 (349)
                      .++..+.+.+..+|+++..+...+....      .+.+-|..||+...+...+  .....+.+++++.++..+++.+.+.
T Consensus       100 ~l~~~~~~~~~~~v~~~~~~~~~~~~~~------~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~  173 (305)
T TIGR00635       100 LLYPAMEDFRLDIVIGKGPSARSVRLDL------PPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAG  173 (305)
T ss_pred             HhhHHHhhhheeeeeccCccccceeecC------CCeEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHH
Confidence            4555555555556666554443332211      2245566677765443322  1234688999999999999998875


Q ss_pred             cCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhhcC-CC----CcHHHHHHHhHhcCChhHHHH
Q 045618          166 KENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRI-SD----PDIYDVLKISYNEIKAEEKSL  240 (349)
Q Consensus       166 ~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~~~-~~----~~l~~~l~~s~~~L~~~~~~~  240 (349)
                      .....  -.++.+..|++.|+|.|-.+..+...+.       ... ...... ..    ......+...|..++...+..
T Consensus       174 ~~~~~--~~~~al~~ia~~~~G~pR~~~~ll~~~~-------~~a-~~~~~~~it~~~v~~~l~~l~~~~~~l~~~~~~~  243 (305)
T TIGR00635       174 LLNVE--IEPEAALEIARRSRGTPRIANRLLRRVR-------DFA-QVRGQKIINRDIALKALEMLMIDELGLDEIDRKL  243 (305)
T ss_pred             HhCCC--cCHHHHHHHHHHhCCCcchHHHHHHHHH-------HHH-HHcCCCCcCHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            43322  2245678899999999976654444321       100 000000 00    011222455678888888777


Q ss_pred             HH-HhcccCCC-CCHHHHHHHhccc-ccHHHhHH-HHhhCcceEEcCCCeE
Q 045618          241 FL-DIACFFNG-QDKDSVLKMIGDS-SFAHYGLN-VLVDKSLVTVSRGNQL  287 (349)
Q Consensus       241 f~-~la~fp~~-~~~~~l~~~~~~~-~~~~~~l~-~L~~~sLl~~~~~~~~  287 (349)
                      +. .++.+.++ +..+.+...++.. ...+..++ .|++++||.....|++
T Consensus       244 L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g~~  294 (305)
T TIGR00635       244 LSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGRI  294 (305)
T ss_pred             HHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCchhh
Confidence            76 55777665 8889999999888 78888889 6999999987655554

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.80  E-value=6.3e-08  Score=89.71  Aligned_cols=154  Identities=14%  Similarity=0.099  Sum_probs=100.4

Q ss_pred             CcEEEEEeCcchhhccc--CcccEEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhcc
Q 045618          124 GSRIIVTTRDRRVLDNF--GVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQ  201 (349)
Q Consensus       124 ~~~IlvTTR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~  201 (349)
                      .+-|..||+...+...+  .....+++++++.++..+++.+.+.......  .++.+..|++.|+|.|-.+..+...+. 
T Consensus       151 ~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~--~~~~~~~ia~~~~G~pR~a~~~l~~~~-  227 (328)
T PRK00080        151 FTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEI--DEEGALEIARRSRGTPRIANRLLRRVR-  227 (328)
T ss_pred             ceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCc--CHHHHHHHHHHcCCCchHHHHHHHHHH-
Confidence            34566666655443322  1234689999999999999998875443222  245688999999999954444443221 


Q ss_pred             CCHHHHHHHHHHhhcCCC----CcHHHHHHHhHhcCChhHHHHHH-HhcccCCC-CCHHHHHHHhccc-ccHHHhHH-HH
Q 045618          202 KSKLDWESALDNLKRISD----PDIYDVLKISYNEIKAEEKSLFL-DIACFFNG-QDKDSVLKMIGDS-SFAHYGLN-VL  273 (349)
Q Consensus       202 ~~~~~~~~~l~~l~~~~~----~~l~~~l~~s~~~L~~~~~~~f~-~la~fp~~-~~~~~l~~~~~~~-~~~~~~l~-~L  273 (349)
                          .|.....  .....    ......+...+..|++..+..+. .+..|+++ +..+.+...++.. ...+..++ .|
T Consensus       228 ----~~a~~~~--~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~L  301 (328)
T PRK00080        228 ----DFAQVKG--DGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYL  301 (328)
T ss_pred             ----HHHHHcC--CCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHH
Confidence                1211100  00000    11223345567788888888876 66777766 8999999999988 78888888 99


Q ss_pred             hhCcceEEcCCCe
Q 045618          274 VDKSLVTVSRGNQ  286 (349)
Q Consensus       274 ~~~sLl~~~~~~~  286 (349)
                      ++.+|++....|+
T Consensus       302 i~~~li~~~~~gr  314 (328)
T PRK00080        302 IQQGFIQRTPRGR  314 (328)
T ss_pred             HHcCCcccCCchH
Confidence            9999998665554

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

Probab=98.57  E-value=4.1e-06  Score=75.32  Aligned_cols=170  Identities=12%  Similarity=0.064  Sum_probs=95.6

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHH---HHHHH-
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLP---EYVRE-   91 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~---~~l~~-   91 (349)
                      ..|+.|.||||+++..+....-    ..+.     . ..+ .....+..++...|+..+ |.+... .+..   ..+.. 
T Consensus        48 l~G~~G~GKTtl~~~l~~~l~~----~~~~-----~-~~~-~~~~~~~~~~l~~i~~~l-G~~~~~-~~~~~~~~~l~~~  114 (269)
T TIGR03015        48 ITGEVGAGKTTLIRNLLKRLDQ----ERVV-----A-AKL-VNTRVDAEDLLRMVAADF-GLETEG-RDKAALLRELEDF  114 (269)
T ss_pred             EEcCCCCCHHHHHHHHHHhcCC----CCeE-----E-eee-eCCCCCHHHHHHHHHHHc-CCCCCC-CCHHHHHHHHHHH
Confidence            5778999999999966543110    0000     0 000 111224556677777665 322211 1111   12222 


Q ss_pred             ----HhCCCceEEEEecCCCch--hHHHHH---cccCCCCCCcEEEEEeCcchhhccc----------CcccEEEcCCCC
Q 045618           92 ----RLRRTKVLIVLDDVNKVG--QLEYLI---GGLERFGPGSRIIVTTRDRRVLDNF----------GVGNIYKVNGLK  152 (349)
Q Consensus        92 ----~L~~~~~LlVlDdv~~~~--~~~~l~---~~~~~~~~~~~IlvTTR~~~~~~~~----------~~~~~~~l~~L~  152 (349)
                          ...+++.+||+|+++...  .++.+.   ...........|++|.... ....+          .....+++++++
T Consensus       115 l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~  193 (269)
T TIGR03015       115 LIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLD  193 (269)
T ss_pred             HHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCC
Confidence                236788999999998653  344432   2111112233455555432 11111          113367899999


Q ss_pred             hHhHHHHHHHhhccCCC--CChhHHHHHHHHHHHcCCCchHHHHHhHHh
Q 045618          153 YREALELFCNCAFKENH--CPEDLLVHSKRILDYANGNPLAVRVLGSFL  199 (349)
Q Consensus       153 ~~ea~~L~~~~a~~~~~--~~~~~~~~~~~i~~~c~glPLAl~~~a~~l  199 (349)
                      .+|..+++...+.....  ...-..+....|.+.++|.|..|..++..+
T Consensus       194 ~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       194 REETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            99999988876633221  111234778899999999999999988776

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.57  E-value=2.3e-05  Score=74.55  Aligned_cols=252  Identities=14%  Similarity=0.048  Sum_probs=136.0

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCC-CCHH---HHHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRT-PNLP---EYVRE   91 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~-~~~~---~~l~~   91 (349)
                      ..|+.|+|||++++.+++...-..  ..+      .+..+......+...+...++.++.+...+.. .+..   +.+.+
T Consensus        60 I~G~~GtGKT~l~~~v~~~l~~~~--~~~------~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~  131 (394)
T PRK00411         60 IYGPPGTGKTTTVKKVFEELEEIA--VKV------VYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAE  131 (394)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhc--CCc------EEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Confidence            567789999999997765321000  000      11112222223566778888888754222211 1222   35555


Q ss_pred             HhC--CCceEEEEecCCCch------hHHHHHcccCCC-CCCcEEEEEeCcchhhcccC-------cccEEEcCCCChHh
Q 045618           92 RLR--RTKVLIVLDDVNKVG------QLEYLIGGLERF-GPGSRIIVTTRDRRVLDNFG-------VGNIYKVNGLKYRE  155 (349)
Q Consensus        92 ~L~--~~~~LlVlDdv~~~~------~~~~l~~~~~~~-~~~~~IlvTTR~~~~~~~~~-------~~~~~~l~~L~~~e  155 (349)
                      .+.  ++..+||||+++...      .+..+...+... +.+..+|.++........+.       ....+.+++++.++
T Consensus       132 ~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e  211 (394)
T PRK00411        132 YLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADE  211 (394)
T ss_pred             HHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHH
Confidence            655  356899999998632      344443322211 11333666666554322211       12468899999999


Q ss_pred             HHHHHHHhhccC---C-CCChhHHHHHHHHHHHcCCCchHHHHHhHHhc-----c---CCHHHHHHHHHHhhcCCCCcHH
Q 045618          156 ALELFCNCAFKE---N-HCPEDLLVHSKRILDYANGNPLAVRVLGSFLR-----Q---KSKLDWESALDNLKRISDPDIY  223 (349)
Q Consensus       156 a~~L~~~~a~~~---~-~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~-----~---~~~~~~~~~l~~l~~~~~~~l~  223 (349)
                      ..+++...+...   . ......+.+++......|..+.|+.++-....     +   -+...+..+++..       -.
T Consensus       212 ~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~-------~~  284 (394)
T PRK00411        212 IFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS-------EI  284 (394)
T ss_pred             HHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH-------HH
Confidence            999998776321   1 11222222222222224567777776643221     1   1345555555544       12


Q ss_pred             HHHHHhHhcCChhHHHHHHHhcccC----CCCCHHHHHHH-------hccc----ccHHHhHHHHhhCcceEEc
Q 045618          224 DVLKISYNEIKAEEKSLFLDIACFF----NGQDKDSVLKM-------IGDS----SFAHYGLNVLVDKSLVTVS  282 (349)
Q Consensus       224 ~~l~~s~~~L~~~~~~~f~~la~fp----~~~~~~~l~~~-------~~~~----~~~~~~l~~L~~~sLl~~~  282 (349)
                      ....-.+..||.+.+..+..++-..    ..+....+...       ....    .....+++.|...+||...
T Consensus       285 ~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        285 VHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHhcCCeEEE
Confidence            3344568899998887776665332    23555555432       2221    2345679999999999954

>PF05729 NACHT: NACHT domain

Probab=98.55  E-value=3.7e-07  Score=75.42  Aligned_cols=71  Identities=20%  Similarity=0.390  Sum_probs=49.8

Q ss_pred             CCCceEEEEecCCCchh---------HHHHHcccCC--CCCCcEEEEEeCcchh---hcccCcccEEEcCCCChHhHHHH
Q 045618           94 RRTKVLIVLDDVNKVGQ---------LEYLIGGLER--FGPGSRIIVTTRDRRV---LDNFGVGNIYKVNGLKYREALEL  159 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~~---------~~~l~~~~~~--~~~~~~IlvTTR~~~~---~~~~~~~~~~~l~~L~~~ea~~L  159 (349)
                      ..++++||+|++++...         +..++..+..  ..++++++||+|....   .........+++.+|++++..++
T Consensus        79 ~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  158 (166)
T PF05729_consen   79 KNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQY  158 (166)
T ss_pred             cCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHH
Confidence            56899999999975432         2222222221  2468999999998766   23334446899999999999999


Q ss_pred             HHHhh
Q 045618          160 FCNCA  164 (349)
Q Consensus       160 ~~~~a  164 (349)
                      +.+..
T Consensus       159 ~~~~f  163 (166)
T PF05729_consen  159 LRKYF  163 (166)
T ss_pred             HHHHh
Confidence            97764

>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=98.24  E-value=9.2e-06  Score=70.95  Aligned_cols=97  Identities=21%  Similarity=0.232  Sum_probs=51.6

Q ss_pred             CceEEEEecCCCch-----------hHHHHHcccCCCCCCcEEEEEeCcchhhcc--------cCcccEEEcCCCChHhH
Q 045618           96 TKVLIVLDDVNKVG-----------QLEYLIGGLERFGPGSRIIVTTRDRRVLDN--------FGVGNIYKVNGLKYREA  156 (349)
Q Consensus        96 ~~~LlVlDdv~~~~-----------~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~--------~~~~~~~~l~~L~~~ea  156 (349)
                      ++++||+|++....           .+..+...... .....+++++........        .+....+.+++++.+++
T Consensus       118 ~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~  196 (234)
T PF01637_consen  118 KKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS-QQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEA  196 (234)
T ss_dssp             CCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-----TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHH
T ss_pred             CcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc-cCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHH
Confidence            45999999997544           12222222222 233445555544433322        22334599999999999


Q ss_pred             HHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHH
Q 045618          157 LELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       157 ~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      .+++....-.. ...+.......+|...+||+|..|..
T Consensus       197 ~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  197 REFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             HHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            99999865332 11112356678999999999988754

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.19  E-value=0.0008  Score=63.29  Aligned_cols=256  Identities=15%  Similarity=0.065  Sum_probs=130.6

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhh--cccCCCC-CCHH---HHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLV--EQEQIRT-PNLP---EYV   89 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~--~~~~~~~-~~~~---~~l   89 (349)
                      ..|+.|+|||++++..+....-..-....+    ..+..+.-....+...+...|+.++.  +...+.. .+..   +.+
T Consensus        45 I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~----~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l  120 (365)
T TIGR02928        45 IYGKTGTGKTAVTKYVMKELEEAAEDRDVR----VVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRL  120 (365)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHHhhccCCc----eEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHH
Confidence            467789999999986654321000000000    01111222222345667777887774  2221111 1222   245


Q ss_pred             HHHhC--CCceEEEEecCCCch-----hHHHHHcc--cCC-CCCCcEEEEEeCcchhhcccC-------cccEEEcCCCC
Q 045618           90 RERLR--RTKVLIVLDDVNKVG-----QLEYLIGG--LER-FGPGSRIIVTTRDRRVLDNFG-------VGNIYKVNGLK  152 (349)
Q Consensus        90 ~~~L~--~~~~LlVlDdv~~~~-----~~~~l~~~--~~~-~~~~~~IlvTTR~~~~~~~~~-------~~~~~~l~~L~  152 (349)
                      .+.+.  +++++||||+++...     .+..+...  ... .+....+|.+|........+.       ....+.++|++
T Consensus       121 ~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~  200 (365)
T TIGR02928       121 YKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYD  200 (365)
T ss_pred             HHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCC
Confidence            55553  467899999998651     12333222  111 113345555665443221111       12468899999


Q ss_pred             hHhHHHHHHHhhcc---CCCCChhHHHHHHHHHHHcCCCch-HHHHHhHHh----c-c---CCHHHHHHHHHHhhcCCCC
Q 045618          153 YREALELFCNCAFK---ENHCPEDLLVHSKRILDYANGNPL-AVRVLGSFL----R-Q---KSKLDWESALDNLKRISDP  220 (349)
Q Consensus       153 ~~ea~~L~~~~a~~---~~~~~~~~~~~~~~i~~~c~glPL-Al~~~a~~l----~-~---~~~~~~~~~l~~l~~~~~~  220 (349)
                      .++-.+++...+..   .....++.-+.+..++....|-|- |+.++-...    . +   -+.+......+.+      
T Consensus       201 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~------  274 (365)
T TIGR02928       201 AEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKI------  274 (365)
T ss_pred             HHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH------
Confidence            99999999987631   111222222344556666678774 333222111    1 1   1233444444433      


Q ss_pred             cHHHHHHHhHhcCChhHHHHHHHhccc---C-CCCCHHHHHHHhc---c----c----ccHHHhHHHHhhCcceEEc
Q 045618          221 DIYDVLKISYNEIKAEEKSLFLDIACF---F-NGQDKDSVLKMIG---D----S----SFAHYGLNVLVDKSLVTVS  282 (349)
Q Consensus       221 ~l~~~l~~s~~~L~~~~~~~f~~la~f---p-~~~~~~~l~~~~~---~----~----~~~~~~l~~L~~~sLl~~~  282 (349)
                       -.....-++..||.+.+.++..++..   . ..+....+...+.   .    .    .....+++.|...|||...
T Consensus       275 -~~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       275 -EKDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCEDIGVDPLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             -HHHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHhcCCeEEE
Confidence             12334456788888887666655422   1 1255555544221   1    1    2456789999999999965

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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.13  E-value=6.9e-05  Score=77.61  Aligned_cols=205  Identities=16%  Similarity=0.231  Sum_probs=128.3

Q ss_pred             CCCceEEEEecCC--Cchh---HHHHHcccC---CCCCCcEEEEEeCcc--hhhcccCcccEEEcCCCChHhHHHHHHHh
Q 045618           94 RRTKVLIVLDDVN--KVGQ---LEYLIGGLE---RFGPGSRIIVTTRDR--RVLDNFGVGNIYKVNGLKYREALELFCNC  163 (349)
Q Consensus        94 ~~~~~LlVlDdv~--~~~~---~~~l~~~~~---~~~~~~~IlvTTR~~--~~~~~~~~~~~~~l~~L~~~ea~~L~~~~  163 (349)
                      +.++.++|+||+.  |...   ++.+.....   ...+..-.+.|.+..  .+.........+.|.||+..+.-.+....
T Consensus       152 ~~~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~  231 (849)
T COG3899         152 EEHPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAAT  231 (849)
T ss_pred             ccCCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHH
Confidence            3469999999995  3322   333333321   001122233333332  11222234468999999999999999887


Q ss_pred             hccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccC-------CHHHHHHHHHHhhcCCC-CcHHHHHHHhHhcCCh
Q 045618          164 AFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQK-------SKLDWESALDNLKRISD-PDIYDVLKISYNEIKA  235 (349)
Q Consensus       164 a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~-------~~~~~~~~l~~l~~~~~-~~l~~~l~~s~~~L~~  235 (349)
                      ........   .+....|+++..|.|+-+..+-..+...       ....|..-...+..... +++...+..-.+.||.
T Consensus       232 l~~~~~~~---~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~  308 (849)
T COG3899         232 LGCTKLLP---APLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPG  308 (849)
T ss_pred             hCCccccc---chHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCH
Confidence            74422222   3567799999999999999998888663       23344433333322211 2344467788999999


Q ss_pred             hHHHHHHHhcccCCCCCHHHHHHHhccc--ccHHHhHHHHhhCcceEEcC-------CCeE---EecHHHHHHHHHHH
Q 045618          236 EEKSLFLDIACFFNGQDKDSVLKMIGDS--SFAHYGLNVLVDKSLVTVSR-------GNQL---QMHDLLQEMGREIV  301 (349)
Q Consensus       236 ~~~~~f~~la~fp~~~~~~~l~~~~~~~--~~~~~~l~~L~~~sLl~~~~-------~~~~---~mH~lv~~~a~~~~  301 (349)
                      ..|..+...||+.+.|+.+.|..++...  ..+....+.|.....+..++       ....   ..|+.+|+.|-...
T Consensus       309 ~t~~Vl~~AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i  386 (849)
T COG3899         309 TTREVLKAAACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLI  386 (849)
T ss_pred             HHHHHHHHHHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccC
Confidence            9999999999999889999999999865  45555555555544443221       1112   56888887775443

>PRK06893 DNA replication initiation factor; Validated

Probab=97.90  E-value=9.7e-05  Score=64.81  Aligned_cols=94  Identities=16%  Similarity=0.244  Sum_probs=56.5

Q ss_pred             eEEEEecCCCc---hhHH-HHHcccCCC-CCCcEEEE-EeCc---------chhhcccCcccEEEcCCCChHhHHHHHHH
Q 045618           98 VLIVLDDVNKV---GQLE-YLIGGLERF-GPGSRIIV-TTRD---------RRVLDNFGVGNIYKVNGLKYREALELFCN  162 (349)
Q Consensus        98 ~LlVlDdv~~~---~~~~-~l~~~~~~~-~~~~~Ilv-TTR~---------~~~~~~~~~~~~~~l~~L~~~ea~~L~~~  162 (349)
                      -+|+|||++..   ..|+ .+...+... ..++.+|| |++.         +++...+.....+++++++.++.++++.+
T Consensus        93 dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~  172 (229)
T PRK06893         93 DLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQR  172 (229)
T ss_pred             CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHH
Confidence            58999999853   3343 222222111 23555554 4443         23344444556899999999999999998


Q ss_pred             hhccCCCCChhHHHHHHHHHHHcCCCchHHH
Q 045618          163 CAFKENHCPEDLLVHSKRILDYANGNPLAVR  193 (349)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~  193 (349)
                      .+.......+  ++...-|++.+.|-.-.+.
T Consensus       173 ~a~~~~l~l~--~~v~~~L~~~~~~d~r~l~  201 (229)
T PRK06893        173 NAYQRGIELS--DEVANFLLKRLDRDMHTLF  201 (229)
T ss_pred             HHHHcCCCCC--HHHHHHHHHhccCCHHHHH
Confidence            8864442222  3556677777776654443

>PF13173 AAA_14: AAA domain

Probab=97.81  E-value=0.00012  Score=58.05  Aligned_cols=69  Identities=26%  Similarity=0.365  Sum_probs=50.3

Q ss_pred             HHHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcc-----c-CcccEEEcCCCChHh
Q 045618           87 EYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDN-----F-GVGNIYKVNGLKYRE  155 (349)
Q Consensus        87 ~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~-----~-~~~~~~~l~~L~~~e  155 (349)
                      +.+.+....++.+++||++.....|...+..+....+..+|++|+++......     + +-...+++.||+..|
T Consensus        52 ~~~~~~~~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   52 EYFLELIKPGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             HHHHHhhccCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            33444454578899999999888888887777665677899999998765432     1 223468899999876

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.76  E-value=0.0006  Score=65.26  Aligned_cols=101  Identities=15%  Similarity=0.199  Sum_probs=61.9

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEE--EeCcch--hhccc-CcccEEEcCCCChHhHHHHHHHhhcc
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIV--TTRDRR--VLDNF-GVGNIYKVNGLKYREALELFCNCAFK  166 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~Ilv--TTR~~~--~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~  166 (349)
                      .+++.+|++|+++..  .+.+.|++.+.   .+..+++  ||.+..  +...+ .-...+.+++++.++...++.+.+..
T Consensus        90 ~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~  166 (413)
T PRK13342         90 AGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALED  166 (413)
T ss_pred             cCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHHHH
Confidence            457889999999854  34556665543   2444444  344432  11111 12357899999999999999886532


Q ss_pred             CCCCC-hhHHHHHHHHHHHcCCCchHHHHHhH
Q 045618          167 ENHCP-EDLLVHSKRILDYANGNPLAVRVLGS  197 (349)
Q Consensus       167 ~~~~~-~~~~~~~~~i~~~c~glPLAl~~~a~  197 (349)
                      ..... .-..+....|++.|+|.|..+..+..
T Consensus       167 ~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le  198 (413)
T PRK13342        167 KERGLVELDDEALDALARLANGDARRALNLLE  198 (413)
T ss_pred             hhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence            11111 12245677889999999876654443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.68  E-value=0.00054  Score=59.78  Aligned_cols=98  Identities=17%  Similarity=0.180  Sum_probs=57.5

Q ss_pred             eEEEEecCCCch---h-HHHHHcccCC-CCCCcEEEEEeCcchh---------hcccCcccEEEcCCCChHhHHHHHHHh
Q 045618           98 VLIVLDDVNKVG---Q-LEYLIGGLER-FGPGSRIIVTTRDRRV---------LDNFGVGNIYKVNGLKYREALELFCNC  163 (349)
Q Consensus        98 ~LlVlDdv~~~~---~-~~~l~~~~~~-~~~~~~IlvTTR~~~~---------~~~~~~~~~~~l~~L~~~ea~~L~~~~  163 (349)
                      -+||+||++...   . .+.+...+.. ...+..+|+||+....         ...+.....+++++++.++-..++...
T Consensus        92 ~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~  171 (226)
T TIGR03420        92 DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSR  171 (226)
T ss_pred             CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHH
Confidence            489999997532   2 2333322211 1234578888875421         111222357899999999989988876


Q ss_pred             hccCCCCChhHHHHHHHHHHHcCCCchHHHHHhH
Q 045618          164 AFKENHCPEDLLVHSKRILDYANGNPLAVRVLGS  197 (349)
Q Consensus       164 a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~  197 (349)
                      +-.....  -.++....|++.+.|.|..+..+..
T Consensus       172 ~~~~~~~--~~~~~l~~L~~~~~gn~r~L~~~l~  203 (226)
T TIGR03420       172 AARRGLQ--LPDEVADYLLRHGSRDMGSLMALLD  203 (226)
T ss_pred             HHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHH
Confidence            5322211  1235566777788888876665543

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

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

Probab=97.66  E-value=0.00079  Score=62.24  Aligned_cols=97  Identities=15%  Similarity=0.248  Sum_probs=60.7

Q ss_pred             HHhCCCceEEEEecCCC--chhHHHHHcccCCCCCCcEEEE--EeCcchhh---cccCcccEEEcCCCChHhHHHHHHHh
Q 045618           91 ERLRRTKVLIVLDDVNK--VGQLEYLIGGLERFGPGSRIIV--TTRDRRVL---DNFGVGNIYKVNGLKYREALELFCNC  163 (349)
Q Consensus        91 ~~L~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~Ilv--TTR~~~~~---~~~~~~~~~~l~~L~~~ea~~L~~~~  163 (349)
                      ....+++.+|.+|.|+.  ..+-+.|+|..   -+|..|+|  ||-|+...   ....-..++.+++|+.+|-.+++.+.
T Consensus        99 ~~~~gr~tiLflDEIHRfnK~QQD~lLp~v---E~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra  175 (436)
T COG2256          99 NRLLGRRTILFLDEIHRFNKAQQDALLPHV---ENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRA  175 (436)
T ss_pred             HHhcCCceEEEEehhhhcChhhhhhhhhhh---cCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHH
Confidence            34458999999999984  45567777775   45666666  44444311   11123568999999999999999884


Q ss_pred             hccCCCC-----ChhHHHHHHHHHHHcCCCch
Q 045618          164 AFKENHC-----PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       164 a~~~~~~-----~~~~~~~~~~i~~~c~glPL  190 (349)
                      +......     ..-.++....+++.++|---
T Consensus       176 ~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R  207 (436)
T COG2256         176 LLDEERGLGGQIIVLDEEALDYLVRLSNGDAR  207 (436)
T ss_pred             HhhhhcCCCcccccCCHHHHHHHHHhcCchHH
Confidence            4222111     11123455667777777543

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.62  E-value=0.0032  Score=61.59  Aligned_cols=96  Identities=13%  Similarity=0.106  Sum_probs=63.7

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ..+..|+..+......+.+|++|.. ..+...+ .....+++.+++.++..+.+.+.+-.....
T Consensus       115 ~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~  194 (504)
T PRK14963        115 GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGRE  194 (504)
T ss_pred             CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCC
Confidence            45678999999854  4467777666554455555555543 3333333 234589999999999999998876433322


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .  ..+.+..|++.++|.+--+
T Consensus       195 i--~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        195 A--EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             C--CHHHHHHHHHHcCCCHHHH
Confidence            1  2456778899999988544

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.55  E-value=0.0044  Score=61.57  Aligned_cols=97  Identities=10%  Similarity=0.084  Sum_probs=64.3

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .++.-++|||+++..  ...+.|+..+..-..++++|++|.+ ..+...+ .-...+.++.++.++..+.+.+.+.....
T Consensus       122 ~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi  201 (700)
T PRK12323        122 AGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI  201 (700)
T ss_pred             cCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC
Confidence            456679999999854  4577777777654556665555554 4444333 22357999999999999988877633222


Q ss_pred             CChhHHHHHHHHHHHcCCCchHH
Q 045618          170 CPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      ..  ..+....|++.++|.|...
T Consensus       202 ~~--d~eAL~~IA~~A~Gs~RdA  222 (700)
T PRK12323        202 AH--EVNALRLLAQAAQGSMRDA  222 (700)
T ss_pred             CC--CHHHHHHHHHHcCCCHHHH
Confidence            11  2344577899999988644

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.54  E-value=0.0051  Score=57.73  Aligned_cols=95  Identities=12%  Similarity=0.121  Sum_probs=63.1

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +..-++|+|+++..  .....|+..+.....++.+|++|.+.. +...+ .-...+.+++++.++..+++......  . 
T Consensus       140 ~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~--~-  216 (365)
T PRK07471        140 GGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD--L-  216 (365)
T ss_pred             CCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc--C-
Confidence            45678999999844  446666666654455677777777664 32222 23458999999999999999876411  1 


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVL  195 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~  195 (349)
                      .   ......+++.++|.|+....+
T Consensus       217 ~---~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        217 P---DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             C---HHHHHHHHHHcCCCHHHHHHH
Confidence            1   122257889999999755443

>PRK09087 hypothetical protein; Validated

Probab=97.44  E-value=0.0016  Score=56.86  Aligned_cols=92  Identities=9%  Similarity=0.086  Sum_probs=56.8

Q ss_pred             EEEEecCCCc----hhHHHHHcccCCCCCCcEEEEEeCcc---------hhhcccCcccEEEcCCCChHhHHHHHHHhhc
Q 045618           99 LIVLDDVNKV----GQLEYLIGGLERFGPGSRIIVTTRDR---------RVLDNFGVGNIYKVNGLKYREALELFCNCAF  165 (349)
Q Consensus        99 LlVlDdv~~~----~~~~~l~~~~~~~~~~~~IlvTTR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~  165 (349)
                      +|++||+...    ..+-.+.....  ..|..||+|++.+         ++...+.....+++++++.++-..++.+.+-
T Consensus        90 ~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~  167 (226)
T PRK09087         90 PVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFA  167 (226)
T ss_pred             eEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHH
Confidence            7889999632    22222222222  3467799988743         2333334556899999999999999998874


Q ss_pred             cCCCCChhHHHHHHHHHHHcCCCchHHHH
Q 045618          166 KENHCPEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       166 ~~~~~~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      ......  .++...-|++.+.|-.-++..
T Consensus       168 ~~~~~l--~~ev~~~La~~~~r~~~~l~~  194 (226)
T PRK09087        168 DRQLYV--DPHVVYYLVSRMERSLFAAQT  194 (226)
T ss_pred             HcCCCC--CHHHHHHHHHHhhhhHHHHHH
Confidence            432211  135566777777766655543

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.41  E-value=0.0014  Score=65.83  Aligned_cols=98  Identities=12%  Similarity=0.081  Sum_probs=66.2

Q ss_pred             CCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcchh-hccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRRV-LDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-++|||+++...  .++.|+..+.......++|++|++..- ...+ .-...+++++++.++..+.+.+.+......
T Consensus       118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~  197 (830)
T PRK07003        118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA  197 (830)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC
Confidence            455689999999654  477777766655667888887777543 2222 223579999999999999998876433322


Q ss_pred             ChhHHHHHHHHHHHcCCCc-hHHHH
Q 045618          171 PEDLLVHSKRILDYANGNP-LAVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glP-LAl~~  194 (349)
                      .  ..+....|++.++|-. -|+.+
T Consensus       198 i--d~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        198 F--EPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHHH
Confidence            1  2455678888898855 35544

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

Probab=97.39  E-value=0.00023  Score=56.24  Aligned_cols=111  Identities=16%  Similarity=0.155  Sum_probs=64.8

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCC--CCCCHHHHHHHHh
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQI--RTPNLPEYVRERL   93 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~--~~~~~~~~l~~~L   93 (349)
                      ..|+.|+|||+++...............     ...+.++......+...+...++..+......  ....+.+.+.+.+
T Consensus         9 i~G~~G~GKT~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    9 ISGPPGSGKTTLIKRLARQLNAEAEIKN-----HPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             EEE-TTSSHHHHHHHHHHHHHHHHHHCC-----CEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHHHhHHhhhccC-----CCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            5677899999999865543221000000     11223466666668889999999998433332  1222333666667


Q ss_pred             CCCce-EEEEecCCCc-h--hHHHHHcccCCCCCCcEEEEEeCc
Q 045618           94 RRTKV-LIVLDDVNKV-G--QLEYLIGGLERFGPGSRIIVTTRD  133 (349)
Q Consensus        94 ~~~~~-LlVlDdv~~~-~--~~~~l~~~~~~~~~~~~IlvTTR~  133 (349)
                      ...+. +||+|+++.. .  .++.+.....  ..+.++|+..+.
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            66554 9999999865 2  2444433222  567777777665

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.26  E-value=0.0066  Score=55.90  Aligned_cols=93  Identities=18%  Similarity=0.213  Sum_probs=63.6

Q ss_pred             CCceEEEEecCC--CchhHHHHHcccCCCCCCcEEEEEeCcchhh-ccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVN--KVGQLEYLIGGLERFGPGSRIIVTTRDRRVL-DNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~-~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++  +.+.++.|+..+.+..+++.+|++|.+.+.. ..+ .-...+++.++++++....+.+...  .. 
T Consensus        92 ~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~~--~~-  168 (313)
T PRK05564         92 GDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYKYN--DI-  168 (313)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHHhc--CC-
Confidence            455667777776  4556888888887767788888888766432 222 2245899999999999888766531  11 


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVR  193 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~  193 (349)
                         ..+.+..++..++|.|.-+.
T Consensus       169 ---~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        169 ---KEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             ---CHHHHHHHHHHcCCCHHHHH
Confidence               12346678899999886443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.22  E-value=0.0053  Score=51.99  Aligned_cols=88  Identities=16%  Similarity=0.239  Sum_probs=60.6

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +.+-++|+|+++..  ...+.|+..+....+.+.+|++|++. .+...+ .....+++.+++.++..+.+.+.  +  . 
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~--g--i-  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ--G--I-  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc--C--C-
Confidence            45678999999854  34566666665545567777777654 222222 23458999999999998888776  1  1 


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                         .++.+..|++.++|.|.
T Consensus       170 ---~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       170 ---SEEAAELLLALAGGSPG  186 (188)
T ss_pred             ---CHHHHHHHHHHcCCCcc
Confidence               13567899999999885

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.21  E-value=0.0018  Score=64.26  Aligned_cols=97  Identities=14%  Similarity=0.086  Sum_probs=63.7

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .++.-++|+|+++..  .....|+..+....++.++|++|.+.. +...+ .-...+++.+++.++..+.+.+.+-....
T Consensus       116 ~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI  195 (702)
T PRK14960        116 QGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQI  195 (702)
T ss_pred             cCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC
Confidence            356678999999854  456667666655456677777776543 22221 23458999999999999888877643332


Q ss_pred             CChhHHHHHHHHHHHcCCCchHH
Q 045618          170 CPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      ..  .......|++.++|-+-.+
T Consensus       196 ~i--d~eAL~~IA~~S~GdLRdA  216 (702)
T PRK14960        196 AA--DQDAIWQIAESAQGSLRDA  216 (702)
T ss_pred             CC--CHHHHHHHHHHcCCCHHHH
Confidence            21  2345677888888876433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.17  E-value=0.006  Score=57.38  Aligned_cols=95  Identities=16%  Similarity=0.118  Sum_probs=62.5

Q ss_pred             CCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++...  .++.++..+....+..++|++|.+.. +...+ .-...+++++++.++-.+.+...+-.....
T Consensus       118 ~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~  197 (363)
T PRK14961        118 SRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESID  197 (363)
T ss_pred             CCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            456699999998654  46667666655456666777665543 33222 223579999999999998888766332211


Q ss_pred             ChhHHHHHHHHHHHcCCCchH
Q 045618          171 PEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLA  191 (349)
                      .  .++.+..|++.++|-|-.
T Consensus       198 i--~~~al~~ia~~s~G~~R~  216 (363)
T PRK14961        198 T--DEYALKLIAYHAHGSMRD  216 (363)
T ss_pred             C--CHHHHHHHHHHcCCCHHH
Confidence            1  234567788899998753

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.08  E-value=0.0069  Score=62.21  Aligned_cols=98  Identities=14%  Similarity=0.093  Sum_probs=65.5

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++-++|||+++..  ...+.|+..+.......++|++|.+.. +...+ .-...|++++|+.++....+.+.+-....
T Consensus       117 ~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI  196 (944)
T PRK14949        117 RGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQL  196 (944)
T ss_pred             cCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCC
Confidence            467789999999854  556777776655455666666665543 33222 22358999999999999888886633221


Q ss_pred             CChhHHHHHHHHHHHcCCCchHHH
Q 045618          170 CPEDLLVHSKRILDYANGNPLAVR  193 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl~  193 (349)
                        .-..+.+..|++.++|.|-.+.
T Consensus       197 --~~edeAL~lIA~~S~Gd~R~AL  218 (944)
T PRK14949        197 --PFEAEALTLLAKAANGSMRDAL  218 (944)
T ss_pred             --CCCHHHHHHHHHHcCCCHHHHH
Confidence              1224557789999999885433

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

Probab=97.05  E-value=0.0079  Score=61.31  Aligned_cols=92  Identities=16%  Similarity=0.299  Sum_probs=53.4

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEE--eCcch--hhccc-CcccEEEcCCCChHhHHHHHHHhhccC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVT--TRDRR--VLDNF-GVGNIYKVNGLKYREALELFCNCAFKE  167 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvT--TR~~~--~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~  167 (349)
                      +++.+|+||+++..  .+.+.+++.+.   .+..++++  |.++.  +...+ .-...+.+++++.++...++.+.+-..
T Consensus       108 ~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~  184 (725)
T PRK13341        108 GKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKRALQDK  184 (725)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHHHHHHHHH
Confidence            46779999999743  44566666543   34555553  33321  11111 123479999999999999998766310


Q ss_pred             -----CCCChhHHHHHHHHHHHcCCCc
Q 045618          168 -----NHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       168 -----~~~~~~~~~~~~~i~~~c~glP  189 (349)
                           .....-.++....|++.+.|..
T Consensus       185 ~~~~g~~~v~I~deaL~~La~~s~GD~  211 (725)
T PRK13341        185 ERGYGDRKVDLEPEAEKHLVDVANGDA  211 (725)
T ss_pred             HhhcCCcccCCCHHHHHHHHHhCCCCH
Confidence                 1111112345567777777653

>PRK08727 hypothetical protein; Validated

Probab=97.04  E-value=0.0092  Score=52.45  Aligned_cols=91  Identities=13%  Similarity=0.046  Sum_probs=53.5

Q ss_pred             eEEEEecCCCch---hHH-HHHcccCC-CCCCcEEEEEeCcchh---------hcccCcccEEEcCCCChHhHHHHHHHh
Q 045618           98 VLIVLDDVNKVG---QLE-YLIGGLER-FGPGSRIIVTTRDRRV---------LDNFGVGNIYKVNGLKYREALELFCNC  163 (349)
Q Consensus        98 ~LlVlDdv~~~~---~~~-~l~~~~~~-~~~~~~IlvTTR~~~~---------~~~~~~~~~~~l~~L~~~ea~~L~~~~  163 (349)
                      -+||+||+....   .++ .+...+.. ...+..||+||+...-         ...+.....+++++++.++-.+++.+.
T Consensus        95 dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~  174 (233)
T PRK08727         95 SLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRER  174 (233)
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHH
Confidence            489999997331   222 22222111 1246679999986432         112223458999999999999999987


Q ss_pred             hccCCCCChhHHHHHHHHHHHcCCCch
Q 045618          164 AFKENHCPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       164 a~~~~~~~~~~~~~~~~i~~~c~glPL  190 (349)
                      +.......  .++...-|++.++|-.-
T Consensus       175 a~~~~l~l--~~e~~~~La~~~~rd~r  199 (233)
T PRK08727        175 AQRRGLAL--DEAAIDWLLTHGERELA  199 (233)
T ss_pred             HHHcCCCC--CHHHHHHHHHhCCCCHH
Confidence            64332211  23455667777765443

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.00  E-value=0.0018  Score=59.79  Aligned_cols=92  Identities=13%  Similarity=0.162  Sum_probs=60.5

Q ss_pred             CceEEEEecCCC--chhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVNK--VGQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      ++-++|+|+++.  .+....|+..+..-..++.+|+||.+.. +...+ .-...+.+.+++.+++.+.+.... .. .  
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~-~~-~--  181 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL-PE-S--  181 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc-cc-C--
Confidence            344557799985  4456777666655456777777777764 33333 224579999999999998887653 11 1  


Q ss_pred             hhHHHHHHHHHHHcCCCchHHH
Q 045618          172 EDLLVHSKRILDYANGNPLAVR  193 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glPLAl~  193 (349)
                        ..+.+..++..++|.|+...
T Consensus       182 --~~~~~~~~l~la~Gsp~~A~  201 (328)
T PRK05707        182 --DERERIELLTLAGGSPLRAL  201 (328)
T ss_pred             --ChHHHHHHHHHcCCCHHHHH
Confidence              12335577889999996443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.00  E-value=0.0032  Score=62.99  Aligned_cols=97  Identities=12%  Similarity=0.088  Sum_probs=63.3

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++-++|+|+++..  ...+.|+..+......+++|.+|.+. .+...+ .-...+++++++.++..+.+.+.+-....
T Consensus       117 ~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i  196 (647)
T PRK07994        117 RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQI  196 (647)
T ss_pred             cCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCC
Confidence            466779999999854  45677766665545565555555554 333332 22458999999999999888876532222


Q ss_pred             CChhHHHHHHHHHHHcCCCchHH
Q 045618          170 CPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      ..  .......|++.++|.+-..
T Consensus       197 ~~--e~~aL~~Ia~~s~Gs~R~A  217 (647)
T PRK07994        197 PF--EPRALQLLARAADGSMRDA  217 (647)
T ss_pred             CC--CHHHHHHHHHHcCCCHHHH
Confidence            11  2345678889999977633

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.99  E-value=0.0033  Score=60.49  Aligned_cols=96  Identities=11%  Similarity=0.043  Sum_probs=62.3

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .++.-++|+|+++..  ..++.|+..+........+|.+|.+ ..+...+ .-...|.+.+++.++-.+.+.+.+-....
T Consensus       119 ~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi  198 (484)
T PRK14956        119 GGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENV  198 (484)
T ss_pred             cCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCC
Confidence            456679999999854  4577777776544455555545544 3343333 22347999999999988888877633222


Q ss_pred             CChhHHHHHHHHHHHcCCCchH
Q 045618          170 CPEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLA  191 (349)
                      .  -..+....|++.++|-+.-
T Consensus       199 ~--~e~eAL~~Ia~~S~Gd~Rd  218 (484)
T PRK14956        199 Q--YDQEGLFWIAKKGDGSVRD  218 (484)
T ss_pred             C--CCHHHHHHHHHHcCChHHH
Confidence            1  1245567888888888743

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=96.97  E-value=0.011  Score=55.99  Aligned_cols=91  Identities=11%  Similarity=0.119  Sum_probs=59.8

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  .....|+..+....+++.+|++|.+.. +...+ .-...+.+++++.++..+.+.... +  . 
T Consensus       116 ~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~-~--~-  191 (394)
T PRK07940        116 GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD-G--V-  191 (394)
T ss_pred             CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhc-C--C-
Confidence            45568888999854  344556665554455666666666643 33333 224589999999999988887432 1  1 


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .   .+.+..++..++|.|...
T Consensus       192 ~---~~~a~~la~~s~G~~~~A  210 (394)
T PRK07940        192 D---PETARRAARASQGHIGRA  210 (394)
T ss_pred             C---HHHHHHHHHHcCCCHHHH
Confidence            1   344678899999998643

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.95  E-value=0.014  Score=54.50  Aligned_cols=96  Identities=10%  Similarity=0.114  Sum_probs=61.3

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ...+.++..+.....++.+|++|..+ .+...+ .-...+++++++.++..+++...... .. 
T Consensus       140 g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~-~~-  217 (351)
T PRK09112        140 GNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS-QG-  217 (351)
T ss_pred             CCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc-cC-
Confidence            46679999999854  34556665554434455544444443 333333 22358999999999999999874311 11 


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                        -..+.+..+++.++|.|.....
T Consensus       218 --~~~~~~~~i~~~s~G~pr~Al~  239 (351)
T PRK09112        218 --SDGEITEALLQRSKGSVRKALL  239 (351)
T ss_pred             --CCHHHHHHHHHHcCCCHHHHHH
Confidence              1134467889999999975443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=96.93  E-value=0.018  Score=56.27  Aligned_cols=96  Identities=18%  Similarity=0.249  Sum_probs=63.2

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEe-Ccchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTT-RDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTT-R~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++-++|+|+++..  ..+..|+..+....+.+.+|++| +...+...+ .....+++.+++.++..+.+.+.+-....
T Consensus       126 ~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi  205 (507)
T PRK06645        126 QGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENL  205 (507)
T ss_pred             cCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC
Confidence            356778999999864  45777776665545566655544 444444333 22357999999999999999888743332


Q ss_pred             CChhHHHHHHHHHHHcCCCchH
Q 045618          170 CPEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLA  191 (349)
                      ..  ..+....|++.++|-+--
T Consensus       206 ~i--e~eAL~~Ia~~s~GslR~  225 (507)
T PRK06645        206 KT--DIEALRIIAYKSEGSARD  225 (507)
T ss_pred             CC--CHHHHHHHHHHcCCCHHH
Confidence            21  234566788888887643

>PF14516 AAA_35: AAA-like domain

Probab=96.92  E-value=0.28  Score=45.47  Aligned_cols=55  Identities=16%  Similarity=0.292  Sum_probs=43.4

Q ss_pred             cccEEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccC
Q 045618          142 VGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQK  202 (349)
Q Consensus       142 ~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~  202 (349)
                      ....+.|++++.+|..+|+.++-..  .    ......+|...+||+|.-+..++..+...
T Consensus       192 Ig~~i~L~~Ft~~ev~~L~~~~~~~--~----~~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  192 IGQPIELPDFTPEEVQELAQRYGLE--F----SQEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             cccceeCCCCCHHHHHHHHHhhhcc--C----CHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            3457899999999999998876422  1    12237899999999999999999999763

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.92  E-value=0.0028  Score=63.42  Aligned_cols=96  Identities=11%  Similarity=0.083  Sum_probs=61.1

Q ss_pred             CCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++...  ....|+..+......+++|++|.+.. +...+ .-...+++.+++.++-...+.+.+-.....
T Consensus       118 gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~  197 (709)
T PRK08691        118 GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIA  197 (709)
T ss_pred             CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCC
Confidence            466789999998654  35556555544345666776665443 22222 223467888999999998888776433322


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .  .......|++.++|-+.-+
T Consensus       198 i--d~eAL~~Ia~~A~GslRdA  217 (709)
T PRK08691        198 Y--EPPALQLLGRAAAGSMRDA  217 (709)
T ss_pred             c--CHHHHHHHHHHhCCCHHHH
Confidence            1  2355678889998887443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.91  E-value=0.035  Score=51.45  Aligned_cols=95  Identities=17%  Similarity=0.096  Sum_probs=57.9

Q ss_pred             CceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      .+-+||+||++...  ....+...+......+++|+||.+.. +...+ .....+.+.+++.++....+...+...... 
T Consensus       125 ~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~-  203 (337)
T PRK12402        125 DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD-  203 (337)
T ss_pred             CCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC-
Confidence            44589999997542  23334433333345677777775432 22222 223478889999999988888876333322 


Q ss_pred             hhHHHHHHHHHHHcCCCchHH
Q 045618          172 EDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glPLAl  192 (349)
                       -..+....+++.++|.+-.+
T Consensus       204 -~~~~al~~l~~~~~gdlr~l  223 (337)
T PRK12402        204 -YDDDGLELIAYYAGGDLRKA  223 (337)
T ss_pred             -CCHHHHHHHHHHcCCCHHHH
Confidence             12456778888888765443

>PRK04195 replication factor C large subunit; Provisional

Probab=96.91  E-value=0.083  Score=51.71  Aligned_cols=95  Identities=17%  Similarity=0.132  Sum_probs=57.9

Q ss_pred             CCceEEEEecCCCch------hHHHHHcccCCCCCCcEEEEEeCcch-hhc-cc-CcccEEEcCCCChHhHHHHHHHhhc
Q 045618           95 RTKVLIVLDDVNKVG------QLEYLIGGLERFGPGSRIIVTTRDRR-VLD-NF-GVGNIYKVNGLKYREALELFCNCAF  165 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~------~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~-~~-~~~~~~~l~~L~~~ea~~L~~~~a~  165 (349)
                      .++-+||+|+++...      .+..+...+.  ..++.||+|+.+.. ... .+ .....+.+++++..+....+...+.
T Consensus        97 ~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~  174 (482)
T PRK04195         97 ARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVLKRICR  174 (482)
T ss_pred             CCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHhccceEEEecCCCHHHHHHHHHHHHH
Confidence            367899999997542      2455544433  23344566664432 111 12 2345789999999999888887764


Q ss_pred             cCCCCChhHHHHHHHHHHHcCCCchHHH
Q 045618          166 KENHCPEDLLVHSKRILDYANGNPLAVR  193 (349)
Q Consensus       166 ~~~~~~~~~~~~~~~i~~~c~glPLAl~  193 (349)
                      ......  ..+....|++.++|-.-.+.
T Consensus       175 ~egi~i--~~eaL~~Ia~~s~GDlR~ai  200 (482)
T PRK04195        175 KEGIEC--DDEALKEIAERSGGDLRSAI  200 (482)
T ss_pred             HcCCCC--CHHHHHHHHHHcCCCHHHHH
Confidence            433222  14567788888888655443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.90  E-value=0.016  Score=50.63  Aligned_cols=101  Identities=17%  Similarity=0.163  Sum_probs=56.6

Q ss_pred             ceEEEEecCCCch--hHHHHHcccCCC-CCCc-EEEEEeCcchhhc--------ccCcccEEEcCCCChHhHHHHHHHhh
Q 045618           97 KVLIVLDDVNKVG--QLEYLIGGLERF-GPGS-RIIVTTRDRRVLD--------NFGVGNIYKVNGLKYREALELFCNCA  164 (349)
Q Consensus        97 ~~LlVlDdv~~~~--~~~~l~~~~~~~-~~~~-~IlvTTR~~~~~~--------~~~~~~~~~l~~L~~~ea~~L~~~~a  164 (349)
                      .-+||+||++...  ....+...+... ..+. .+|+|++......        .+.....+++++++.++-..++.+.+
T Consensus        91 ~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~  170 (227)
T PRK08903         91 AELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAA  170 (227)
T ss_pred             CCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHH
Confidence            4478999997432  222232222110 1233 4666666543221        11223578999999988777776654


Q ss_pred             ccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHh
Q 045618          165 FKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFL  199 (349)
Q Consensus       165 ~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l  199 (349)
                      .......  .++....|++.+.|.+..+..+-..+
T Consensus       171 ~~~~v~l--~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        171 AERGLQL--ADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHcCCCC--CHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            2222111  23566778888888887776665544

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=96.87  E-value=0.019  Score=53.98  Aligned_cols=92  Identities=18%  Similarity=0.290  Sum_probs=54.8

Q ss_pred             CCceEEEEecCCCc----------------hhHHHHHcccCC--CCCCcEEEEEeCcchhhcc-c----CcccEEEcCCC
Q 045618           95 RTKVLIVLDDVNKV----------------GQLEYLIGGLER--FGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNGL  151 (349)
Q Consensus        95 ~~~~LlVlDdv~~~----------------~~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L  151 (349)
                      ....+|+||+++..                ..+..++..+..  ...+..||.||...+.... +    .....+.++..
T Consensus       214 ~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P  293 (364)
T TIGR01242       214 KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLP  293 (364)
T ss_pred             cCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCc
Confidence            45689999998642                112333322221  1346778888876543221 1    12457899999


Q ss_pred             ChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          152 KYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       152 ~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      +.++..++|..++.+......   .....+++.+.|..
T Consensus       294 ~~~~r~~Il~~~~~~~~l~~~---~~~~~la~~t~g~s  328 (364)
T TIGR01242       294 DFEGRLEILKIHTRKMKLAED---VDLEAIAKMTEGAS  328 (364)
T ss_pred             CHHHHHHHHHHHHhcCCCCcc---CCHHHHHHHcCCCC
Confidence            999999999988744332211   11346777777764

Many proteins may score above the trusted cutoff because an internal

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.82  E-value=0.06  Score=55.81  Aligned_cols=96  Identities=10%  Similarity=0.053  Sum_probs=61.2

Q ss_pred             hCCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCC
Q 045618           93 LRRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKEN  168 (349)
Q Consensus        93 L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~  168 (349)
                      ..++.-++|||+++..  ...+.|+..+.+-...+.+|++|.+. .+...+ .-...|++..++.++-.+.+.+..-...
T Consensus       117 ~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EG  196 (824)
T PRK07764        117 AESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEG  196 (824)
T ss_pred             hcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcC
Confidence            3456668899999854  44666666665555666666555443 344333 2345799999999998888877652222


Q ss_pred             CCChhHHHHHHHHHHHcCCCch
Q 045618          169 HCPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       169 ~~~~~~~~~~~~i~~~c~glPL  190 (349)
                      ...  .......|++.++|-+.
T Consensus       197 v~i--d~eal~lLa~~sgGdlR  216 (824)
T PRK07764        197 VPV--EPGVLPLVIRAGGGSVR  216 (824)
T ss_pred             CCC--CHHHHHHHHHHcCCCHH
Confidence            211  23445678888888774

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.81  E-value=0.0085  Score=52.75  Aligned_cols=92  Identities=15%  Similarity=0.143  Sum_probs=53.4

Q ss_pred             eEEEEecCCCc---hhHHHH----HcccCCCCCCcEEEEEeCcchh---------hcccCcccEEEcCCCChHhHHHHHH
Q 045618           98 VLIVLDDVNKV---GQLEYL----IGGLERFGPGSRIIVTTRDRRV---------LDNFGVGNIYKVNGLKYREALELFC  161 (349)
Q Consensus        98 ~LlVlDdv~~~---~~~~~l----~~~~~~~~~~~~IlvTTR~~~~---------~~~~~~~~~~~l~~L~~~ea~~L~~  161 (349)
                      -+|++||+...   ..|+..    ...... ..+.++|+||+.+.-         ...+....++++++++.++-.+++.
T Consensus        99 dlliiDdi~~~~~~~~~~~~lf~l~n~~~e-~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~  177 (235)
T PRK08084         99 SLVCIDNIECIAGDELWEMAIFDLYNRILE-SGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQ  177 (235)
T ss_pred             CEEEEeChhhhcCCHHHHHHHHHHHHHHHH-cCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHH
Confidence            47999999643   233222    111111 123479999986632         2223345689999999999999988


Q ss_pred             HhhccCCCCChhHHHHHHHHHHHcCCCchHH
Q 045618          162 NCAFKENHCPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      +.+......  -.++...-|++.+.|-.-++
T Consensus       178 ~~a~~~~~~--l~~~v~~~L~~~~~~d~r~l  206 (235)
T PRK08084        178 LRARLRGFE--LPEDVGRFLLKRLDREMRTL  206 (235)
T ss_pred             HHHHHcCCC--CCHHHHHHHHHhhcCCHHHH
Confidence            766333211  12355666677666554433

>PRK06620 hypothetical protein; Validated

Probab=96.81  E-value=0.013  Score=50.83  Aligned_cols=87  Identities=8%  Similarity=-0.043  Sum_probs=49.1

Q ss_pred             eEEEEecCCCchh--HHHHHcccCCCCCCcEEEEEeCcchhh-------cccCcccEEEcCCCChHhHHHHHHHhhccCC
Q 045618           98 VLIVLDDVNKVGQ--LEYLIGGLERFGPGSRIIVTTRDRRVL-------DNFGVGNIYKVNGLKYREALELFCNCAFKEN  168 (349)
Q Consensus        98 ~LlVlDdv~~~~~--~~~l~~~~~~~~~~~~IlvTTR~~~~~-------~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~  168 (349)
                      -+|++||++..++  +-.+...+.  ..|..||+|++.+.-.       ..+...-++++++++.++-..++.+.+....
T Consensus        87 d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~  164 (214)
T PRK06620         87 NAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISS  164 (214)
T ss_pred             CEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcC
Confidence            4788999985432  222222222  3466899998865431       1122344799999999988888877763222


Q ss_pred             CCChhHHHHHHHHHHHcCCC
Q 045618          169 HCPEDLLVHSKRILDYANGN  188 (349)
Q Consensus       169 ~~~~~~~~~~~~i~~~c~gl  188 (349)
                      ...  .+++..-|++.+.|-
T Consensus       165 l~l--~~ev~~~L~~~~~~d  182 (214)
T PRK06620        165 VTI--SRQIIDFLLVNLPRE  182 (214)
T ss_pred             CCC--CHHHHHHHHHHccCC
Confidence            111  134455555555443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.80  E-value=0.022  Score=56.97  Aligned_cols=96  Identities=14%  Similarity=0.110  Sum_probs=62.0

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-++|||+++..  ...+.|+..+..-...+++|++|.+ ..+...+ .-...+++++++.++-.+.+.+.+......
T Consensus       123 g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~  202 (618)
T PRK14951        123 GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVP  202 (618)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCC
Confidence            45568999999854  4567777666554556666655544 3333222 234579999999999988888776433322


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .  ..+....|++.++|-+-.+
T Consensus       203 i--e~~AL~~La~~s~GslR~a  222 (618)
T PRK14951        203 A--EPQALRLLARAARGSMRDA  222 (618)
T ss_pred             C--CHHHHHHHHHHcCCCHHHH
Confidence            2  2345677888888866443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.79  E-value=0.0048  Score=59.86  Aligned_cols=94  Identities=17%  Similarity=0.216  Sum_probs=61.9

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-++|+|+++..  ...+.|+..+....+.+++|++|.+ ..+...+ .-...+++.+++.++-.+.+.+.+......
T Consensus       115 ~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~  194 (491)
T PRK14964        115 SKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIE  194 (491)
T ss_pred             CCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCC
Confidence            45668999999854  3466676666554566666666644 3343333 234579999999999998888877443322


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      -  .++.+..|++.++|-+-
T Consensus       195 i--~~eAL~lIa~~s~GslR  212 (491)
T PRK14964        195 H--DEESLKLIAENSSGSMR  212 (491)
T ss_pred             C--CHHHHHHHHHHcCCCHH
Confidence            1  23456678888888765

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.77  E-value=0.02  Score=55.32  Aligned_cols=109  Identities=13%  Similarity=0.164  Sum_probs=64.3

Q ss_pred             HHHHHhCCCceEEEEecCCCch---h-HHHHHcccCC-CCCCcEEEEEeCcch-hh--------cccCcccEEEcCCCCh
Q 045618           88 YVRERLRRTKVLIVLDDVNKVG---Q-LEYLIGGLER-FGPGSRIIVTTRDRR-VL--------DNFGVGNIYKVNGLKY  153 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~~---~-~~~l~~~~~~-~~~~~~IlvTTR~~~-~~--------~~~~~~~~~~l~~L~~  153 (349)
                      .+++.+.. .-+||+||+....   . .+.|...+.. ...+..||+||.... ..        ..+...-.+.+++++.
T Consensus       199 ~~~~~~~~-~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~  277 (450)
T PRK14087        199 QFKNEICQ-NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDN  277 (450)
T ss_pred             HHHHHhcc-CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCH
Confidence            34444443 3478899996431   2 2233222211 123456888876542 11        1223445788999999


Q ss_pred             HhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhH
Q 045618          154 REALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGS  197 (349)
Q Consensus       154 ~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~  197 (349)
                      ++-..++.+.+-.......-.++...-|++.+.|.|-.+.-+..
T Consensus       278 e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~  321 (450)
T PRK14087        278 KTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVS  321 (450)
T ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHH
Confidence            99999999887432211112256678888999998877665543

>PLN03025 replication factor C subunit; Provisional

Probab=96.76  E-value=0.026  Score=52.10  Aligned_cols=93  Identities=14%  Similarity=0.181  Sum_probs=56.9

Q ss_pred             CCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-++|||+++...  ....+...+......+++++++... .+...+ .-...+++++++.++-...+...+-.....
T Consensus        98 ~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~~~L~~i~~~egi~  177 (319)
T PLN03025         98 GRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVP  177 (319)
T ss_pred             CCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHHHHHHHHHHHcCCC
Confidence            456799999998643  2334443333334566677766443 222222 123478999999999998888877433322


Q ss_pred             ChhHHHHHHHHHHHcCCCc
Q 045618          171 PEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glP  189 (349)
                      ..  ++....|++.++|-.
T Consensus       178 i~--~~~l~~i~~~~~gDl  194 (319)
T PLN03025        178 YV--PEGLEAIIFTADGDM  194 (319)
T ss_pred             CC--HHHHHHHHHHcCCCH
Confidence            21  345678888888755

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.73  E-value=0.13  Score=47.11  Aligned_cols=94  Identities=16%  Similarity=0.169  Sum_probs=58.3

Q ss_pred             CceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      .+-++++|+++...  ....+...+....+.+.+|+++.... +...+ .....+++++++.++....+...+......-
T Consensus       102 ~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~~~~~~~~~i  181 (319)
T PRK00440        102 PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIEI  181 (319)
T ss_pred             CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHHHHHHcCCCC
Confidence            35689999997542  34445444444445667777764432 22211 1234689999999999888887764333211


Q ss_pred             hhHHHHHHHHHHHcCCCchH
Q 045618          172 EDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glPLA  191 (349)
                        .++.+..+++.++|-+--
T Consensus       182 --~~~al~~l~~~~~gd~r~  199 (319)
T PRK00440        182 --TDDALEAIYYVSEGDMRK  199 (319)
T ss_pred             --CHHHHHHHHHHcCCCHHH
Confidence              245677888889887654

>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=96.73  E-value=0.01  Score=47.05  Aligned_cols=44  Identities=16%  Similarity=0.293  Sum_probs=26.5

Q ss_pred             HhCCCceEEEEecCCCc--h---hHHHHHcccCCC---CCCcEEEEEeCcch
Q 045618           92 RLRRTKVLIVLDDVNKV--G---QLEYLIGGLERF---GPGSRIIVTTRDRR  135 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~--~---~~~~l~~~~~~~---~~~~~IlvTTR~~~  135 (349)
                      ....+..++|+||++..  .   .+..+.......   ..+..||+||....
T Consensus        80 ~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          80 AEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             hccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence            34456789999999853  2   233333332221   35778888887653

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.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.71  E-value=0.029  Score=55.33  Aligned_cols=100  Identities=16%  Similarity=0.102  Sum_probs=62.0

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++-++|+|+++..  ...+.|+..+......+.+|++|.+. .+...+ .-...+++.+++.++-...+.+.+-....
T Consensus       117 ~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi  196 (546)
T PRK14957        117 QGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI  196 (546)
T ss_pred             cCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC
Confidence            356779999999854  44667776665544566555555443 333222 23458999999999988877775533221


Q ss_pred             CChhHHHHHHHHHHHcCCCch-HHHHH
Q 045618          170 CPEDLLVHSKRILDYANGNPL-AVRVL  195 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPL-Al~~~  195 (349)
                      .  -.+.....|++.++|-+- |+..+
T Consensus       197 ~--~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        197 N--SDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            1  123456678888888653 44443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.69  E-value=0.0041  Score=60.93  Aligned_cols=96  Identities=15%  Similarity=0.064  Sum_probs=59.2

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-++|+|+++..  ...+.++..+....+.+++|++|.++ .+...+ .-...+++++++.++-...+...+-.....
T Consensus       118 ~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~  197 (509)
T PRK14958        118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVE  197 (509)
T ss_pred             CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCC
Confidence            56678999999854  45666666665545567666665443 333222 223468899999998777666655332222


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .  .......|++.++|-+..+
T Consensus       198 ~--~~~al~~ia~~s~GslR~a  217 (509)
T PRK14958        198 F--ENAALDLLARAANGSVRDA  217 (509)
T ss_pred             C--CHHHHHHHHHHcCCcHHHH
Confidence            1  1344567888888877543

>PRK05642 DNA replication initiation factor; Validated

Probab=96.64  E-value=0.037  Score=48.62  Aligned_cols=92  Identities=18%  Similarity=0.242  Sum_probs=52.0

Q ss_pred             EEEEecCCCc---hhHHH-HHcccCC-CCCCcEEEEEeCcchh-hc--------ccCcccEEEcCCCChHhHHHHHHHhh
Q 045618           99 LIVLDDVNKV---GQLEY-LIGGLER-FGPGSRIIVTTRDRRV-LD--------NFGVGNIYKVNGLKYREALELFCNCA  164 (349)
Q Consensus        99 LlVlDdv~~~---~~~~~-l~~~~~~-~~~~~~IlvTTR~~~~-~~--------~~~~~~~~~l~~L~~~ea~~L~~~~a  164 (349)
                      +||+||+...   ..|+. +...+.. ...|..+|+||+...- ..        .+.....+.+++++.++-..++.+++
T Consensus       100 ~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka  179 (234)
T PRK05642        100 LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRA  179 (234)
T ss_pred             EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHH
Confidence            6789999632   23332 3222211 1346778888876432 11        11233578899999999999998665


Q ss_pred             ccCCCCChhHHHHHHHHHHHcCCCchHH
Q 045618          165 FKENHCPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       165 ~~~~~~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .......+  ++...-|++.+.|-.-.+
T Consensus       180 ~~~~~~l~--~ev~~~L~~~~~~d~r~l  205 (234)
T PRK05642        180 SRRGLHLT--DEVGHFILTRGTRSMSAL  205 (234)
T ss_pred             HHcCCCCC--HHHHHHHHHhcCCCHHHH
Confidence            33321111  355556666666554333

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

Probab=96.58  E-value=0.013  Score=50.55  Aligned_cols=67  Identities=18%  Similarity=0.062  Sum_probs=41.3

Q ss_pred             EEEEEeCcchhhcccC--cccEEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHH
Q 045618          126 RIIVTTRDRRVLDNFG--VGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       126 ~IlvTTR~~~~~~~~~--~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      -|=.|||.-.+...+.  ..-..++...+.+|-.++..+.+..-..  +-.++.+.+|+++|.|-|--..-
T Consensus       152 ligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i--~i~~~~~~~Ia~rsrGtPRiAnr  220 (233)
T PF05496_consen  152 LIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNI--EIDEDAAEEIARRSRGTPRIANR  220 (233)
T ss_dssp             EEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT---EE-HHHHHHHHHCTTTSHHHHHH
T ss_pred             EeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCC--CcCHHHHHHHHHhcCCChHHHHH
Confidence            3556777765554443  2335689999999999999887633332  22357789999999999954433

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=96.50  E-value=0.049  Score=50.88  Aligned_cols=99  Identities=14%  Similarity=0.099  Sum_probs=63.4

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  .....++..+....+.+.+|++|.+.. +...+ .....+++++++.++..+.+...+-.....
T Consensus       116 ~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~  195 (355)
T TIGR02397       116 GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK  195 (355)
T ss_pred             CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC
Confidence            45568999999754  445666666544445667667765544 22222 223478899999999988888766332221


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVL  195 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~  195 (349)
                      .  .++.+..+++.++|-|..+...
T Consensus       196 i--~~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       196 I--EDEALELIARAADGSLRDALSL  218 (355)
T ss_pred             C--CHHHHHHHHHHcCCChHHHHHH
Confidence            1  1356778899999988655443

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.

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

Probab=96.46  E-value=0.029  Score=48.80  Aligned_cols=98  Identities=14%  Similarity=0.156  Sum_probs=53.1

Q ss_pred             HHHHHhCCCceEEEEecCCCch---hHHH-H---HcccCCCCCCcEEEEEeCcchh-hc--------ccCcccEEEcCCC
Q 045618           88 YVRERLRRTKVLIVLDDVNKVG---QLEY-L---IGGLERFGPGSRIIVTTRDRRV-LD--------NFGVGNIYKVNGL  151 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~~---~~~~-l---~~~~~~~~~~~~IlvTTR~~~~-~~--------~~~~~~~~~l~~L  151 (349)
                      .+++.+.+ -=+|++||++...   .|+. +   ...+.  ..|.+||+|++.... ..        .+...-.+++.++
T Consensus        90 ~~~~~~~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~--~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~p  166 (219)
T PF00308_consen   90 EFKDRLRS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLI--ESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPP  166 (219)
T ss_dssp             HHHHHHCT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHH--HTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE---
T ss_pred             hhhhhhhc-CCEEEEecchhhcCchHHHHHHHHHHHHHH--hhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCC
Confidence            46666664 4468899997532   2221 1   12211  346789999965532 21        1224458999999


Q ss_pred             ChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCch
Q 045618          152 KYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       152 ~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPL  190 (349)
                      +.++-..++.+.+.......  .++++.-|++.+.+..-
T Consensus       167 d~~~r~~il~~~a~~~~~~l--~~~v~~~l~~~~~~~~r  203 (219)
T PF00308_consen  167 DDEDRRRILQKKAKERGIEL--PEEVIEYLARRFRRDVR  203 (219)
T ss_dssp             -HHHHHHHHHHHHHHTT--S---HHHHHHHHHHTTSSHH
T ss_pred             CHHHHHHHHHHHHHHhCCCC--cHHHHHHHHHhhcCCHH
Confidence            99999999998885444222  23445556665554443

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.41  E-value=0.035  Score=54.79  Aligned_cols=95  Identities=13%  Similarity=0.082  Sum_probs=60.3

Q ss_pred             CCCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++-++|+|+++...  ..+.|+..+......+.+|.+|.++ .+...+ .-...+++++++.++-.+.+.+.+.....
T Consensus       117 ~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi  196 (527)
T PRK14969        117 RGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI  196 (527)
T ss_pred             cCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC
Confidence            3567799999998654  3666666665544566666555443 333222 12347899999999988888776533222


Q ss_pred             CChhHHHHHHHHHHHcCCCch
Q 045618          170 CPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPL  190 (349)
                      ..  ....+..|++.++|.+-
T Consensus       197 ~~--~~~al~~la~~s~Gslr  215 (527)
T PRK14969        197 PF--DATALQLLARAAAGSMR  215 (527)
T ss_pred             CC--CHHHHHHHHHHcCCCHH
Confidence            11  23456788889999775

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.39  E-value=0.057  Score=53.59  Aligned_cols=99  Identities=19%  Similarity=0.186  Sum_probs=60.0

Q ss_pred             CceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      ++-++|+|+++..  ..+..|+..+......+.+|++|.. ..+...+ .-...+++.+++.++....+...+.......
T Consensus       119 ~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~I  198 (605)
T PRK05896        119 KYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKI  198 (605)
T ss_pred             CcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCC
Confidence            3446999999853  4456666655443445555555543 3333222 2245799999999999888887663322111


Q ss_pred             hhHHHHHHHHHHHcCCCch-HHHHHh
Q 045618          172 EDLLVHSKRILDYANGNPL-AVRVLG  196 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glPL-Al~~~a  196 (349)
                        .++.+..+++.++|-+- |+..+-
T Consensus       199 --s~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        199 --EDNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             --CHHHHHHHHHHcCCcHHHHHHHHH
Confidence              13456788899998654 444333

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.35  E-value=0.048  Score=53.01  Aligned_cols=102  Identities=14%  Similarity=0.082  Sum_probs=62.7

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  .....|+..+....+...+|++|.++ .+...+ .....+++.+++.++-...+.+.+......
T Consensus       116 ~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~  195 (472)
T PRK14962        116 GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIE  195 (472)
T ss_pred             CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCC
Confidence            56679999999854  34566666655434455555455443 332222 233589999999999888888876332221


Q ss_pred             ChhHHHHHHHHHHHcC-CCchHHHHHhHH
Q 045618          171 PEDLLVHSKRILDYAN-GNPLAVRVLGSF  198 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~-glPLAl~~~a~~  198 (349)
                      -  .++....|++.++ +++.++..+-..
T Consensus       196 i--~~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        196 I--DREALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             C--CHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            1  1345667887775 456676666543

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.34  E-value=0.14  Score=48.73  Aligned_cols=167  Identities=22%  Similarity=0.185  Sum_probs=98.5

Q ss_pred             CceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcc-----c-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           96 TKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDN-----F-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        96 ~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~-----~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      ++..++||.|.....|...+..+.+.++. +|++|+.+......     + +-...+++-||+..|-..+-....    .
T Consensus        94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~~~~~----~  168 (398)
T COG1373          94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLKGEEI----E  168 (398)
T ss_pred             CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhccccc----c
Confidence            78899999999999999998888776766 88988887754322     2 234579999999998766532000    0


Q ss_pred             CChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhhcCCCCcHHHHHHHhHhcCChhHHHHHHHhcccCC
Q 045618          170 CPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAEEKSLFLDIACFFN  249 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~~~~~~~l~~~l~~s~~~L~~~~~~~f~~la~fp~  249 (349)
                       ...... .-+-.-..||.|.++..-...-.  .......++.+          .+....-..=+...++.+.+++-..+
T Consensus       169 -~~~~~~-~f~~Yl~~GGfP~~v~~~~~~~~--~~~~~~~~~~~----------Di~~~~~~~~~~~~k~i~~~l~~~~g  234 (398)
T COG1373         169 -PSKLEL-LFEKYLETGGFPESVKADLSEKK--LKEYLDTILKR----------DIIERGKIENADLMKRILRFLASNIG  234 (398)
T ss_pred             -hhHHHH-HHHHHHHhCCCcHHHhCcchhhH--HHHHHHHHHHH----------HHHHHcCcccHHHHHHHHHHHHhhcC
Confidence             001111 22223457999977743222111  00111111110          01111100001344666666655544


Q ss_pred             C-CCHHHHHHHh-ccc-ccHHHhHHHHhhCcceEE
Q 045618          250 G-QDKDSVLKMI-GDS-SFAHYGLNVLVDKSLVTV  281 (349)
Q Consensus       250 ~-~~~~~l~~~~-~~~-~~~~~~l~~L~~~sLl~~  281 (349)
                      . +....+...+ .-+ .....+++.|.+.-++..
T Consensus       235 ~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~~  269 (398)
T COG1373         235 SPISYSSLARELKGISKDTIRKYLSYLEDAFLLFL  269 (398)
T ss_pred             CccCHHHHHHHHhccchHHHHHHHHHHHHhhheEE
Confidence            4 9999999988 454 677788888888888773

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.33  E-value=0.061  Score=51.23  Aligned_cols=96  Identities=13%  Similarity=0.089  Sum_probs=61.2

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEe-Ccchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTT-RDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTT-R~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +.+-++|+|+++..  ..++.++..+.+..+.+.+|++| +...+...+ .....+++++++.++..+.+...+-.....
T Consensus       126 ~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~  205 (397)
T PRK14955        126 GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGIS  205 (397)
T ss_pred             CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCC
Confidence            45668999999854  35667766665545566666555 333333332 123478899999999888887765222211


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                        -.++.+..|++.++|.+--+
T Consensus       206 --i~~~al~~l~~~s~g~lr~a  225 (397)
T PRK14955        206 --VDADALQLIGRKAQGSMRDA  225 (397)
T ss_pred             --CCHHHHHHHHHHcCCCHHHH
Confidence              12456778999999977533

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.31  E-value=0.089  Score=52.77  Aligned_cols=95  Identities=13%  Similarity=0.089  Sum_probs=59.1

Q ss_pred             CCCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEe-Ccchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTT-RDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTT-R~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+.+-++|+|+++...  ..+.|+..+..-.+.+.+|++| +...+...+ .....+++.+++.++....+.+.+-....
T Consensus       125 ~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi  204 (620)
T PRK14954        125 KGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGI  204 (620)
T ss_pred             cCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCC
Confidence            3456678999998653  4666666665444555555444 433343332 23568999999999988877765532221


Q ss_pred             CChhHHHHHHHHHHHcCCCch
Q 045618          170 CPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPL  190 (349)
                      ..  ..+.+..|++.++|-.-
T Consensus       205 ~I--~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        205 QI--DADALQLIARKAQGSMR  223 (620)
T ss_pred             CC--CHHHHHHHHHHhCCCHH
Confidence            11  23557788899998554

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.29  E-value=0.072  Score=50.90  Aligned_cols=100  Identities=17%  Similarity=0.183  Sum_probs=55.7

Q ss_pred             HHHHhCCCceEEEEecCCCch---h-HHHHHcccCC-CCCCcEEEEEeCcch-hh--------cccCcccEEEcCCCChH
Q 045618           89 VRERLRRTKVLIVLDDVNKVG---Q-LEYLIGGLER-FGPGSRIIVTTRDRR-VL--------DNFGVGNIYKVNGLKYR  154 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~~---~-~~~l~~~~~~-~~~~~~IlvTTR~~~-~~--------~~~~~~~~~~l~~L~~~  154 (349)
                      +.+.+.+ .-+|+|||++...   . .+.+...+.. ...+..+|+||.... ..        ..+.....+.+++.+.+
T Consensus       193 ~~~~~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~  271 (405)
T TIGR00362       193 FKEKYRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLE  271 (405)
T ss_pred             HHHHHHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHH
Confidence            3444443 3488999997421   1 1222222211 023556788776432 11        11223346899999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchH
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLA  191 (349)
                      +-..++.+.+.......  .++....|++.+.|.+-.
T Consensus       272 ~r~~il~~~~~~~~~~l--~~e~l~~ia~~~~~~~r~  306 (405)
T TIGR00362       272 TRLAILQKKAEEEGLEL--PDEVLEFIAKNIRSNVRE  306 (405)
T ss_pred             HHHHHHHHHHHHcCCCC--CHHHHHHHHHhcCCCHHH
Confidence            99999998874433222  135566777777765543

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=96.25  E-value=0.0018  Score=57.29  Aligned_cols=78  Identities=12%  Similarity=0.058  Sum_probs=42.0

Q ss_pred             cCCCCCchhhHHHHHHhhh--------hcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcc-cCCCCCC-H
Q 045618           16 RATSCGIVKIRRCLMVFRL--------CSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQ-EQIRTPN-L   85 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~--------~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~-~~~~~~~-~   85 (349)
                      ..+++|.|||||++..++.        +.|+++.++               +.....++++++...+.-. .+..... .
T Consensus        21 I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~e---------------r~~ev~el~~~I~~~~v~~~~~~~~~~~~   85 (249)
T cd01128          21 IVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDE---------------RPEEVTDMQRSVKGEVIASTFDEPPERHV   85 (249)
T ss_pred             EECCCCCCHHHHHHHHHhccccccCCeEEEEEEccC---------------CCccHHHHHHHhccEEEEecCCCCHHHHH
Confidence            5677999999999865532        334333332               1136777777773333111 1111000 0


Q ss_pred             H------HHHHH-HhCCCceEEEEecCCCc
Q 045618           86 P------EYVRE-RLRRTKVLIVLDDVNKV  108 (349)
Q Consensus        86 ~------~~l~~-~L~~~~~LlVlDdv~~~  108 (349)
                      .      +.... .-.+++.++++|++...
T Consensus        86 ~~~~~~~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          86 QVAEMVLEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEECHHHh
Confidence            0      01111 23479999999999643

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=96.23  E-value=0.28  Score=49.19  Aligned_cols=98  Identities=16%  Similarity=0.092  Sum_probs=62.7

Q ss_pred             CCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEe-Ccchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTT-RDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTT-R~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++...  ..+.|+..+..-...+++|++| ....+...+ .-...+++.+++.++....+.+.+-.....
T Consensus       131 a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~  210 (598)
T PRK09111        131 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE  210 (598)
T ss_pred             CCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC
Confidence            455679999998553  4666666665445566666555 333333333 234579999999999998888876333222


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      .  ..+.+..|++.++|-+.-+..
T Consensus       211 i--~~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        211 V--EDEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHH
Confidence            1  135567888889988765443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=96.20  E-value=0.077  Score=53.43  Aligned_cols=110  Identities=17%  Similarity=0.081  Sum_probs=64.2

Q ss_pred             HHHHHHhCCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEE--EeCcchh-hccc-CcccEEEcCCCChHhHHHHH
Q 045618           87 EYVRERLRRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIV--TTRDRRV-LDNF-GVGNIYKVNGLKYREALELF  160 (349)
Q Consensus        87 ~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~Ilv--TTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~  160 (349)
                      ..+...+++++++++-|+.|..  ..|+.+...+....+...+++  ||++... ...+ .-...+.+++++.+|.+.++
T Consensus       283 ~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il  362 (615)
T TIGR02903       283 NKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIV  362 (615)
T ss_pred             HHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHH
Confidence            3788888888888887766643  346665544444444445555  5665432 1111 12236788999999999999


Q ss_pred             HHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHH
Q 045618          161 CNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSF  198 (349)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~  198 (349)
                      .+.+.......  .++....|.+.+..-+-|+..++..
T Consensus       363 ~~~a~~~~v~l--s~eal~~L~~ys~~gRraln~L~~~  398 (615)
T TIGR02903       363 LNAAEKINVHL--AAGVEELIARYTIEGRKAVNILADV  398 (615)
T ss_pred             HHHHHHcCCCC--CHHHHHHHHHCCCcHHHHHHHHHHH
Confidence            98774322111  1334445555554446666655433

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

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

Probab=96.16  E-value=0.13  Score=50.02  Aligned_cols=92  Identities=15%  Similarity=0.131  Sum_probs=60.0

Q ss_pred             CceEEEEecCC--CchhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVN--KVGQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      +.=..|+|.|+  ....+..|+..+..--...+.|..|.+++ +.... .-.+.|.++.++.++-...+...+.......
T Consensus       119 ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~  198 (515)
T COG2812         119 RYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINI  198 (515)
T ss_pred             cceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCcc
Confidence            44578999998  45678899888866566777777777664 33322 3345799999999988888887774433222


Q ss_pred             hhHHHHHHHHHHHcCCCc
Q 045618          172 EDLLVHSKRILDYANGNP  189 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glP  189 (349)
                        .++....|++.-+|..
T Consensus       199 --e~~aL~~ia~~a~Gs~  214 (515)
T COG2812         199 --EEDALSLIARAAEGSL  214 (515)
T ss_pred             --CHHHHHHHHHHcCCCh
Confidence              2333445555555533

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.15  E-value=0.2  Score=50.21  Aligned_cols=99  Identities=15%  Similarity=0.115  Sum_probs=62.9

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ...+.|+..+......+.+|++|.+. .+...+ .....+.+.+++..+....+...+......
T Consensus       119 ~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~  198 (585)
T PRK14950        119 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN  198 (585)
T ss_pred             CCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            45678999999854  44666666655444566666666443 333322 223478899999999888888776433322


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVL  195 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~  195 (349)
                      .  ..+.+..|++.++|.+..+...
T Consensus       199 i--~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        199 L--EPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHHH
Confidence            1  2355778899999988654433

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.12  E-value=0.087  Score=52.58  Aligned_cols=103  Identities=12%  Similarity=0.098  Sum_probs=65.0

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++-++|+|+++..  .....|+..+........+|++|.+ ..+...+ .-...+++++++.++..+.+...+.....
T Consensus       117 ~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi  196 (624)
T PRK14959        117 EGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV  196 (624)
T ss_pred             cCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC
Confidence            456679999999854  4466666665443445556665554 3333232 22347899999999999888876643322


Q ss_pred             CChhHHHHHHHHHHHcCCCc-hHHHHHhHH
Q 045618          170 CPEDLLVHSKRILDYANGNP-LAVRVLGSF  198 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glP-LAl~~~a~~  198 (349)
                      ..  ..+.+..|++.++|-+ .|+..+...
T Consensus       197 ~i--d~eal~lIA~~s~GdlR~Al~lLeql  224 (624)
T PRK14959        197 DY--DPAAVRLIARRAAGSVRDSMSLLGQV  224 (624)
T ss_pred             CC--CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            11  2355678888888854 566666543

>PRK04132 replication factor C small subunit; Provisional

Probab=96.11  E-value=0.17  Score=52.34  Aligned_cols=94  Identities=17%  Similarity=0.185  Sum_probs=62.0

Q ss_pred             CceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      +.-++|+|+++...  ....|+..+......+++|.++.+.. +...+ .-...+++++++.++-.+.+...+-......
T Consensus       630 ~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i  709 (846)
T PRK04132        630 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLEL  709 (846)
T ss_pred             CCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCC
Confidence            45799999999653  56666666655456667776666543 33333 2245899999999998888877653222111


Q ss_pred             hhHHHHHHHHHHHcCCCchH
Q 045618          172 EDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glPLA  191 (349)
                        ..+....|++.++|-+..
T Consensus       710 --~~e~L~~Ia~~s~GDlR~  727 (846)
T PRK04132        710 --TEEGLQAILYIAEGDMRR  727 (846)
T ss_pred             --CHHHHHHHHHHcCCCHHH
Confidence              134677889999997743

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=96.04  E-value=0.044  Score=50.47  Aligned_cols=89  Identities=12%  Similarity=0.191  Sum_probs=60.8

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhcccC-cccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNFG-VGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~~-~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++=.+|+|+++..  .....|+..+.+-.+++.+|++|.++ .+...+. -...+.+.+++.++..+.+.... ..   
T Consensus       106 g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~~-~~---  181 (325)
T PRK06871        106 GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQS-SA---  181 (325)
T ss_pred             CCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHHh-cc---
Confidence            45667889999854  45677777666556677777777665 3444432 24589999999999998887753 11   


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      .   ...+...+..++|.|+
T Consensus       182 ~---~~~~~~~~~l~~g~p~  198 (325)
T PRK06871        182 E---ISEILTALRINYGRPL  198 (325)
T ss_pred             C---hHHHHHHHHHcCCCHH
Confidence            1   1225567788999995

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.97  E-value=0.19  Score=50.19  Aligned_cols=94  Identities=16%  Similarity=0.130  Sum_probs=59.3

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeC-cchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTR-DRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR-~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ...+.|+..+......+.+|++|. ...+...+ .-...+++.+++.++..+.+.+.+......
T Consensus       117 ~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~  196 (584)
T PRK14952        117 SRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVV  196 (584)
T ss_pred             CCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCC
Confidence            45668999999843  456666666655455665555554 34443332 224579999999999888887766332221


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      .  ....+..|++..+|-+-
T Consensus       197 i--~~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        197 V--DDAVYPLVIRAGGGSPR  214 (584)
T ss_pred             C--CHHHHHHHHHHcCCCHH
Confidence            1  13445677888888764

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=95.95  E-value=0.12  Score=49.83  Aligned_cols=99  Identities=15%  Similarity=0.194  Sum_probs=54.8

Q ss_pred             HHHHhCCCceEEEEecCCCc---hhH-HHHHcccCC-CCCCcEEEEEeC-cchhhc--------ccCcccEEEcCCCChH
Q 045618           89 VRERLRRTKVLIVLDDVNKV---GQL-EYLIGGLER-FGPGSRIIVTTR-DRRVLD--------NFGVGNIYKVNGLKYR  154 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~---~~~-~~l~~~~~~-~~~~~~IlvTTR-~~~~~~--------~~~~~~~~~l~~L~~~  154 (349)
                      +++......-+|++||+...   ... +.+...+.. ...+..||+||. .+.-..        .+.....+.+++.+.+
T Consensus       187 f~~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e  266 (440)
T PRK14088        187 FREKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEE  266 (440)
T ss_pred             HHHHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHH
Confidence            34444444568999999732   111 122221110 023457888875 332211        1223447889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      +-..++.+.+.......  .++.+..|++.+.|..
T Consensus       267 ~r~~IL~~~~~~~~~~l--~~ev~~~Ia~~~~~~~  299 (440)
T PRK14088        267 TRKKIARKMLEIEHGEL--PEEVLNFVAENVDDNL  299 (440)
T ss_pred             HHHHHHHHHHHhcCCCC--CHHHHHHHHhccccCH
Confidence            99999998874332221  1355666777666643

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.91  E-value=0.036  Score=54.06  Aligned_cols=98  Identities=10%  Similarity=0.069  Sum_probs=59.7

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ...+.|+..+....+...+|++|.+ ..+...+ .....+.+.+++.++-...+...+-.....
T Consensus       118 ~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~  197 (486)
T PRK14953        118 GKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE  197 (486)
T ss_pred             CCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC
Confidence            56679999999854  3455665555443445555555543 3333222 223478999999999888888765332221


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      .  .++.+..|++.++|.+..+..
T Consensus       198 i--d~~al~~La~~s~G~lr~al~  219 (486)
T PRK14953        198 Y--EEKALDLLAQASEGGMRDAAS  219 (486)
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHH
Confidence            1  235566788888887654433

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=95.88  E-value=0.092  Score=49.89  Aligned_cols=91  Identities=19%  Similarity=0.266  Sum_probs=52.6

Q ss_pred             CCceEEEEecCCCc------------hh----HHHHHcccCC--CCCCcEEEEEeCcchhhcc-c----CcccEEEcCCC
Q 045618           95 RTKVLIVLDDVNKV------------GQ----LEYLIGGLER--FGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNGL  151 (349)
Q Consensus        95 ~~~~LlVlDdv~~~------------~~----~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L  151 (349)
                      ....+|+||+++..            ..    +..++..+..  ...+..||.||...+.... +    .....+++++.
T Consensus       223 ~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P  302 (389)
T PRK03992        223 KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLP  302 (389)
T ss_pred             cCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCC
Confidence            45789999999743            11    2223322221  1235667777766543221 1    12457999999


Q ss_pred             ChHhHHHHHHHhhccCCCCC-hhHHHHHHHHHHHcCCCc
Q 045618          152 KYREALELFCNCAFKENHCP-EDLLVHSKRILDYANGNP  189 (349)
Q Consensus       152 ~~~ea~~L~~~~a~~~~~~~-~~~~~~~~~i~~~c~glP  189 (349)
                      +.++-.++|+.+..+..... ..    ...+++.+.|.-
T Consensus       303 ~~~~R~~Il~~~~~~~~~~~~~~----~~~la~~t~g~s  337 (389)
T PRK03992        303 DEEGRLEILKIHTRKMNLADDVD----LEELAELTEGAS  337 (389)
T ss_pred             CHHHHHHHHHHHhccCCCCCcCC----HHHHHHHcCCCC
Confidence            99999999998764333221 22    345666666643

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=95.87  E-value=0.089  Score=47.04  Aligned_cols=69  Identities=10%  Similarity=0.081  Sum_probs=42.1

Q ss_pred             ceEEEEecCCC----------chhHHHHHcccCCCCCCcEEEEEeCcchhhc------cc--CcccEEEcCCCChHhHHH
Q 045618           97 KVLIVLDDVNK----------VGQLEYLIGGLERFGPGSRIIVTTRDRRVLD------NF--GVGNIYKVNGLKYREALE  158 (349)
Q Consensus        97 ~~LlVlDdv~~----------~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~------~~--~~~~~~~l~~L~~~ea~~  158 (349)
                      ..+|++|+++.          .+....+............+++++.......      .+  .....+++++++.++-.+
T Consensus       106 ~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~  185 (261)
T TIGR02881       106 GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELME  185 (261)
T ss_pred             CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHH
Confidence            35899999974          2245556555544444445566654432211      11  123468899999999999


Q ss_pred             HHHHhhc
Q 045618          159 LFCNCAF  165 (349)
Q Consensus       159 L~~~~a~  165 (349)
                      ++.+.+.
T Consensus       186 Il~~~~~  192 (261)
T TIGR02881       186 IAERMVK  192 (261)
T ss_pred             HHHHHHH
Confidence            9987763

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=95.87  E-value=0.13  Score=49.96  Aligned_cols=100  Identities=14%  Similarity=0.149  Sum_probs=57.1

Q ss_pred             HHHHhCCCceEEEEecCCCc---h-hHHHHHcccCC-CCCCcEEEEEeCcch--h-------hcccCcccEEEcCCCChH
Q 045618           89 VRERLRRTKVLIVLDDVNKV---G-QLEYLIGGLER-FGPGSRIIVTTRDRR--V-------LDNFGVGNIYKVNGLKYR  154 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~---~-~~~~l~~~~~~-~~~~~~IlvTTR~~~--~-------~~~~~~~~~~~l~~L~~~  154 (349)
                      +.+.+. +.-+|+|||++..   . ..+.+...+.. ...+..||+||....  +       ...+.....+++++++.+
T Consensus       205 ~~~~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~  283 (450)
T PRK00149        205 FKEKYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLE  283 (450)
T ss_pred             HHHHHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHH
Confidence            444444 3448999999632   1 11222221110 023455788776542  1       122333457999999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchH
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLA  191 (349)
                      +-..++.+.+-......  .++...-|++.+.|-.-.
T Consensus       284 ~r~~il~~~~~~~~~~l--~~e~l~~ia~~~~~~~R~  318 (450)
T PRK00149        284 TRIAILKKKAEEEGIDL--PDEVLEFIAKNITSNVRE  318 (450)
T ss_pred             HHHHHHHHHHHHcCCCC--CHHHHHHHHcCcCCCHHH
Confidence            99999999874432211  235567777777776553

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=95.86  E-value=0.11  Score=47.02  Aligned_cols=68  Identities=13%  Similarity=0.069  Sum_probs=42.8

Q ss_pred             ceEEEEecCCCc-----------hhHHHHHcccCCCCCCcEEEEEeCcchhhcc--c------CcccEEEcCCCChHhHH
Q 045618           97 KVLIVLDDVNKV-----------GQLEYLIGGLERFGPGSRIIVTTRDRRVLDN--F------GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        97 ~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~--~------~~~~~~~l~~L~~~ea~  157 (349)
                      .-+|+||++...           +.+..|...+.....+.+||+++........  .      .....+++++++.+|-.
T Consensus       122 ~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~  201 (284)
T TIGR02880       122 GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELL  201 (284)
T ss_pred             CcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHH
Confidence            368999999622           2244555555444456677777654322111  1      11346899999999999


Q ss_pred             HHHHHhh
Q 045618          158 ELFCNCA  164 (349)
Q Consensus       158 ~L~~~~a  164 (349)
                      +++...+
T Consensus       202 ~I~~~~l  208 (284)
T TIGR02880       202 VIAGLML  208 (284)
T ss_pred             HHHHHHH
Confidence            9988876

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=95.85  E-value=0.009  Score=55.91  Aligned_cols=79  Identities=11%  Similarity=-0.020  Sum_probs=43.0

Q ss_pred             cCCCCCchhhHHHHHHh--------hhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH
Q 045618           16 RATSCGIVKIRRCLMVF--------RLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE   87 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f--------~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~   87 (349)
                      ..+++|.|||||++..+        +.+.|+++.+++.               -...+++++++..+.-.........+.
T Consensus       174 IvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~---------------~EVtdiqrsIlg~vv~st~d~~~~~~~  238 (416)
T PRK09376        174 IVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERP---------------EEVTDMQRSVKGEVVASTFDEPAERHV  238 (416)
T ss_pred             EeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCch---------------hHHHHHHHHhcCcEEEECCCCCHHHHH
Confidence            45668999999998544        4445655555541               144566666654332111111100000


Q ss_pred             -------HHHHH--hCCCceEEEEecCCCch
Q 045618           88 -------YVRER--LRRTKVLIVLDDVNKVG  109 (349)
Q Consensus        88 -------~l~~~--L~~~~~LlVlDdv~~~~  109 (349)
                             ...+.  -.+++++|++|++....
T Consensus       239 ~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~a  269 (416)
T PRK09376        239 QVAEMVIEKAKRLVEHGKDVVILLDSITRLA  269 (416)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEEEEChHHHH
Confidence                   11111  36799999999997543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=95.83  E-value=0.24  Score=47.85  Aligned_cols=96  Identities=10%  Similarity=0.082  Sum_probs=50.7

Q ss_pred             HHHHhCCCceEEEEecCCCch----hHHHHHcccCC-CCCCcEEEEEeCcc-hh--------hcccCcccEEEcCCCChH
Q 045618           89 VRERLRRTKVLIVLDDVNKVG----QLEYLIGGLER-FGPGSRIIVTTRDR-RV--------LDNFGVGNIYKVNGLKYR  154 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~~----~~~~l~~~~~~-~~~~~~IlvTTR~~-~~--------~~~~~~~~~~~l~~L~~~  154 (349)
                      ++.... ..-+|++||+....    ..+.+...+.. ...+..||+||... ..        ...+.....+.+++++.+
T Consensus       196 f~~~~~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e  274 (445)
T PRK12422        196 FRQFYR-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKE  274 (445)
T ss_pred             HHHHcc-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHH
Confidence            444444 34578889986431    11222221110 02355788888553 11        112233457889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCC
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANG  187 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~g  187 (349)
                      +-..++.+.+-......  ..+...-|+..+.+
T Consensus       275 ~r~~iL~~k~~~~~~~l--~~evl~~la~~~~~  305 (445)
T PRK12422        275 GLRSFLERKAEALSIRI--EETALDFLIEALSS  305 (445)
T ss_pred             HHHHHHHHHHHHcCCCC--CHHHHHHHHHhcCC
Confidence            99999988774332111  12334445555443

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=95.83  E-value=0.11  Score=47.86  Aligned_cols=91  Identities=16%  Similarity=0.185  Sum_probs=61.2

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhcccC-cccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNFG-VGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~~-~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  .....|+..+.+-..++.+|++|.++ .+...+. -...+.+.+++.+++.+.+....    ..
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~----~~  187 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG----VS  187 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC----CC
Confidence            45678999999854  44566666665555677777777654 3444432 24578999999999988886531    11


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVR  193 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~  193 (349)
                          ...+..++..++|.|+...
T Consensus       188 ----~~~a~~~~~l~~G~p~~A~  206 (319)
T PRK08769        188 ----ERAAQEALDAARGHPGLAA  206 (319)
T ss_pred             ----hHHHHHHHHHcCCCHHHHH
Confidence                2235678999999997553

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=95.77  E-value=0.42  Score=43.87  Aligned_cols=69  Identities=12%  Similarity=0.242  Sum_probs=39.9

Q ss_pred             CCceEEEEecCCCc--h-hHHHHHcccCCCCCCcEEEEEeCcchh-hccc-CcccEEEcCCCChHhHHHHHHHh
Q 045618           95 RTKVLIVLDDVNKV--G-QLEYLIGGLERFGPGSRIIVTTRDRRV-LDNF-GVGNIYKVNGLKYREALELFCNC  163 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~-~~~~l~~~~~~~~~~~~IlvTTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~~~~  163 (349)
                      +.+-++|+|+++..  . ....+...+.....++.+|+||..... ...+ .....+.++..+.++..+++...
T Consensus        99 ~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~~~  172 (316)
T PHA02544         99 GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQM  172 (316)
T ss_pred             CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHHHH
Confidence            34568999999854  2 223333333333567788888865432 1111 12236777778888877766543

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

Probab=95.74  E-value=0.13  Score=45.92  Aligned_cols=153  Identities=15%  Similarity=0.168  Sum_probs=89.3

Q ss_pred             EEEEeCcchhhccc--CcccEEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCH
Q 045618          127 IIVTTRDRRVLDNF--GVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSK  204 (349)
Q Consensus       127 IlvTTR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~  204 (349)
                      |=.|||.-.+...+  ...-+.++.-.+.+|-.++..+.+.--..  +-.++.+.+|+++..|-|-   ++.+.|++.  
T Consensus       155 IGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i--~i~~~~a~eIA~rSRGTPR---IAnRLLrRV--  227 (332)
T COG2255         155 IGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGI--EIDEEAALEIARRSRGTPR---IANRLLRRV--  227 (332)
T ss_pred             eeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCC--CCChHHHHHHHHhccCCcH---HHHHHHHHH--
Confidence            44677765444433  23446788889999998888887722221  1224568899999999994   444444331  


Q ss_pred             HHHHHHHHHhhcCCC----CcHHHHHHHhHhcCChhHHHHHHHhcc-cCCC-CCHHHHHHHhccc-ccHHHhHH-HHhhC
Q 045618          205 LDWESALDNLKRISD----PDIYDVLKISYNEIKAEEKSLFLDIAC-FFNG-QDKDSVLKMIGDS-SFAHYGLN-VLVDK  276 (349)
Q Consensus       205 ~~~~~~l~~l~~~~~----~~l~~~l~~s~~~L~~~~~~~f~~la~-fp~~-~~~~~l~~~~~~~-~~~~~~l~-~L~~~  276 (349)
                      .++..+...  ....    ......+.+--..|..-.++.+..+.- |.++ +-.+.+....+.+ ...++.++ .|+..
T Consensus       228 RDfa~V~~~--~~I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv~EPyLiq~  305 (332)
T COG2255         228 RDFAQVKGD--GDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVIEPYLIQQ  305 (332)
T ss_pred             HHHHHHhcC--CcccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHHHhHHHHHh
Confidence            122211110  0000    112223333334455555555554443 4333 8888888888877 66666555 79999


Q ss_pred             cceEEcCCCeEE
Q 045618          277 SLVTVSRGNQLQ  288 (349)
Q Consensus       277 sLl~~~~~~~~~  288 (349)
                      +|+++...|+..
T Consensus       306 gfi~RTpRGR~a  317 (332)
T COG2255         306 GFIQRTPRGRIA  317 (332)
T ss_pred             chhhhCCCccee
Confidence            999998877754

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=95.70  E-value=0.27  Score=45.17  Aligned_cols=91  Identities=16%  Similarity=0.217  Sum_probs=61.6

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhcccC-cccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNFG-VGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~~-~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-.+|+|+++..  .....|+..+.+-.+++.+|.+|.++ .+...+. -...+.+++++.++..+.+....    ..
T Consensus       107 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~----~~  182 (319)
T PRK06090        107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQG----IT  182 (319)
T ss_pred             CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcC----Cc
Confidence            44568899999854  45677777666556677776666665 4444442 24579999999999998886542    11


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVL  195 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~  195 (349)
                            .+..+++.++|.|+.....
T Consensus       183 ------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        183 ------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             ------hHHHHHHHcCCCHHHHHHH
Confidence                  1346788999999865433

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=95.66  E-value=0.063  Score=52.77  Aligned_cols=96  Identities=13%  Similarity=0.103  Sum_probs=62.1

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  +..+.|+..+....+.+.+|++|.++. +...+ .-...+++.+++.++....+...+......
T Consensus       116 ~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~  195 (535)
T PRK08451        116 ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVS  195 (535)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCC
Confidence            45668999999854  345666666654455677676666542 22222 224589999999999988888766333222


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .  .++.+..|++.++|-+.-+
T Consensus       196 i--~~~Al~~Ia~~s~GdlR~a  215 (535)
T PRK08451        196 Y--EPEALEILARSGNGSLRDT  215 (535)
T ss_pred             C--CHHHHHHHHHHcCCcHHHH
Confidence            1  2356678888888887443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=95.57  E-value=0.17  Score=50.32  Aligned_cols=97  Identities=11%  Similarity=0.108  Sum_probs=62.3

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++-++|+|+++..  ..++.|+..+....+.+.+|.+|.+. .+...+ .-...+++.+++.++-.+.+...+.....
T Consensus       117 ~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi  196 (563)
T PRK06647        117 SSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI  196 (563)
T ss_pred             cCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC
Confidence            356678999999854  34667777665545566666665443 333222 22346899999999988888876633332


Q ss_pred             CChhHHHHHHHHHHHcCCCchHH
Q 045618          170 CPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      ..  .++.+..|++.++|-+-.+
T Consensus       197 ~i--d~eAl~lLa~~s~GdlR~a  217 (563)
T PRK06647        197 KY--EDEALKWIAYKSTGSVRDA  217 (563)
T ss_pred             CC--CHHHHHHHHHHcCCCHHHH
Confidence            21  2455677888888877533

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=95.51  E-value=1.1  Score=46.56  Aligned_cols=142  Identities=8%  Similarity=0.019  Sum_probs=70.7

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeeh--hhhccHHHHHHHHHHHhhcccCCCCCCHHH---HHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRE--SRSIMNQRVSNKFLGWLVEQEQIRTPNLPE---YVR   90 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~--~~~~~~~~l~~~il~~l~~~~~~~~~~~~~---~l~   90 (349)
                      ..|+-|.|||+.++.+.+...-.. ..    .....+.++.+  ..-.....+...|..++.+..........+   .+.
T Consensus       786 IyG~PGTGKTATVK~VLrELqeea-eq----k~lp~f~vVYINCm~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF  860 (1164)
T PTZ00112        786 ISGMPGTGKTATVYSVIQLLQHKT-KQ----KLLPSFNVFEINGMNVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLF  860 (1164)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHHH-hh----ccCCCceEEEEeCCccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHH
Confidence            356679999999997654321000 00    00011223333  222355666677777774433322222222   444


Q ss_pred             HHhCC---CceEEEEecCCCch-----hHHHHHcccCCCCCCcEEEE--EeCcchh--------hcccCcccEEEcCCCC
Q 045618           91 ERLRR---TKVLIVLDDVNKVG-----QLEYLIGGLERFGPGSRIIV--TTRDRRV--------LDNFGVGNIYKVNGLK  152 (349)
Q Consensus        91 ~~L~~---~~~LlVlDdv~~~~-----~~~~l~~~~~~~~~~~~Ilv--TTR~~~~--------~~~~~~~~~~~l~~L~  152 (349)
                      ..+..   ...+||||+++...     .+-.|.....  ..+++|+|  +|..-+.        ...++ ...+..+|++
T Consensus       861 ~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~--~s~SKLiLIGISNdlDLperLdPRLRSRLg-~eeIvF~PYT  937 (1164)
T PTZ00112        861 NQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT--KINSKLVLIAISNTMDLPERLIPRCRSRLA-FGRLVFSPYK  937 (1164)
T ss_pred             hhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh--ccCCeEEEEEecCchhcchhhhhhhhhccc-cccccCCCCC
Confidence            44422   24699999998432     1222222111  23444433  3332111        11122 1236679999


Q ss_pred             hHhHHHHHHHhhc
Q 045618          153 YREALELFCNCAF  165 (349)
Q Consensus       153 ~~ea~~L~~~~a~  165 (349)
                      .++-.+++..++.
T Consensus       938 aEQL~dILk~RAe  950 (1164)
T PTZ00112        938 GDEIEKIIKERLE  950 (1164)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998874

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=95.51  E-value=0.33  Score=49.43  Aligned_cols=98  Identities=16%  Similarity=0.108  Sum_probs=60.5

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEE-EEeCcchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRII-VTTRDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~Il-vTTR~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ..+..|+..+......+.+| +|++...+...+ .-...+++.+++.++-...+...+-.....
T Consensus       117 g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~  196 (725)
T PRK07133        117 SKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENIS  196 (725)
T ss_pred             CCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCC
Confidence            56678999999854  45666766554434455544 454444443332 223589999999999888887755322211


Q ss_pred             ChhHHHHHHHHHHHcCCCch-HHHH
Q 045618          171 PEDLLVHSKRILDYANGNPL-AVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL-Al~~  194 (349)
                      .  ....+..|++.++|-+- |+..
T Consensus       197 i--d~eAl~~LA~lS~GslR~Alsl  219 (725)
T PRK07133        197 Y--EKNALKLIAKLSSGSLRDALSI  219 (725)
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHHH
Confidence            1  13456788888988664 4433

>CHL00181 cbbX CbbX; Provisional

Probab=95.24  E-value=0.37  Score=43.72  Aligned_cols=69  Identities=13%  Similarity=0.092  Sum_probs=44.1

Q ss_pred             ceEEEEecCCCc-----------hhHHHHHcccCCCCCCcEEEEEeCcchhhcc------c--CcccEEEcCCCChHhHH
Q 045618           97 KVLIVLDDVNKV-----------GQLEYLIGGLERFGPGSRIIVTTRDRRVLDN------F--GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        97 ~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~------~--~~~~~~~l~~L~~~ea~  157 (349)
                      .-+|+||++...           +..+.|...+.....+..||.++........      +  .....+.+++++.+|-.
T Consensus       123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~  202 (287)
T CHL00181        123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELL  202 (287)
T ss_pred             CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHH
Confidence            358999999642           2344555544444556777777754332111      1  12447999999999999


Q ss_pred             HHHHHhhc
Q 045618          158 ELFCNCAF  165 (349)
Q Consensus       158 ~L~~~~a~  165 (349)
                      +++...+-
T Consensus       203 ~I~~~~l~  210 (287)
T CHL00181        203 QIAKIMLE  210 (287)
T ss_pred             HHHHHHHH
Confidence            99888773

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

Probab=95.20  E-value=0.24  Score=44.84  Aligned_cols=172  Identities=12%  Similarity=0.005  Sum_probs=93.6

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH---HHHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE---YVRER   92 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~---~l~~~   92 (349)
                      .+|.+|+|||++++...+. .-.....   .....-+..+..-..++...+...||..+.-... .-.+..+   .....
T Consensus        66 ivG~snnGKT~Ii~rF~~~-hp~~~d~---~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~-~~~~~~~~~~~~~~l  140 (302)
T PF05621_consen   66 IVGDSNNGKTMIIERFRRL-HPPQSDE---DAERIPVVYVQMPPEPDERRFYSAILEALGAPYR-PRDRVAKLEQQVLRL  140 (302)
T ss_pred             EecCCCCcHHHHHHHHHHH-CCCCCCC---CCccccEEEEecCCCCChHHHHHHHHHHhCcccC-CCCCHHHHHHHHHHH
Confidence            4566899999999643332 2212111   1111233446666778999999999999833222 2223322   55566


Q ss_pred             hCC-CceEEEEecCCCc-----hhHHHH---HcccCCCCCCcEEEEEeCcchhhcccC-----cccEEEcCCCChHh-HH
Q 045618           93 LRR-TKVLIVLDDVNKV-----GQLEYL---IGGLERFGPGSRIIVTTRDRRVLDNFG-----VGNIYKVNGLKYRE-AL  157 (349)
Q Consensus        93 L~~-~~~LlVlDdv~~~-----~~~~~l---~~~~~~~~~~~~IlvTTR~~~~~~~~~-----~~~~~~l~~L~~~e-a~  157 (349)
                      ++. +--+||+|.+++.     .+-+.+   +..+.+.-.-+-|.|-|++.--+-...     -..++.++.-..++ ..
T Consensus       141 lr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~  220 (302)
T PF05621_consen  141 LRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLASRFEPFELPRWELDEEFR  220 (302)
T ss_pred             HHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHhccCCccCCCCCCCcHHH
Confidence            665 4568999999753     222222   233333344566777776653322111     12356666655443 44


Q ss_pred             HHHHHhhcc---CCCCChhHHHHHHHHHHHcCCCchHH
Q 045618          158 ELFCNCAFK---ENHCPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       158 ~L~~~~a~~---~~~~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .|+......   .....-...+++..|...++|+.--+
T Consensus       221 ~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l  258 (302)
T PF05621_consen  221 RLLASFERALPLRKPSNLASPELARRIHERSEGLIGEL  258 (302)
T ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHH
Confidence            454432211   11122234678899999999987443

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

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=95.20  E-value=0.72  Score=43.38  Aligned_cols=252  Identities=14%  Similarity=0.113  Sum_probs=124.8

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCC--HHHHHHHHh
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPN--LPEYVRERL   93 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~--~~~~l~~~L   93 (349)
                      .+|+-|.|||..++.+++...-..-...        +..|.-....++-.+..+|+.++.+.+......  ..+.+.+.+
T Consensus        47 iyG~~GTGKT~~~~~v~~~l~~~~~~~~--------~~yINc~~~~t~~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~  118 (366)
T COG1474          47 IYGPTGTGKTATVKFVMEELEESSANVE--------VVYINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNL  118 (366)
T ss_pred             EECCCCCCHhHHHHHHHHHHHhhhccCc--------eEEEeeeeCCCHHHHHHHHHHHcCCCCCCCCchHHHHHHHHHHH
Confidence            4566899999999977654332111110        122333334477788888888875333333322  233666666


Q ss_pred             CC--CceEEEEecCCCch-----hHHHHHcccCCCCCCcEEEEEeCcchhh--------cccCcccEEEcCCCChHhHHH
Q 045618           94 RR--TKVLIVLDDVNKVG-----QLEYLIGGLERFGPGSRIIVTTRDRRVL--------DNFGVGNIYKVNGLKYREALE  158 (349)
Q Consensus        94 ~~--~~~LlVlDdv~~~~-----~~~~l~~~~~~~~~~~~IlvTTR~~~~~--------~~~~~~~~~~l~~L~~~ea~~  158 (349)
                      ..  +..++|||+++...     .+-.|............+|..+-+-...        ..++. ..+..+|-+.+|-.+
T Consensus       119 ~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~rv~s~l~~-~~I~F~pY~a~el~~  197 (366)
T COG1474         119 SKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKSSLGP-SEIVFPPYTAEELYD  197 (366)
T ss_pred             HhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhhhhhhccCc-ceeeeCCCCHHHHHH
Confidence            55  78999999997432     2333333322221122233333333222        12222 247789999999999


Q ss_pred             HHHHhhcc---CCCCChhHHHHHHHHHHHcC-CCchHHHHHhHH--hccC------CHHHHHHHHHHhhcCCCCcHHHHH
Q 045618          159 LFCNCAFK---ENHCPEDLLVHSKRILDYAN-GNPLAVRVLGSF--LRQK------SKLDWESALDNLKRISDPDIYDVL  226 (349)
Q Consensus       159 L~~~~a~~---~~~~~~~~~~~~~~i~~~c~-glPLAl~~~a~~--l~~~------~~~~~~~~l~~l~~~~~~~l~~~l  226 (349)
                      ++...+-.   .....+..-+.+..++..-+ --=.||.++-..  +...      +...-....+..       -....
T Consensus       198 Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~~~~-------~~~~~  270 (366)
T COG1474         198 ILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQEEI-------ERDVL  270 (366)
T ss_pred             HHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHHh-------hHHHH
Confidence            99877632   22222222222223333333 222333322221  1110      111111111110       11122


Q ss_pred             HHhHhcCChhHHHHHHHhcccCCCCCHHHHHHHhccc-----c---cHHHhHHHHhhCcceEEcC
Q 045618          227 KISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDS-----S---FAHYGLNVLVDKSLVTVSR  283 (349)
Q Consensus       227 ~~s~~~L~~~~~~~f~~la~fp~~~~~~~l~~~~~~~-----~---~~~~~l~~L~~~sLl~~~~  283 (349)
                      .-....|+.+.+-.+..++.--.++....+......-     .   ...+.+.+|...++|....
T Consensus       271 ~~~~~~L~~~~ki~L~~i~~~~~~~~~~~~y~~y~~~~~~~~~~~~~~~~ii~~L~~lgiv~~~~  335 (366)
T COG1474         271 EEVLKTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERLRTSQRRFSDIISELEGLGIVSASL  335 (366)
T ss_pred             HHHHHcCCHhHHHHHHHHHHhcCCCChHHHHHHHHHHHhhhCchHHHHHHHHHHHHhcCeEEeee
Confidence            3346778877766554443332446655555443322     2   3456788999999998653

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.19  E-value=0.45  Score=44.75  Aligned_cols=94  Identities=15%  Similarity=0.183  Sum_probs=56.9

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ..++.+...+......+.+|++|.. ..+...+ .....+++++++.++....+...+......
T Consensus       107 ~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~  186 (367)
T PRK14970        107 GKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGIK  186 (367)
T ss_pred             CCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHHHHHHHHHHHcCCC
Confidence            45568999999754  3356665544333345555555533 3333222 223478999999999888888766433321


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      -  .++.+..|++.++|-+-
T Consensus       187 i--~~~al~~l~~~~~gdlr  204 (367)
T PRK14970        187 F--EDDALHIIAQKADGALR  204 (367)
T ss_pred             C--CHHHHHHHHHhCCCCHH
Confidence            1  13566778888887554

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=95.16  E-value=0.31  Score=48.58  Aligned_cols=96  Identities=15%  Similarity=0.118  Sum_probs=59.0

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .++.-++|+|+++..  ..+..|+..+......+.+|++|.+. .+...+ .-...+++.+++.++..+.+...+-....
T Consensus       117 ~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi  196 (559)
T PRK05563        117 EAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGI  196 (559)
T ss_pred             cCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC
Confidence            346678899999854  45667766655434455555555433 333322 22457889999999988888876633222


Q ss_pred             CChhHHHHHHHHHHHcCCCchH
Q 045618          170 CPEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLA  191 (349)
                      ..  ....+..|++.++|-+..
T Consensus       197 ~i--~~~al~~ia~~s~G~~R~  216 (559)
T PRK05563        197 EY--EDEALRLIARAAEGGMRD  216 (559)
T ss_pred             CC--CHHHHHHHHHHcCCCHHH
Confidence            11  134566778888876653

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=95.12  E-value=0.81  Score=44.38  Aligned_cols=94  Identities=12%  Similarity=0.109  Sum_probs=58.3

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc-chhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD-RRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +.+-++|+|+++..  ...+.|+..+......+.+|++|.+ ..+...+ .....+++.++++++-...+...+-.....
T Consensus       120 ~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~  199 (451)
T PRK06305        120 SRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIE  199 (451)
T ss_pred             CCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            56778999999754  3455555555443456666666543 3333332 234579999999999888887765332211


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      .  .++.+..|++.++|-+-
T Consensus       200 i--~~~al~~L~~~s~gdlr  217 (451)
T PRK06305        200 T--SREALLPIARAAQGSLR  217 (451)
T ss_pred             C--CHHHHHHHHHHcCCCHH
Confidence            1  23556788888888653

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.08  E-value=0.51  Score=47.58  Aligned_cols=97  Identities=15%  Similarity=0.155  Sum_probs=59.6

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  +....|+..+......+.+|++|.+. .+...+ .-...+++.+++.++....+...+......
T Consensus       120 ~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~  199 (620)
T PRK14948        120 ARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE  199 (620)
T ss_pred             CCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC
Confidence            45668999999854  44666766665444455555555443 333332 224578888999998888777665332211


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVR  193 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~  193 (349)
                      .  ..+.+..|++.++|.+..+.
T Consensus       200 i--s~~al~~La~~s~G~lr~A~  220 (620)
T PRK14948        200 I--EPEALTLVAQRSQGGLRDAE  220 (620)
T ss_pred             C--CHHHHHHHHHHcCCCHHHHH
Confidence            1  12456788888988775443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=95.07  E-value=0.37  Score=48.07  Aligned_cols=97  Identities=15%  Similarity=0.211  Sum_probs=54.8

Q ss_pred             HHHHhCCCceEEEEecCCCc---hhH-HHHHcccCC-CCCCcEEEEEeCcch---------hhcccCcccEEEcCCCChH
Q 045618           89 VRERLRRTKVLIVLDDVNKV---GQL-EYLIGGLER-FGPGSRIIVTTRDRR---------VLDNFGVGNIYKVNGLKYR  154 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~---~~~-~~l~~~~~~-~~~~~~IlvTTR~~~---------~~~~~~~~~~~~l~~L~~~  154 (349)
                      +++.+.. -=+|||||+...   ..+ +.|...+.. ...+..|||||+...         +...+...-.+++.+.+.+
T Consensus       371 f~~~y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~E  449 (617)
T PRK14086        371 FRRRYRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELE  449 (617)
T ss_pred             HHHHhhc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHH
Confidence            4444443 357888999633   112 222222211 123567888887632         2222334568999999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGN  188 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl  188 (349)
                      .-..++.+++-......+  ++++.-|++.+.+.
T Consensus       450 tR~aIL~kka~~r~l~l~--~eVi~yLa~r~~rn  481 (617)
T PRK14086        450 TRIAILRKKAVQEQLNAP--PEVLEFIASRISRN  481 (617)
T ss_pred             HHHHHHHHHHHhcCCCCC--HHHHHHHHHhccCC
Confidence            999999988744332221  34555666655544

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.04  E-value=0.071  Score=53.30  Aligned_cols=98  Identities=12%  Similarity=0.140  Sum_probs=58.6

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEe-Ccchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTT-RDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTT-R~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ...+.|+..+....+.+.+|++| ....+...+ .-...+++.+++.++....+...+-.....
T Consensus       118 ~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~  197 (576)
T PRK14965        118 SRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGIS  197 (576)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC
Confidence            45568999999854  34566666555444565555555 444444333 223478889999998888777655332221


Q ss_pred             ChhHHHHHHHHHHHcCCCc-hHHHH
Q 045618          171 PEDLLVHSKRILDYANGNP-LAVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glP-LAl~~  194 (349)
                      .  .++.+..|++.++|-. .|+..
T Consensus       198 i--~~~al~~la~~a~G~lr~al~~  220 (576)
T PRK14965        198 I--SDAALALVARKGDGSMRDSLST  220 (576)
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHHH
Confidence            1  1345667788888755 34433

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.00  E-value=0.33  Score=48.88  Aligned_cols=94  Identities=16%  Similarity=0.193  Sum_probs=60.2

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEe-Ccchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTT-RDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTT-R~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  ...+.|+..+..-...+.+|++| ....+...+ .-...+++.+++.++-...+.+.+-.....
T Consensus       120 ~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~  199 (614)
T PRK14971        120 GKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT  199 (614)
T ss_pred             CCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC
Confidence            35568899999864  34666666655444556655544 444444433 234589999999999988888766333322


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      .  ..+.+..|++.++|-.-
T Consensus       200 i--~~~al~~La~~s~gdlr  217 (614)
T PRK14971        200 A--EPEALNVIAQKADGGMR  217 (614)
T ss_pred             C--CHHHHHHHHHHcCCCHH
Confidence            1  13456788888888654

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

Probab=94.99  E-value=0.25  Score=47.04  Aligned_cols=96  Identities=16%  Similarity=0.165  Sum_probs=54.6

Q ss_pred             HHHhCCCceEEEEecCCCc------------h----hHHHHHcccCC--CCCCcEEEEEeCcchhhcc--c---CcccEE
Q 045618           90 RERLRRTKVLIVLDDVNKV------------G----QLEYLIGGLER--FGPGSRIIVTTRDRRVLDN--F---GVGNIY  146 (349)
Q Consensus        90 ~~~L~~~~~LlVlDdv~~~------------~----~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~--~---~~~~~~  146 (349)
                      .......+++|+||+++..            .    .+..++..+..  ...+..||.||...+....  .   .....+
T Consensus       232 ~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I  311 (398)
T PTZ00454        232 RLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKI  311 (398)
T ss_pred             HHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCCcccEEE
Confidence            3334457899999998632            1    12233332221  1245678888876654322  1   134568


Q ss_pred             EcCCCChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCc
Q 045618          147 KVNGLKYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       147 ~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glP  189 (349)
                      +++..+.++..++|......... ....    ..++++...|.-
T Consensus       312 ~~~~P~~~~R~~Il~~~~~~~~l~~dvd----~~~la~~t~g~s  351 (398)
T PTZ00454        312 EFPLPDRRQKRLIFQTITSKMNLSEEVD----LEDFVSRPEKIS  351 (398)
T ss_pred             EeCCcCHHHHHHHHHHHHhcCCCCcccC----HHHHHHHcCCCC
Confidence            89999999988888876533221 1112    345666666654

>PRK08116 hypothetical protein; Validated

Probab=94.98  E-value=0.11  Score=46.54  Aligned_cols=46  Identities=24%  Similarity=0.332  Sum_probs=25.0

Q ss_pred             HHHHHhCCCceEEEEecCC--CchhH--HHHHcccCC-CCCCcEEEEEeCcc
Q 045618           88 YVRERLRRTKVLIVLDDVN--KVGQL--EYLIGGLER-FGPGSRIIVTTRDR  134 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~--~~~~~--~~l~~~~~~-~~~~~~IlvTTR~~  134 (349)
                      .+.+.+.+-. ||||||+.  ....|  ..+...+.. ...+..+|+||...
T Consensus       171 ~~~~~l~~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        171 EIIRSLVNAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             HHHHHhcCCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            4555566555 89999994  33333  222222211 13456788888644

>PRK06526 transposase; Provisional

Probab=94.90  E-value=0.066  Score=47.65  Aligned_cols=16  Identities=13%  Similarity=-0.058  Sum_probs=13.0

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+.|.|||.||...
T Consensus       103 l~Gp~GtGKThLa~al  118 (254)
T PRK06526        103 FLGPPGTGKTHLAIGL  118 (254)
T ss_pred             EEeCCCCchHHHHHHH
Confidence            5667899999999843

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=94.85  E-value=0.073  Score=49.37  Aligned_cols=89  Identities=13%  Similarity=0.087  Sum_probs=60.4

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhcccC-cccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNFG-VGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~~-~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-.+|+|+++..  +....|+..+.+-..++.+|.+|.++. +...+. -...+.+++++.++..+.+.... +  . 
T Consensus       107 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~-~--~-  182 (334)
T PRK07993        107 GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREV-T--M-  182 (334)
T ss_pred             CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHcc-C--C-
Confidence            56678999999854  456777776655566777776666644 444432 23478999999999988886542 1  1 


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      +   .+.+..++..++|.|.
T Consensus       183 ~---~~~a~~~~~la~G~~~  199 (334)
T PRK07993        183 S---QDALLAALRLSAGAPG  199 (334)
T ss_pred             C---HHHHHHHHHHcCCCHH
Confidence            1   2335678899999995

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=94.78  E-value=1  Score=41.93  Aligned_cols=88  Identities=18%  Similarity=0.210  Sum_probs=58.4

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhcccC-cccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNFG-VGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~~-~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  +....|+..+.+-.+++.+|.+|.++ .+...+. -...+.+++++.++..+.+....    ..
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~----~~  206 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG----VA  206 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC----CC
Confidence            45568899999854  45777777776556677666666554 4444432 24589999999999998887652    11


Q ss_pred             ChhHHHHHHHHHHHcCCCchHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      .      ...++..++|.|+..
T Consensus       207 ~------~~~~l~~~~Gsp~~A  222 (342)
T PRK06964        207 D------ADALLAEAGGAPLAA  222 (342)
T ss_pred             h------HHHHHHHcCCCHHHH
Confidence            1      123577789999643

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=94.75  E-value=0.52  Score=43.62  Aligned_cols=144  Identities=9%  Similarity=0.096  Sum_probs=80.5

Q ss_pred             CCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHHHHHHHhCCCc
Q 045618           18 TSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRRTK   97 (349)
Q Consensus        18 ~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~l~~~L~~~~   97 (349)
                      ||-|.|||+||+..-...-    +..        ..+|+.+.......=.+.|..+-             +=...+.++|
T Consensus       169 GppG~GKTtlArlia~tsk----~~S--------yrfvelSAt~a~t~dvR~ife~a-------------q~~~~l~krk  223 (554)
T KOG2028|consen  169 GPPGTGKTTLARLIASTSK----KHS--------YRFVELSATNAKTNDVRDIFEQA-------------QNEKSLTKRK  223 (554)
T ss_pred             cCCCCchHHHHHHHHhhcC----CCc--------eEEEEEeccccchHHHHHHHHHH-------------HHHHhhhcce
Confidence            3469999999985443211    111        24555554322222223333221             1223456788


Q ss_pred             eEEEEecCCC--chhHHHHHcccCCCCCCcEEEE--EeCcchhh---cccCcccEEEcCCCChHhHHHHHHHhhc--c-C
Q 045618           98 VLIVLDDVNK--VGQLEYLIGGLERFGPGSRIIV--TTRDRRVL---DNFGVGNIYKVNGLKYREALELFCNCAF--K-E  167 (349)
Q Consensus        98 ~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~Ilv--TTR~~~~~---~~~~~~~~~~l~~L~~~ea~~L~~~~a~--~-~  167 (349)
                      ..|.+|.|+.  ..+-+.|+|..   .+|..++|  ||-++...   ..+.-..++-|++|..++-..++.+..-  + .
T Consensus       224 TilFiDEiHRFNksQQD~fLP~V---E~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~ds  300 (554)
T KOG2028|consen  224 TILFIDEIHRFNKSQQDTFLPHV---ENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDS  300 (554)
T ss_pred             eEEEeHHhhhhhhhhhhccccee---ccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhhccc
Confidence            9999999974  45556676765   35665555  56555421   1123345889999999999998887331  1 1


Q ss_pred             C-----CCC---hhHHHHHHHHHHHcCCCc
Q 045618          168 N-----HCP---EDLLVHSKRILDYANGNP  189 (349)
Q Consensus       168 ~-----~~~---~~~~~~~~~i~~~c~glP  189 (349)
                      .     .+.   .-...+..-++..|.|-.
T Consensus       301 er~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  301 ERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             cccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            1     111   123455666667777643

>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=94.58  E-value=0.067  Score=41.82  Aligned_cols=18  Identities=11%  Similarity=-0.055  Sum_probs=14.4

Q ss_pred             CCCCCchhhHHHHHHhhh
Q 045618           17 ATSCGIVKIRRCLMVFRL   34 (349)
Q Consensus        17 ~~~gGiGKT~la~~~f~~   34 (349)
                      .|+-|.|||++|+.....
T Consensus         4 ~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    4 HGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             ESSTTSSHHHHHHHHHHH
T ss_pred             ECcCCCCeeHHHHHHHhh
Confidence            577899999999966544

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 ....

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=94.56  E-value=0.48  Score=46.58  Aligned_cols=99  Identities=18%  Similarity=0.226  Sum_probs=54.8

Q ss_pred             HHHHHhCCCceEEEEecCCCch----------------hHHHHHcccCC--CCCCcEEEEEeCcchhhcc-c----Cccc
Q 045618           88 YVRERLRRTKVLIVLDDVNKVG----------------QLEYLIGGLER--FGPGSRIIVTTRDRRVLDN-F----GVGN  144 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~~----------------~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~-~----~~~~  144 (349)
                      .+.......+++|+||+++...                .+..++..+..  ...+..||.||..++.... +    ....
T Consensus       139 ~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~  218 (495)
T TIGR01241       139 LFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDR  218 (495)
T ss_pred             HHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceE
Confidence            3344444567899999995321                12233322221  1234456666655442221 1    2345


Q ss_pred             EEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          145 IYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       145 ~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++..+.++-.++|.......... .  ......+++.+.|.-
T Consensus       219 ~i~i~~Pd~~~R~~il~~~l~~~~~~-~--~~~l~~la~~t~G~s  260 (495)
T TIGR01241       219 QVVVDLPDIKGREEILKVHAKNKKLA-P--DVDLKAVARRTPGFS  260 (495)
T ss_pred             EEEcCCCCHHHHHHHHHHHHhcCCCC-c--chhHHHHHHhCCCCC
Confidence            78899999999999998876332221 1  122447777777743

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=94.52  E-value=0.72  Score=42.44  Aligned_cols=95  Identities=18%  Similarity=0.260  Sum_probs=59.7

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcchhhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRRVLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      +.+-++|+|+++..  .....|+..+..-.+..-|++|+....+...+ .-...+++++++.++..+.+.+.... ..  
T Consensus       123 ~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~-~~--  199 (314)
T PRK07399        123 APRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDE-EI--  199 (314)
T ss_pred             CCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcc-cc--
Confidence            46778999999854  34556665554434333444444444444444 23468999999999999999876421 11  


Q ss_pred             hhHHHHHHHHHHHcCCCchHHHH
Q 045618          172 EDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                        .......++..++|-|.....
T Consensus       200 --~~~~~~~l~~~a~Gs~~~al~  220 (314)
T PRK07399        200 --LNINFPELLALAQGSPGAAIA  220 (314)
T ss_pred             --chhHHHHHHHHcCCCHHHHHH
Confidence              111135788999999965544

>CHL00176 ftsH cell division protein; Validated

Probab=94.48  E-value=0.56  Score=47.40  Aligned_cols=99  Identities=15%  Similarity=0.192  Sum_probs=57.8

Q ss_pred             HHHHHHhCCCceEEEEecCCCc----------------hhHHHHHcccCC--CCCCcEEEEEeCcchhhcc-c----Ccc
Q 045618           87 EYVRERLRRTKVLIVLDDVNKV----------------GQLEYLIGGLER--FGPGSRIIVTTRDRRVLDN-F----GVG  143 (349)
Q Consensus        87 ~~l~~~L~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~-~----~~~  143 (349)
                      +.+.......+++|+||+++..                ..+..++..+..  ...+..||.||...+.... +    ...
T Consensus       266 ~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpGRFd  345 (638)
T CHL00176        266 DLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFD  345 (638)
T ss_pred             HHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccccCc
Confidence            3455555678899999999632                113333333221  1235566667766543221 1    133


Q ss_pred             cEEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC
Q 045618          144 NIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGN  188 (349)
Q Consensus       144 ~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl  188 (349)
                      ..+.++..+.++-.++|+.++......   .......+++.+.|.
T Consensus       346 ~~I~v~lPd~~~R~~IL~~~l~~~~~~---~d~~l~~lA~~t~G~  387 (638)
T CHL00176        346 RQITVSLPDREGRLDILKVHARNKKLS---PDVSLELIARRTPGF  387 (638)
T ss_pred             eEEEECCCCHHHHHHHHHHHHhhcccc---hhHHHHHHHhcCCCC
Confidence            578899999999999998887432211   123355677777773

>TIGR00767 rho transcription termination factor Rho

Probab=94.47  E-value=0.056  Score=50.88  Aligned_cols=79  Identities=14%  Similarity=0.058  Sum_probs=44.2

Q ss_pred             cCCCCCchhhHHHHHHhh--------hhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHH-
Q 045618           16 RATSCGIVKIRRCLMVFR--------LCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLP-   86 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~--------~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~-   86 (349)
                      .+++.|.|||+++...+.        ...|+.+.++               +.....+++++++..+.-.......... 
T Consensus       173 IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgE---------------R~~EVtDLqrsIlg~Vvast~d~p~~~~~  237 (415)
T TIGR00767       173 IVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDE---------------RPEEVTDMQRSVKGEVVASTFDEPASRHV  237 (415)
T ss_pred             EECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCC---------------CCccHHHHHHHhhceEEEecCCCChHHHH
Confidence            456679999999885443        2345444433               1126777888886555221111111111 


Q ss_pred             ---H----HH-HHHhCCCceEEEEecCCCch
Q 045618           87 ---E----YV-RERLRRTKVLIVLDDVNKVG  109 (349)
Q Consensus        87 ---~----~l-~~~L~~~~~LlVlDdv~~~~  109 (349)
                         +    .. +..-.+++++|++|.+....
T Consensus       238 ~va~~v~e~Ae~~~~~GkdVVLlIDEitR~a  268 (415)
T TIGR00767       238 QVAEMVIEKAKRLVEHKKDVVILLDSITRLA  268 (415)
T ss_pred             HHHHHHHHHHHHHHHcCCCeEEEEEChhHHH
Confidence               1    11 22245799999999997554

Members of this family differ in the specificity of RNA binding.

>TIGR03689 pup_AAA proteasome ATPase

Probab=94.31  E-value=0.11  Score=50.86  Aligned_cols=71  Identities=11%  Similarity=0.259  Sum_probs=43.2

Q ss_pred             CCCceEEEEecCCCc---------hh-----HHHHHcccCCC--CCCcEEEEEeCcchhhcc-c----CcccEEEcCCCC
Q 045618           94 RRTKVLIVLDDVNKV---------GQ-----LEYLIGGLERF--GPGSRIIVTTRDRRVLDN-F----GVGNIYKVNGLK  152 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~---------~~-----~~~l~~~~~~~--~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L~  152 (349)
                      .+++++|+||+++..         .+     +..|+..+...  ..+..||.||..++.... +    .....++++..+
T Consensus       287 ~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd  366 (512)
T TIGR03689       287 DGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPD  366 (512)
T ss_pred             cCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCC
Confidence            357899999999732         11     23343333211  234556666655543221 1    123468999999


Q ss_pred             hHhHHHHHHHhh
Q 045618          153 YREALELFCNCA  164 (349)
Q Consensus       153 ~~ea~~L~~~~a  164 (349)
                      .++..++|..+.
T Consensus       367 ~e~r~~Il~~~l  378 (512)
T TIGR03689       367 AEAAADIFSKYL  378 (512)
T ss_pred             HHHHHHHHHHHh
Confidence            999999999886

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.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=94.28  E-value=0.27  Score=45.48  Aligned_cols=86  Identities=16%  Similarity=0.171  Sum_probs=49.8

Q ss_pred             CceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      ++-++|+|+++..  .....++..+.....++.+|++|.+.. +...+ .-...+.+.+++.++..+.+....    ...
T Consensus       113 ~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~~~  188 (325)
T PRK08699        113 GLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRERG----VAE  188 (325)
T ss_pred             CceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhcC----CCc
Confidence            3444566888743  344555544443344566777777754 33332 224578899999999988886541    111


Q ss_pred             hhHHHHHHHHHHHcCCCchH
Q 045618          172 EDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glPLA  191 (349)
                       . .    ..+..++|-|+.
T Consensus       189 -~-~----~~l~~~~g~p~~  202 (325)
T PRK08699        189 -P-E----ERLAFHSGAPLF  202 (325)
T ss_pred             -H-H----HHHHHhCCChhh
Confidence             1 1    123568898854

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

Probab=94.18  E-value=0.47  Score=44.96  Aligned_cols=79  Identities=14%  Similarity=0.218  Sum_probs=46.8

Q ss_pred             HHHHHhCCCceEEEEecCCCc---hhH-HHHHcccC-CCCCCcEEEEEeCcchh---------hcccCcccEEEcCCCCh
Q 045618           88 YVRERLRRTKVLIVLDDVNKV---GQL-EYLIGGLE-RFGPGSRIIVTTRDRRV---------LDNFGVGNIYKVNGLKY  153 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~---~~~-~~l~~~~~-~~~~~~~IlvTTR~~~~---------~~~~~~~~~~~l~~L~~  153 (349)
                      .+++..  .-=++++||++-.   +.+ +.+...+. -...|..||+|++..+-         ...+...-.+++.+++.
T Consensus       169 ~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~  246 (408)
T COG0593         169 KFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDD  246 (408)
T ss_pred             HHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCH
Confidence            455555  3448899999632   111 22222111 11234589999966532         22233456899999999


Q ss_pred             HhHHHHHHHhhccCC
Q 045618          154 REALELFCNCAFKEN  168 (349)
Q Consensus       154 ~ea~~L~~~~a~~~~  168 (349)
                      +....++.+.+-...
T Consensus       247 e~r~aiL~kka~~~~  261 (408)
T COG0593         247 ETRLAILRKKAEDRG  261 (408)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            999999998764433

>PRK08181 transposase; Validated

Probab=94.14  E-value=0.14  Score=45.85  Aligned_cols=16  Identities=13%  Similarity=-0.164  Sum_probs=12.8

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+.|.|||.||...
T Consensus       111 l~Gp~GtGKTHLa~Ai  126 (269)
T PRK08181        111 LFGPPGGGKSHLAAAI  126 (269)
T ss_pred             EEecCCCcHHHHHHHH
Confidence            5677899999998743

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.14  E-value=0.39  Score=46.48  Aligned_cols=107  Identities=17%  Similarity=0.219  Sum_probs=62.0

Q ss_pred             HHHHHhCCCceEEEEecCCCchhHHHHHc---------------ccCCCCCCcEEEEEeCcchhhcccC----cccEEEc
Q 045618           88 YVRERLRRTKVLIVLDDVNKVGQLEYLIG---------------GLERFGPGSRIIVTTRDRRVLDNFG----VGNIYKV  148 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~~~~~~l~~---------------~~~~~~~~~~IlvTTR~~~~~~~~~----~~~~~~l  148 (349)
                      ...+.-+..-..||+||++..-+|-.+.|               ..++.+..--|+-||....+...++    ....+++
T Consensus       590 ~F~DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~V  669 (744)
T KOG0741|consen  590 IFEDAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHV  669 (744)
T ss_pred             HHHHhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeec
Confidence            34444555678899999976544433222               2344444555777888888877664    3457999


Q ss_pred             CCCCh-HhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHh
Q 045618          149 NGLKY-REALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFL  199 (349)
Q Consensus       149 ~~L~~-~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l  199 (349)
                      +.++. ++..+.++..-   .-.+...+..+.+...+|  +-..|+.+-..+
T Consensus       670 pnl~~~~~~~~vl~~~n---~fsd~~~~~~~~~~~~~~--~~vgIKklL~li  716 (744)
T KOG0741|consen  670 PNLTTGEQLLEVLEELN---IFSDDEVRAIAEQLLSKK--VNVGIKKLLMLI  716 (744)
T ss_pred             CccCchHHHHHHHHHcc---CCCcchhHHHHHHHhccc--cchhHHHHHHHH
Confidence            99987 66677766543   112233445555665555  333344444333

>PRK09183 transposase/IS protein; Provisional

Probab=93.72  E-value=0.17  Score=45.20  Aligned_cols=16  Identities=13%  Similarity=0.164  Sum_probs=12.9

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+.|.|||+||...
T Consensus       107 l~Gp~GtGKThLa~al  122 (259)
T PRK09183        107 LLGPSGVGKTHLAIAL  122 (259)
T ss_pred             EEeCCCCCHHHHHHHH
Confidence            4577899999999843

>CHL00195 ycf46 Ycf46; Provisional

Probab=93.39  E-value=0.25  Score=48.25  Aligned_cols=95  Identities=14%  Similarity=0.075  Sum_probs=52.7

Q ss_pred             CCCceEEEEecCCCch--------------hHHHHHcccCCCCCCcEEEEEeCcchhhcc-c----CcccEEEcCCCChH
Q 045618           94 RRTKVLIVLDDVNKVG--------------QLEYLIGGLERFGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNGLKYR  154 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~--------------~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L~~~  154 (349)
                      ...+++|++|+++...              .+..++..+.....+.-||.||.+.+.... +    .....+.++..+.+
T Consensus       316 ~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~  395 (489)
T CHL00195        316 ALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLE  395 (489)
T ss_pred             hcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHH
Confidence            3478999999996320              122233322222344556667766543221 1    23457889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      +-.++|..+..+...... .......+++.+.|.-
T Consensus       396 eR~~Il~~~l~~~~~~~~-~~~dl~~La~~T~GfS  429 (489)
T CHL00195        396 EREKIFKIHLQKFRPKSW-KKYDIKKLSKLSNKFS  429 (489)
T ss_pred             HHHHHHHHHHhhcCCCcc-cccCHHHHHhhcCCCC
Confidence            999999887744221110 0112346666666654

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

Probab=93.26  E-value=0.29  Score=50.51  Aligned_cols=68  Identities=13%  Similarity=0.183  Sum_probs=39.2

Q ss_pred             CCceEEEEecCCCc-----------hhHHHHHcccCCCCCCcEEEEEeCcchhhc------cc-CcccEEEcCCCChHhH
Q 045618           95 RTKVLIVLDDVNKV-----------GQLEYLIGGLERFGPGSRIIVTTRDRRVLD------NF-GVGNIYKVNGLKYREA  156 (349)
Q Consensus        95 ~~~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~------~~-~~~~~~~l~~L~~~ea  156 (349)
                      .++++|++|+++..           +.-+.+.+.+.. + .-++|-+|..+....      .+ .--..+.+++++.++.
T Consensus       273 ~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~-g-~i~~IgaTt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~  350 (731)
T TIGR02639       273 EPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSS-G-KLRCIGSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEET  350 (731)
T ss_pred             cCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhC-C-CeEEEEecCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHH
Confidence            45789999999722           112334444431 2 234444444322111      11 1124789999999999


Q ss_pred             HHHHHHhh
Q 045618          157 LELFCNCA  164 (349)
Q Consensus       157 ~~L~~~~a  164 (349)
                      .+++....
T Consensus       351 ~~il~~~~  358 (731)
T TIGR02639       351 VKILKGLK  358 (731)
T ss_pred             HHHHHHHH
Confidence            99998654

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.14  E-value=0.84  Score=45.86  Aligned_cols=155  Identities=14%  Similarity=0.126  Sum_probs=76.5

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceee-ccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHHHHHHHhC
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECL-SEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLR   94 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~-~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~l~~~L~   94 (349)
                      ..|+.|.|||.||+..|+....-.. ...|     ..+...+..   ...++|+.+-.               -..+.+.
T Consensus       436 l~G~~GsGKT~L~kal~~~~~k~~~~hv~~-----v~Cs~l~~~---~~e~iQk~l~~---------------vfse~~~  492 (952)
T KOG0735|consen  436 LNGPKGSGKTNLVKALFDYYSKDLIAHVEI-----VSCSTLDGS---SLEKIQKFLNN---------------VFSEALW  492 (952)
T ss_pred             EeCCCCCCHhHHHHHHHHHhccccceEEEE-----Eechhccch---hHHHHHHHHHH---------------HHHHHHh
Confidence            4566899999999988775442100 0011     111111111   23333333221               3556677


Q ss_pred             CCceEEEEecCCCc--------hh-------HHHHH----cccCCCCCCcEEEEEeCcchhhcc-c----CcccEEEcCC
Q 045618           95 RTKVLIVLDDVNKV--------GQ-------LEYLI----GGLERFGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNG  150 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--------~~-------~~~l~----~~~~~~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~  150 (349)
                      ....++||||++..        .+       +..++    ..+...+..-.+|.|......... +    -......++.
T Consensus       493 ~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~a  572 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPA  572 (952)
T ss_pred             hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCC
Confidence            78999999999621        11       11111    111111222244555544332211 1    1234688899


Q ss_pred             CChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCC-CchHHHHH
Q 045618          151 LKYREALELFCNCAFKENHCPEDLLVHSKRILDYANG-NPLAVRVL  195 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~g-lPLAl~~~  195 (349)
                      +...+-.++++... ...... .......-+..+|+| .|..+.+.
T Consensus       573 p~~~~R~~IL~~~~-s~~~~~-~~~~dLd~ls~~TEGy~~~DL~if  616 (952)
T KOG0735|consen  573 PAVTRRKEILTTIF-SKNLSD-ITMDDLDFLSVKTEGYLATDLVIF  616 (952)
T ss_pred             cchhHHHHHHHHHH-Hhhhhh-hhhHHHHHHHHhcCCccchhHHHH
Confidence            99888888887664 222211 122233347777776 45555443

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=92.83  E-value=2.4  Score=37.35  Aligned_cols=171  Identities=13%  Similarity=0.056  Sum_probs=89.5

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH----HHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE----YVRE   91 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~----~l~~   91 (349)
                      ..|..|-|||.+.+ +-....-    +.      ....++-.....+...+...+..++...+.......-+    .+..
T Consensus        56 vtGevGsGKTv~~R-al~~s~~----~d------~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~a  124 (269)
T COG3267          56 VTGEVGSGKTVLRR-ALLASLN----ED------QVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAA  124 (269)
T ss_pred             EEecCCCchhHHHH-HHHHhcC----CC------ceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHH
Confidence            34557999999988 2211110    00      00111222333466667777777775533333333322    4444


Q ss_pred             Hh-CCCc-eEEEEecCCCch--hHHHH---HcccCCCCCCcEEEEEeCcch-------hhcccC-cccE-EEcCCCChHh
Q 045618           92 RL-RRTK-VLIVLDDVNKVG--QLEYL---IGGLERFGPGSRIIVTTRDRR-------VLDNFG-VGNI-YKVNGLKYRE  155 (349)
Q Consensus        92 ~L-~~~~-~LlVlDdv~~~~--~~~~l---~~~~~~~~~~~~IlvTTR~~~-------~~~~~~-~~~~-~~l~~L~~~e  155 (349)
                      .. ++++ ..++.|++++..  ..+.+   ...-..++.--+|+..-..+-       +....+ -..+ |+++|++.++
T Consensus       125 l~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~  204 (269)
T COG3267         125 LVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAE  204 (269)
T ss_pred             HHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHH
Confidence            43 3566 899999998542  23322   222111122222333322111       011111 1123 8999999998


Q ss_pred             HHHHHHHhhccCCCCCh-hHHHHHHHHHHHcCCCchHHHHHhH
Q 045618          156 ALELFCNCAFKENHCPE-DLLVHSKRILDYANGNPLAVRVLGS  197 (349)
Q Consensus       156 a~~L~~~~a~~~~~~~~-~~~~~~~~i~~~c~glPLAl~~~a~  197 (349)
                      ....++....+...+.+ -..+....|.....|.|.+|..++.
T Consensus       205 t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         205 TGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            88777776644332221 2245567888899999999988764

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

Probab=92.80  E-value=0.33  Score=49.55  Aligned_cols=32  Identities=25%  Similarity=0.470  Sum_probs=23.7

Q ss_pred             HHHHHhCCCce-EEEEecCC--CchhHHHHHcccC
Q 045618           88 YVRERLRRTKV-LIVLDDVN--KVGQLEYLIGGLE  119 (349)
Q Consensus        88 ~l~~~L~~~~~-LlVlDdv~--~~~~~~~l~~~~~  119 (349)
                      .|-+.++.+.| ++.||.++  +++.++-|+..+.
T Consensus       584 ~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlD  618 (786)
T COG0542         584 QLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLD  618 (786)
T ss_pred             chhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhc
Confidence            67788888866 88899998  4566666666553

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=92.78  E-value=0.39  Score=44.54  Aligned_cols=69  Identities=14%  Similarity=0.229  Sum_probs=47.1

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHh
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNC  163 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~  163 (349)
                      +.+-++|+|+++..  +..+.|+..+.+-.+++.+|.+|.++. +...+ .-...+++.+++.++..+.+...
T Consensus       109 ~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        109 SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            45567999999854  345667666665566777777776543 33333 23458999999999998888653

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=92.63  E-value=0.2  Score=46.50  Aligned_cols=129  Identities=13%  Similarity=0.107  Sum_probs=72.1

Q ss_pred             CCCchhhHHHHHHhhhh----cceeeccccccccccCcceeehhhhccHHHHHHHHHHHhh--cccCCCCCCHHH-----
Q 045618           19 SCGIVKIRRCLMVFRLC----STECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLV--EQEQIRTPNLPE-----   87 (349)
Q Consensus        19 ~gGiGKT~la~~~f~~~----~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~--~~~~~~~~~~~~-----   87 (349)
                      -.|-|||.++++.|+..    .|++.-+-|                 +...++.+|+.+..  .......+...+     
T Consensus        38 ~sgTGKT~~~r~~l~~~n~~~vw~n~~ecf-----------------t~~~lle~IL~~~~~~d~dg~~~~~~~en~~d~  100 (438)
T KOG2543|consen   38 HSGTGKTYLVRQLLRKLNLENVWLNCVECF-----------------TYAILLEKILNKSQLADKDGDKVEGDAENFSDF  100 (438)
T ss_pred             cCCCchhHHHHHHHhhcCCcceeeehHHhc-----------------cHHHHHHHHHHHhccCCCchhhhhhHHHHHHHH
Confidence            36999999999988754    466555555                 88888899998873  212222222112     


Q ss_pred             --HHHH--HhC--CCceEEEEecCCCchhHHHH-----HcccCCCCCCcEEEEEeCcchh---hcccCc--ccEEEcCCC
Q 045618           88 --YVRE--RLR--RTKVLIVLDDVNKVGQLEYL-----IGGLERFGPGSRIIVTTRDRRV---LDNFGV--GNIYKVNGL  151 (349)
Q Consensus        88 --~l~~--~L~--~~~~LlVlDdv~~~~~~~~l-----~~~~~~~~~~~~IlvTTR~~~~---~~~~~~--~~~~~l~~L  151 (349)
                        .+.+  ...  ++.++|||||++...+.+..     .....-......+|+++-...-   ...++.  ..++..+..
T Consensus       101 i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e~~y~~n~g~~~i~~l~fP~Y  180 (438)
T KOG2543|consen  101 IYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCEKQYLINTGTLEIVVLHFPQY  180 (438)
T ss_pred             HHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccHHHhhcccCCCCceEEecCCC
Confidence              2222  122  35899999999865543222     1110000112334444432211   111222  236778889


Q ss_pred             ChHhHHHHHHHhh
Q 045618          152 KYREALELFCNCA  164 (349)
Q Consensus       152 ~~~ea~~L~~~~a  164 (349)
                      +.+|-.+++.+.-
T Consensus       181 s~~e~~~Il~~~~  193 (438)
T KOG2543|consen  181 SVEETQVILSRDN  193 (438)
T ss_pred             CHHHHHHHHhcCC
Confidence            9999888886654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=92.25  E-value=1.2  Score=46.74  Aligned_cols=68  Identities=15%  Similarity=0.131  Sum_probs=40.3

Q ss_pred             CCceEEEEecCCCch---------hH-HHHHcccCCCCCCcEEEEEeCcchhhcc------c-CcccEEEcCCCChHhHH
Q 045618           95 RTKVLIVLDDVNKVG---------QL-EYLIGGLERFGPGSRIIVTTRDRRVLDN------F-GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~---------~~-~~l~~~~~~~~~~~~IlvTTR~~~~~~~------~-~~~~~~~l~~L~~~ea~  157 (349)
                      +.+++|++|+++...         +. ..|.|.+.  ...-++|-||........      + .-...+.+++++.++..
T Consensus       279 ~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~IgaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~  356 (852)
T TIGR03345       279 PQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRTIAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAI  356 (852)
T ss_pred             CCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEEEEecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHH
Confidence            468999999996431         22 23445443  223456656654322111      1 12248999999999999


Q ss_pred             HHHHHhh
Q 045618          158 ELFCNCA  164 (349)
Q Consensus       158 ~L~~~~a  164 (349)
                      ++++...
T Consensus       357 ~iL~~~~  363 (852)
T TIGR03345       357 RMLRGLA  363 (852)
T ss_pred             HHHHHHH
Confidence            9975443

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.

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

Probab=92.23  E-value=0.28  Score=47.14  Aligned_cols=94  Identities=11%  Similarity=0.114  Sum_probs=53.0

Q ss_pred             HhCCCceEEEEecCCCc------------h----hHHHHHcccCC--CCCCcEEEEEeCcchhhccc-----CcccEEEc
Q 045618           92 RLRRTKVLIVLDDVNKV------------G----QLEYLIGGLER--FGPGSRIIVTTRDRRVLDNF-----GVGNIYKV  148 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~------------~----~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~~-----~~~~~~~l  148 (349)
                      ...+.+++|+||+++..            .    .+..++..+..  ...+..||.||...+.....     .....+++
T Consensus       272 A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~  351 (438)
T PTZ00361        272 AEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEF  351 (438)
T ss_pred             HHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEe
Confidence            33456789999997521            0    11222222211  13356788888765543321     12457899


Q ss_pred             CCCChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCc
Q 045618          149 NGLKYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       149 ~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glP  189 (349)
                      +..+.++..++|..+...... ....    ...++..+.|+-
T Consensus       352 ~~Pd~~~R~~Il~~~~~k~~l~~dvd----l~~la~~t~g~s  389 (438)
T PTZ00361        352 PNPDEKTKRRIFEIHTSKMTLAEDVD----LEEFIMAKDELS  389 (438)
T ss_pred             CCCCHHHHHHHHHHHHhcCCCCcCcC----HHHHHHhcCCCC
Confidence            999999999999977633221 1112    345566666554

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=91.86  E-value=1.3  Score=45.84  Aligned_cols=95  Identities=14%  Similarity=0.174  Sum_probs=54.1

Q ss_pred             HhCCCceEEEEecCCCc--------------hhHHHHHcccCC--CCCCcEEEEEeCcchhhccc-----CcccEEEcCC
Q 045618           92 RLRRTKVLIVLDDVNKV--------------GQLEYLIGGLER--FGPGSRIIVTTRDRRVLDNF-----GVGNIYKVNG  150 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~--------------~~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~~-----~~~~~~~l~~  150 (349)
                      .-....++|++|+++..              ..+..++..+..  ...+..||.||..++.....     .....+.++.
T Consensus       542 A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~  621 (733)
T TIGR01243       542 ARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPP  621 (733)
T ss_pred             HHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCC
Confidence            33456799999998531              123334333321  12355666677665543221     2345788999


Q ss_pred             CChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-.++|+....+..... .  .....+++.+.|.-
T Consensus       622 Pd~~~R~~i~~~~~~~~~~~~-~--~~l~~la~~t~g~s  657 (733)
T TIGR01243       622 PDEEARKEIFKIHTRSMPLAE-D--VDLEELAEMTEGYT  657 (733)
T ss_pred             cCHHHHHHHHHHHhcCCCCCc-c--CCHHHHHHHcCCCC
Confidence            999999999987653222111 1  11346777777754

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.

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

Probab=91.70  E-value=1.4  Score=45.63  Aligned_cols=31  Identities=19%  Similarity=0.446  Sum_probs=19.0

Q ss_pred             HHHHHhCC-CceEEEEecCCC--chhHHHHHccc
Q 045618           88 YVRERLRR-TKVLIVLDDVNK--VGQLEYLIGGL  118 (349)
Q Consensus        88 ~l~~~L~~-~~~LlVlDdv~~--~~~~~~l~~~~  118 (349)
                      .+.+.++. ...+++||+++.  .+.+..|+..+
T Consensus       544 ~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~l  577 (731)
T TIGR02639       544 LLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVM  577 (731)
T ss_pred             HHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhh
Confidence            34445444 456999999984  34455555544

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=91.31  E-value=0.84  Score=35.32  Aligned_cols=16  Identities=13%  Similarity=-0.101  Sum_probs=13.1

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+-|.|||+++...
T Consensus         7 l~G~~G~GKTtl~~~l   22 (148)
T smart00382        7 IVGPPGSGKTTLARAL   22 (148)
T ss_pred             EECCCCCcHHHHHHHH
Confidence            4678899999999843

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=91.05  E-value=0.67  Score=48.57  Aligned_cols=67  Identities=15%  Similarity=0.123  Sum_probs=37.7

Q ss_pred             CCceEEEEecCCCc---------hhH-HHHHcccCCCCCCcEEEEEeCcchhhc------cc-CcccEEEcCCCChHhHH
Q 045618           95 RTKVLIVLDDVNKV---------GQL-EYLIGGLERFGPGSRIIVTTRDRRVLD------NF-GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        95 ~~~~LlVlDdv~~~---------~~~-~~l~~~~~~~~~~~~IlvTTR~~~~~~------~~-~~~~~~~l~~L~~~ea~  157 (349)
                      .++.+|++|+++..         .+. .-|.+.+.  ...-++|-+|.......      .+ .....+.+++.+.++..
T Consensus       270 ~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt~~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~  347 (821)
T CHL00095        270 NNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATTLDEYRKHIEKDPALERRFQPVYVGEPSVEETI  347 (821)
T ss_pred             cCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCCHHHHHHHHhcCHHHHhcceEEecCCCCHHHHH
Confidence            46899999999621         122 33334432  12345555555443211      11 12346788889999888


Q ss_pred             HHHHHh
Q 045618          158 ELFCNC  163 (349)
Q Consensus       158 ~L~~~~  163 (349)
                      .+++..
T Consensus       348 aILr~l  353 (821)
T CHL00095        348 EILFGL  353 (821)
T ss_pred             HHHHHH
Confidence            887643

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

Probab=91.03  E-value=0.17  Score=42.45  Aligned_cols=16  Identities=13%  Similarity=0.007  Sum_probs=12.6

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+.|.|||.||...
T Consensus        52 l~G~~G~GKThLa~ai   67 (178)
T PF01695_consen   52 LYGPPGTGKTHLAVAI   67 (178)
T ss_dssp             EEESTTSSHHHHHHHH
T ss_pred             EEhhHhHHHHHHHHHH
Confidence            4566899999998744

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=90.72  E-value=0.67  Score=41.25  Aligned_cols=16  Identities=13%  Similarity=0.125  Sum_probs=12.5

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+.|+|||-||...
T Consensus       110 l~G~~G~GKThLa~Ai  125 (254)
T COG1484         110 LLGPPGVGKTHLAIAI  125 (254)
T ss_pred             EECCCCCcHHHHHHHH
Confidence            4566799999998743

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=90.60  E-value=0.81  Score=48.15  Aligned_cols=17  Identities=12%  Similarity=-0.021  Sum_probs=13.4

Q ss_pred             cCCCCCchhhHHHHHHh
Q 045618           16 RATSCGIVKIRRCLMVF   32 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f   32 (349)
                      ..||.|+|||.+|+...
T Consensus       600 f~Gp~GvGKt~lA~~La  616 (852)
T TIGR03346       600 FLGPTGVGKTELAKALA  616 (852)
T ss_pred             EEcCCCCCHHHHHHHHH
Confidence            46778999999998443

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.

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

Probab=90.37  E-value=0.97  Score=46.68  Aligned_cols=68  Identities=10%  Similarity=0.130  Sum_probs=39.1

Q ss_pred             CCceEEEEecCCCc----------hhHH-HHHcccCCCCCCcEEEEEeCcchhhcc------c-CcccEEEcCCCChHhH
Q 045618           95 RTKVLIVLDDVNKV----------GQLE-YLIGGLERFGPGSRIIVTTRDRRVLDN------F-GVGNIYKVNGLKYREA  156 (349)
Q Consensus        95 ~~~~LlVlDdv~~~----------~~~~-~l~~~~~~~~~~~~IlvTTR~~~~~~~------~-~~~~~~~l~~L~~~ea  156 (349)
                      ..+.+|++|+++..          .+.. .+.+.+.  ...-++|-+|..+.....      + .--..+.+++++.++.
T Consensus       277 ~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~--~g~i~vIgATt~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~  354 (758)
T PRK11034        277 DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEET  354 (758)
T ss_pred             cCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh--CCCeEEEecCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHH
Confidence            46789999999732          1222 2334332  123445545544332111      1 1124799999999999


Q ss_pred             HHHHHHhh
Q 045618          157 LELFCNCA  164 (349)
Q Consensus       157 ~~L~~~~a  164 (349)
                      .+++....
T Consensus       355 ~~IL~~~~  362 (758)
T PRK11034        355 VQIINGLK  362 (758)
T ss_pred             HHHHHHHH
Confidence            99998653

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=90.22  E-value=6.1  Score=35.25  Aligned_cols=17  Identities=18%  Similarity=0.061  Sum_probs=13.2

Q ss_pred             cCCCCCchhhHHHHHHh
Q 045618           16 RATSCGIVKIRRCLMVF   32 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f   32 (349)
                      ..|+-|.|||++|+...
T Consensus        26 L~G~~GtGKT~lA~~la   42 (262)
T TIGR02640        26 LRGPAGTGKTTLAMHVA   42 (262)
T ss_pred             EEcCCCCCHHHHHHHHH
Confidence            35678999999998543

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=90.18  E-value=0.066  Score=42.67  Aligned_cols=18  Identities=17%  Similarity=-0.027  Sum_probs=14.3

Q ss_pred             CCCCCchhhHHHHHHhhh
Q 045618           17 ATSCGIVKIRRCLMVFRL   34 (349)
Q Consensus        17 ~~~gGiGKT~la~~~f~~   34 (349)
                      .|+-|+|||++|+.....
T Consensus         5 ~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    5 VGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EESSSSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            577899999999965544

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK07952 DNA replication protein DnaC; Validated

Probab=89.64  E-value=1  Score=39.76  Aligned_cols=16  Identities=13%  Similarity=-0.060  Sum_probs=12.5

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|++|.|||.|+...
T Consensus       104 l~G~~GtGKThLa~ai  119 (244)
T PRK07952        104 FSGKPGTGKNHLAAAI  119 (244)
T ss_pred             EECCCCCCHHHHHHHH
Confidence            4566899999998743

>PRK12377 putative replication protein; Provisional

Probab=89.62  E-value=1.2  Score=39.47  Aligned_cols=16  Identities=13%  Similarity=-0.060  Sum_probs=12.2

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+-|.|||.||...
T Consensus       106 l~G~~GtGKThLa~AI  121 (248)
T PRK12377        106 FSGKPGTGKNHLAAAI  121 (248)
T ss_pred             EECCCCCCHHHHHHHH
Confidence            3466799999998744

>PRK08939 primosomal protein DnaI; Reviewed

Probab=89.58  E-value=1.1  Score=40.95  Aligned_cols=18  Identities=11%  Similarity=-0.077  Sum_probs=13.4

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+-|+|||.|+.....
T Consensus       161 L~G~~G~GKThLa~Aia~  178 (306)
T PRK08939        161 LYGDFGVGKSYLLAAIAN  178 (306)
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            456679999999885443

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

Probab=89.54  E-value=2.1  Score=40.15  Aligned_cols=65  Identities=18%  Similarity=0.163  Sum_probs=34.9

Q ss_pred             CCCcEEEEEeCcchhhcc--cCccc-EEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCch
Q 045618          122 GPGSRIIVTTRDRRVLDN--FGVGN-IYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       122 ~~~~~IlvTTR~~~~~~~--~~~~~-~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPL  190 (349)
                      .++..||+||..++....  ....+ .-.+...+.++-.++++... +.....   .....+|++...|-|+
T Consensus       266 ~~~V~VIaTTNrpd~LDpALlRpGRfDk~i~lPd~e~R~eIL~~~~-r~~~l~---~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        266 IPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVVHGIF-RDDGVS---REDVVKLVDTFPGQPL  333 (413)
T ss_pred             CCCceEEEeCCCcccCCHhHcCCCCCCceeCCCCHHHHHHHHHHHh-ccCCCC---HHHHHHHHHcCCCCCc
Confidence            456778999977764322  12111 11233456677777777665 222222   2345567777777664

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=89.38  E-value=1.6  Score=45.23  Aligned_cols=96  Identities=15%  Similarity=0.202  Sum_probs=49.1

Q ss_pred             HHhCCCceEEEEecCCCc-------------hhHHHHHcccCCC-CCCcEEEE-EeCcchhh-ccc----CcccEEEcCC
Q 045618           91 ERLRRTKVLIVLDDVNKV-------------GQLEYLIGGLERF-GPGSRIIV-TTRDRRVL-DNF----GVGNIYKVNG  150 (349)
Q Consensus        91 ~~L~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~-~~~~~Ilv-TTR~~~~~-~~~----~~~~~~~l~~  150 (349)
                      ........+|+||+++..             .....|...+... ..+..++| ||...... ..+    .....+.++.
T Consensus       266 ~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~gRfd~~i~i~~  345 (733)
T TIGR01243       266 EAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRV  345 (733)
T ss_pred             HHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCchhccEEEEeCC
Confidence            334456789999998532             1123333333211 22334444 44433211 111    1234678888


Q ss_pred             CChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-.+++....-..... .  ......+++.+.|.-
T Consensus       346 P~~~~R~~Il~~~~~~~~l~-~--d~~l~~la~~t~G~~  381 (733)
T TIGR01243       346 PDKRARKEILKVHTRNMPLA-E--DVDLDKLAEVTHGFV  381 (733)
T ss_pred             cCHHHHHHHHHHHhcCCCCc-c--ccCHHHHHHhCCCCC
Confidence            88888888888654221111 1  112456777777764

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.

>PRK08118 topology modulation protein; Reviewed

Probab=89.33  E-value=0.78  Score=37.97  Aligned_cols=31  Identities=19%  Similarity=0.104  Sum_probs=20.9

Q ss_pred             cCCCCCchhhHHHHHHhhhh--cceeecccccc
Q 045618           16 RATSCGIVKIRRCLMVFRLC--STECLSEALWK   46 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~--~w~~~~~~f~~   46 (349)
                      ..|++|.||||+|+......  -.++++.-+|.
T Consensus         6 I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~   38 (167)
T PRK08118          6 LIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK   38 (167)
T ss_pred             EECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence            56889999999999655432  23455555653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=89.30  E-value=2.9  Score=44.08  Aligned_cols=18  Identities=17%  Similarity=0.189  Sum_probs=13.9

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..||-|.|||++|+....
T Consensus       603 f~Gp~G~GKT~lA~aLa~  620 (857)
T PRK10865        603 FLGPTGVGKTELCKALAN  620 (857)
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            557789999999985443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=88.96  E-value=0.97  Score=47.38  Aligned_cols=32  Identities=19%  Similarity=0.441  Sum_probs=20.1

Q ss_pred             HHHHHhCCCc-eEEEEecCCC--chhHHHHHcccC
Q 045618           88 YVRERLRRTK-VLIVLDDVNK--VGQLEYLIGGLE  119 (349)
Q Consensus        88 ~l~~~L~~~~-~LlVlDdv~~--~~~~~~l~~~~~  119 (349)
                      .+.+.++.++ .+++||+++.  .+.++.|+..+.
T Consensus       602 ~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le  636 (821)
T CHL00095        602 QLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILD  636 (821)
T ss_pred             hHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhc
Confidence            4555555554 6899999984  444555555543

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=88.78  E-value=3.5  Score=36.19  Aligned_cols=15  Identities=20%  Similarity=0.062  Sum_probs=12.7

Q ss_pred             cCCCCCchhhHHHHH
Q 045618           16 RATSCGIVKIRRCLM   30 (349)
Q Consensus        16 ~~~~gGiGKT~la~~   30 (349)
                      .++++|.|||+|+..
T Consensus         6 l~g~~G~GKS~lal~   20 (239)
T cd01125           6 LVAPGGTGKSSLLLV   20 (239)
T ss_pred             EEcCCCCCHHHHHHH
Confidence            467899999999873

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=88.72  E-value=0.85  Score=42.80  Aligned_cols=46  Identities=24%  Similarity=0.417  Sum_probs=28.8

Q ss_pred             HHHHHHHhCCCceEEEEecCC--Cchh---HHHHHcccCCCCCCcEEEEEeCcc
Q 045618           86 PEYVRERLRRTKVLIVLDDVN--KVGQ---LEYLIGGLERFGPGSRIIVTTRDR  134 (349)
Q Consensus        86 ~~~l~~~L~~~~~LlVlDdv~--~~~~---~~~l~~~~~~~~~~~~IlvTTR~~  134 (349)
                      -..+.+.+.++..||+||.+.  |..+   +..|+..+.  ..| .|||+|.|.
T Consensus       117 l~~va~~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~g-vvlVaTSN~  167 (362)
T PF03969_consen  117 LPQVADELAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRG-VVLVATSNR  167 (362)
T ss_pred             HHHHHHHHHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCC-CEEEecCCC
Confidence            345677888888899999875  4433   455555443  234 466666654

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PRK10865 protein disaggregation chaperone; Provisional

Probab=88.68  E-value=1.8  Score=45.62  Aligned_cols=68  Identities=9%  Similarity=0.034  Sum_probs=38.8

Q ss_pred             CCceEEEEecCCCch---------h-HHHHHcccCCCCCCcEEEEEeCcchhhcc------c-CcccEEEcCCCChHhHH
Q 045618           95 RTKVLIVLDDVNKVG---------Q-LEYLIGGLERFGPGSRIIVTTRDRRVLDN------F-GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~---------~-~~~l~~~~~~~~~~~~IlvTTR~~~~~~~------~-~~~~~~~l~~L~~~ea~  157 (349)
                      +.+++|++|+++...         + -+-|.|.+.  ...-++|-+|........      + .--..+.++..+.++..
T Consensus       270 ~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~--~g~l~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~  347 (857)
T PRK10865        270 EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTI  347 (857)
T ss_pred             CCCeEEEEecHHHhccCCCCccchhHHHHhcchhh--cCCCeEEEcCCCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHH
Confidence            468999999997432         2 233444442  223455555554432111      1 11225778888999999


Q ss_pred             HHHHHhh
Q 045618          158 ELFCNCA  164 (349)
Q Consensus       158 ~L~~~~a  164 (349)
                      .+++...
T Consensus       348 ~iL~~l~  354 (857)
T PRK10865        348 AILRGLK  354 (857)
T ss_pred             HHHHHHh
Confidence            9887654

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

Probab=88.67  E-value=6.6  Score=36.48  Aligned_cols=160  Identities=17%  Similarity=0.165  Sum_probs=88.4

Q ss_pred             hHHhhcccCCC--------CCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCC
Q 045618            9 DLLAELNRATS--------CGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQI   80 (349)
Q Consensus         9 d~~~~~~~~~~--------gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~   80 (349)
                      +....++.-+|        =|-|||-||+.+...               ++..|+++..+        ++.++..|... 
T Consensus       175 ElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~---------------T~AtFIrvvgS--------ElVqKYiGEGa-  230 (406)
T COG1222         175 ELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ---------------TDATFIRVVGS--------ELVQKYIGEGA-  230 (406)
T ss_pred             HHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc---------------cCceEEEeccH--------HHHHHHhccch-
Confidence            45555665555        489999999966543               22344666533        13333333111 


Q ss_pred             CCCCHHHHHHHHhCC-CceEEEEecCCCc------------hh----HHHHHcccCCC--CCCcEEEEEeCcchhhccc-
Q 045618           81 RTPNLPEYVRERLRR-TKVLIVLDDVNKV------------GQ----LEYLIGGLERF--GPGSRIIVTTRDRRVLDNF-  140 (349)
Q Consensus        81 ~~~~~~~~l~~~L~~-~~~LlVlDdv~~~------------~~----~~~l~~~~~~~--~~~~~IlvTTR~~~~~~~~-  140 (349)
                         .+-..+++.-+. ..+.|.+|.++..            ..    +-.|+..+.-+  ..+.|||..|...++.... 
T Consensus       231 ---RlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPAL  307 (406)
T COG1222         231 ---RLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPAL  307 (406)
T ss_pred             ---HHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhh
Confidence               122234444444 5899999998521            11    22333443322  3467899888877765432 


Q ss_pred             -C---cccEEEcCCCChHhHHHHHHHhhccCC-CCChhHHHHHHHHHHHcCCCc----hHHHHHhHHh
Q 045618          141 -G---VGNIYKVNGLKYREALELFCNCAFKEN-HCPEDLLVHSKRILDYANGNP----LAVRVLGSFL  199 (349)
Q Consensus       141 -~---~~~~~~l~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~c~glP----LAl~~~a~~l  199 (349)
                       .   ..+.++++..+.+.-.++|+-++..-+ ...-+    .+.|++.|.|.-    -|+..=|+++
T Consensus       308 LRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd----~e~la~~~~g~sGAdlkaictEAGm~  371 (406)
T COG1222         308 LRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVD----LELLARLTEGFSGADLKAICTEAGMF  371 (406)
T ss_pred             cCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcC----HHHHHHhcCCCchHHHHHHHHHHhHH
Confidence             2   345788887777777788887773322 12223    346777777765    3344444444

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=88.45  E-value=1.7  Score=35.75  Aligned_cols=58  Identities=17%  Similarity=0.276  Sum_probs=35.0

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLK  152 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~  152 (349)
                      ++.=++|+||++..  +....|+..+.....++.+|++|++.. +...+ .-...+.+++++
T Consensus       101 ~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  101 GKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             SSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE----
T ss_pred             CCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEecCCCC
Confidence            35668999999854  456777766665577888888888765 33333 223466666654

...

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=88.40  E-value=3.6  Score=41.91  Aligned_cols=78  Identities=18%  Similarity=0.262  Sum_probs=45.2

Q ss_pred             HHHHhCCCceEEEEecCCCch----------------hHHHHHcccCCC--CCCcEEEEEeCcchhhccc-----CcccE
Q 045618           89 VRERLRRTKVLIVLDDVNKVG----------------QLEYLIGGLERF--GPGSRIIVTTRDRRVLDNF-----GVGNI  145 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~~----------------~~~~l~~~~~~~--~~~~~IlvTTR~~~~~~~~-----~~~~~  145 (349)
                      +........++|++|+++...                .+..++..+...  ..+..+|.||..++.....     .....
T Consensus       237 f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~  316 (644)
T PRK10733        237 FEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQ  316 (644)
T ss_pred             HHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceE
Confidence            333344567899999996431                123333222211  2344556677666543321     13457


Q ss_pred             EEcCCCChHhHHHHHHHhhcc
Q 045618          146 YKVNGLKYREALELFCNCAFK  166 (349)
Q Consensus       146 ~~l~~L~~~ea~~L~~~~a~~  166 (349)
                      +.++..+.++-.+++..+...
T Consensus       317 i~v~~Pd~~~R~~Il~~~~~~  337 (644)
T PRK10733        317 VVVGLPDVRGREQILKVHMRR  337 (644)
T ss_pred             EEcCCCCHHHHHHHHHHHhhc
Confidence            888888988888888887633

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=87.79  E-value=0.95  Score=47.51  Aligned_cols=39  Identities=21%  Similarity=0.322  Sum_probs=23.5

Q ss_pred             CCceEEEEecCCC--chhHHHHHcccCCCC-----------CCcEEEEEeCc
Q 045618           95 RTKVLIVLDDVNK--VGQLEYLIGGLERFG-----------PGSRIIVTTRD  133 (349)
Q Consensus        95 ~~~~LlVlDdv~~--~~~~~~l~~~~~~~~-----------~~~~IlvTTR~  133 (349)
                      ....+|+||+++.  ...++.|...+..+.           .++.||+||..
T Consensus       667 ~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNl  718 (852)
T TIGR03345       667 KPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNA  718 (852)
T ss_pred             CCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCC
Confidence            4568999999973  344555554443221           34566666654

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.

>TIGR00763 lon ATP-dependent protease La

Probab=87.37  E-value=3.3  Score=43.16  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=17.2

Q ss_pred             cEEEcCCCChHhHHHHHHHhh
Q 045618          144 NIYKVNGLKYREALELFCNCA  164 (349)
Q Consensus       144 ~~~~l~~L~~~ea~~L~~~~a  164 (349)
                      ..+++++++.++-.+++..+.
T Consensus       485 ~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       485 EVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             eEEecCCCCHHHHHHHHHHHH
Confidence            478999999998888887654

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.

>TIGR01069 mutS2 MutS2 family protein

Probab=87.33  E-value=1.5  Score=45.40  Aligned_cols=112  Identities=12%  Similarity=0.099  Sum_probs=58.6

Q ss_pred             CCceEEEEecCCC---chhHH----HHHcccCCCCCCcEEEEEeCcchhhccc-CcccEEEcCCCChH-hHHHHHHHhhc
Q 045618           95 RTKVLIVLDDVNK---VGQLE----YLIGGLERFGPGSRIIVTTRDRRVLDNF-GVGNIYKVNGLKYR-EALELFCNCAF  165 (349)
Q Consensus        95 ~~~~LlVlDdv~~---~~~~~----~l~~~~~~~~~~~~IlvTTR~~~~~~~~-~~~~~~~l~~L~~~-ea~~L~~~~a~  165 (349)
                      ..+.|+++|..-.   +..-.    .++..+.  ..|+.+|+||....+.... ....+.. ..+..+ +... +.....
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~-~~~~~d~~~l~-p~Ykl~  476 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVEN-ASVLFDEETLS-PTYKLL  476 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEE-eEEEEcCCCCc-eEEEEC
Confidence            4789999999863   22222    2233332  3578899999987764322 1111111 111111 1111 111111


Q ss_pred             cCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhh
Q 045618          166 KENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLK  215 (349)
Q Consensus       166 ~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~  215 (349)
                      .+ .+.   ...|-+|++++ |+|-.|.--|..+......++.++++.|.
T Consensus       477 ~G-~~g---~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L~  521 (771)
T TIGR01069       477 KG-IPG---ESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKLS  521 (771)
T ss_pred             CC-CCC---CcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            11 111   24577788776 78888888887776654556666666654

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=86.67  E-value=2.1  Score=41.49  Aligned_cols=49  Identities=20%  Similarity=0.315  Sum_probs=30.9

Q ss_pred             HHHHHhCCCceEEEEecCCCc----h---hHHHHHcccCCCCCCcEEEEEeCcchhhcc
Q 045618           88 YVRERLRRTKVLIVLDDVNKV----G---QLEYLIGGLERFGPGSRIIVTTRDRRVLDN  139 (349)
Q Consensus        88 ~l~~~L~~~~~LlVlDdv~~~----~---~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~  139 (349)
                      -|.+.+-+..+|+|||.-...    .   -.+.+...   ...|+.+|+.|..+.+...
T Consensus       482 aLARAlYG~P~lvVLDEPNsNLD~~GE~AL~~Ai~~~---k~rG~~vvviaHRPs~L~~  537 (580)
T COG4618         482 ALARALYGDPFLVVLDEPNSNLDSEGEAALAAAILAA---KARGGTVVVIAHRPSALAS  537 (580)
T ss_pred             HHHHHHcCCCcEEEecCCCCCcchhHHHHHHHHHHHH---HHcCCEEEEEecCHHHHhh
Confidence            788999999999999987521    1   12233222   1356666666666655544

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

Probab=86.66  E-value=2.6  Score=43.80  Aligned_cols=70  Identities=14%  Similarity=0.214  Sum_probs=39.5

Q ss_pred             CceEEEEecCCCchh------HHHHHcccCCC---------------CCCcEEEEEeCcchhhccc-CcccEEEcCCCCh
Q 045618           96 TKVLIVLDDVNKVGQ------LEYLIGGLERF---------------GPGSRIIVTTRDRRVLDNF-GVGNIYKVNGLKY  153 (349)
Q Consensus        96 ~~~LlVlDdv~~~~~------~~~l~~~~~~~---------------~~~~~IlvTTR~~~~~~~~-~~~~~~~l~~L~~  153 (349)
                      .+-+++||.++....      ...|...+...               -++..+|.|+..-.+...+ .-..++++.+++.
T Consensus       416 ~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~~i~~aLl~R~~ii~~~~~t~  495 (784)
T PRK10787        416 KNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSMNIPAPLLDRMEVIRLSGYTE  495 (784)
T ss_pred             CCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCCCCCHHHhcceeeeecCCCCH
Confidence            455789999974321      24444433211               1344455555443322221 2234789999999


Q ss_pred             HhHHHHHHHhhc
Q 045618          154 REALELFCNCAF  165 (349)
Q Consensus       154 ~ea~~L~~~~a~  165 (349)
                      +|-.++.+++..
T Consensus       496 eek~~Ia~~~L~  507 (784)
T PRK10787        496 DEKLNIAKRHLL  507 (784)
T ss_pred             HHHHHHHHHhhh
Confidence            998888777663

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=86.14  E-value=2.7  Score=37.01  Aligned_cols=17  Identities=12%  Similarity=-0.060  Sum_probs=13.6

Q ss_pred             cCCCCCchhhHHHHHHh
Q 045618           16 RATSCGIVKIRRCLMVF   32 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f   32 (349)
                      ..|+.|-|||+++...+
T Consensus        18 iIG~sGSGKT~li~~lL   34 (241)
T PF04665_consen   18 IIGKSGSGKTTLIKSLL   34 (241)
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            56778999999988444

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR00602 rad24 checkpoint protein rad24

Probab=86.06  E-value=5.2  Score=40.48  Aligned_cols=71  Identities=10%  Similarity=0.119  Sum_probs=38.3

Q ss_pred             CCCceEEEEecCCCc-----hhHHHHHc-ccCCCCCCcEEEEEeCcch--------hhc-------cc---CcccEEEcC
Q 045618           94 RRTKVLIVLDDVNKV-----GQLEYLIG-GLERFGPGSRIIVTTRDRR--------VLD-------NF---GVGNIYKVN  149 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~-----~~~~~l~~-~~~~~~~~~~IlvTTR~~~--------~~~-------~~---~~~~~~~l~  149 (349)
                      .+++.+|++|++...     ..+..++. .....+.-.-|++||-+..        ...       .+   .....+.+.
T Consensus       193 ~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~Fn  272 (637)
T TIGR00602       193 MTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFN  272 (637)
T ss_pred             CCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCCceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeC
Confidence            357789999999432     23444444 2222233344555552211        000       11   012358899


Q ss_pred             CCChHhHHHHHHHhh
Q 045618          150 GLKYREALELFCNCA  164 (349)
Q Consensus       150 ~L~~~ea~~L~~~~a  164 (349)
                      |++..+-.+.+...+
T Consensus       273 Pia~t~l~K~L~rIl  287 (637)
T TIGR00602       273 PIAPTIMKKFLNRIV  287 (637)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            999999777666655

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=86.01  E-value=4.3  Score=33.90  Aligned_cols=59  Identities=17%  Similarity=0.272  Sum_probs=33.3

Q ss_pred             HHHHHhCCC--ceEEEEecCCC---chhHHHHHcccCC-CCCCcEEEEEeCcchhhcccCcccEEEc
Q 045618           88 YVRERLRRT--KVLIVLDDVNK---VGQLEYLIGGLER-FGPGSRIIVTTRDRRVLDNFGVGNIYKV  148 (349)
Q Consensus        88 ~l~~~L~~~--~~LlVlDdv~~---~~~~~~l~~~~~~-~~~~~~IlvTTR~~~~~~~~~~~~~~~l  148 (349)
                      .+...+..+  .-++++|..-.   ....+.+...+.. ...+..||++|.+.+....  ...++.+
T Consensus        97 ~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~~--~d~i~~l  161 (176)
T cd03238          97 KLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLSS--ADWIIDF  161 (176)
T ss_pred             HHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHh--CCEEEEE
Confidence            556666667  78889999853   2223333222211 1246778888888765432  3444544

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK06921 hypothetical protein; Provisional

Probab=85.75  E-value=1.7  Score=39.00  Aligned_cols=16  Identities=13%  Similarity=-0.170  Sum_probs=12.2

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+-|.|||.|+...
T Consensus       122 l~G~~G~GKThLa~ai  137 (266)
T PRK06921        122 LLGQPGSGKTHLLTAA  137 (266)
T ss_pred             EECCCCCcHHHHHHHH
Confidence            4456799999998743

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=85.48  E-value=2.7  Score=44.25  Aligned_cols=68  Identities=10%  Similarity=0.071  Sum_probs=38.5

Q ss_pred             CCceEEEEecCCCch----------hHHHHHcccCCCCCCcEEEEEeCcchhhcc------c-CcccEEEcCCCChHhHH
Q 045618           95 RTKVLIVLDDVNKVG----------QLEYLIGGLERFGPGSRIIVTTRDRRVLDN------F-GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~----------~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~------~-~~~~~~~l~~L~~~ea~  157 (349)
                      +++.+|++|+++...          ..+.|.+.+ ..+ .-++|-+|.....-..      + .--..+.++..+.++..
T Consensus       265 ~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l-~~g-~i~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~  342 (852)
T TIGR03346       265 EGQIILFIDELHTLVGAGKAEGAMDAGNMLKPAL-ARG-ELHCIGATTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTI  342 (852)
T ss_pred             CCCeEEEeccHHHhhcCCCCcchhHHHHHhchhh-hcC-ceEEEEeCcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHH
Confidence            468999999997331          123333333 222 2344444444332110      1 12236889999999999


Q ss_pred             HHHHHhh
Q 045618          158 ELFCNCA  164 (349)
Q Consensus       158 ~L~~~~a  164 (349)
                      .++....
T Consensus       343 ~iL~~~~  349 (852)
T TIGR03346       343 SILRGLK  349 (852)
T ss_pred             HHHHHHH
Confidence            9887653

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=85.47  E-value=1.9  Score=39.95  Aligned_cols=16  Identities=13%  Similarity=-0.141  Sum_probs=12.4

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+.|.|||.||...
T Consensus       188 l~G~~GtGKThLa~aI  203 (329)
T PRK06835        188 FYGNTGTGKTFLSNCI  203 (329)
T ss_pred             EECCCCCcHHHHHHHH
Confidence            4566899999998743

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=84.90  E-value=9.7  Score=34.56  Aligned_cols=68  Identities=16%  Similarity=0.243  Sum_probs=43.8

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhcccC-cccEEEcCCCChHhHHHHHHH
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNFG-VGNIYKVNGLKYREALELFCN  162 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~~-~~~~~~l~~L~~~ea~~L~~~  162 (349)
                      .+++-++|+|+++..  .....|+..+.+-.+++.+|.+|.++ .+...+. -...+.+++ +.++..+.+..
T Consensus       102 ~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        102 EGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             cCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHH
Confidence            356678999999854  45677777776556667777766655 4555442 234677766 66666666643

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=84.35  E-value=6.6  Score=36.22  Aligned_cols=139  Identities=18%  Similarity=0.096  Sum_probs=73.9

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhh-----hccHHHHHHHHHHHhhcc--cCCCCCCHHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESR-----SIMNQRVSNKFLGWLVEQ--EQIRTPNLPEY   88 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~-----~~~~~~l~~~il~~l~~~--~~~~~~~~~~~   88 (349)
                      .+||-|-|||.|.-.....  --.+.++|        ..++...     ...+..+.+++..++...  ......+.-++
T Consensus        54 iigprgsgkT~li~~~Ls~--~q~~~E~~--------l~v~Lng~~~~dk~al~~I~rql~~e~~~~~k~~gsfte~l~~  123 (408)
T KOG2228|consen   54 IIGPRGSGKTILIDTRLSD--IQENGENF--------LLVRLNGELQTDKIALKGITRQLALELNRIVKSFGSFTENLSK  123 (408)
T ss_pred             EEccCCCCceEeeHHHHhh--HHhcCCeE--------EEEEECccchhhHHHHHHHHHHHHHHHhhhheeecccchhHHH
Confidence            6778899999997643322  11223333        2333322     223444555554444211  11222233335


Q ss_pred             HHHHhCC------CceEEEEecCCCc----hh--HHHHHc-ccCCCCCCcEEEEEeCcchh-------hcccCcccEEEc
Q 045618           89 VRERLRR------TKVLIVLDDVNKV----GQ--LEYLIG-GLERFGPGSRIIVTTRDRRV-------LDNFGVGNIYKV  148 (349)
Q Consensus        89 l~~~L~~------~~~LlVlDdv~~~----~~--~~~l~~-~~~~~~~~~~IlvTTR~~~~-------~~~~~~~~~~~l  148 (349)
                      +...|+.      -++.+|+|.++--    .+  +-.+.. .-....|-|.|-+|||-...       -..+....++-+
T Consensus       124 lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~  203 (408)
T KOG2228|consen  124 LLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFML  203 (408)
T ss_pred             HHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeecc
Confidence            6566654      3689999888621    11  222222 22334678899999986532       112222235666


Q ss_pred             CCCChHhHHHHHHHhh
Q 045618          149 NGLKYREALELFCNCA  164 (349)
Q Consensus       149 ~~L~~~ea~~L~~~~a  164 (349)
                      ++++-++-.+++++..
T Consensus       204 ~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  204 PSLPLGDYVDLYRKLL  219 (408)
T ss_pred             CCCChHHHHHHHHHHh
Confidence            7788888888888765

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=83.77  E-value=7.5  Score=35.37  Aligned_cols=89  Identities=19%  Similarity=0.225  Sum_probs=56.8

Q ss_pred             eEEEEecCCCc--hhHHHHHcccCCCCCCcE-EEEEeCcchhhcccC-cccEEEcCCCChHhHHHHHHHhhccCCCCChh
Q 045618           98 VLIVLDDVNKV--GQLEYLIGGLERFGPGSR-IIVTTRDRRVLDNFG-VGNIYKVNGLKYREALELFCNCAFKENHCPED  173 (349)
Q Consensus        98 ~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~-IlvTTR~~~~~~~~~-~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~  173 (349)
                      =.+|||+++..  +.|..+..........++ |+||+--..+...+. -..-|..++|..++..+-++..+-.....-  
T Consensus       131 KiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~--  208 (346)
T KOG0989|consen  131 KIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVDI--  208 (346)
T ss_pred             eEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcchHHHHHHHHHHHHHhCCCC--
Confidence            37899999854  568888777665455554 555554443333321 223688899999999998888874433322  


Q ss_pred             HHHHHHHHHHHcCCC
Q 045618          174 LLVHSKRILDYANGN  188 (349)
Q Consensus       174 ~~~~~~~i~~~c~gl  188 (349)
                      ..+....|++.++|-
T Consensus       209 d~~al~~I~~~S~Gd  223 (346)
T KOG0989|consen  209 DDDALKLIAKISDGD  223 (346)
T ss_pred             CHHHHHHHHHHcCCc
Confidence            234566777777663

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=83.20  E-value=2.8  Score=39.52  Aligned_cols=83  Identities=13%  Similarity=0.032  Sum_probs=41.5

Q ss_pred             cccCCCCCchhh-HHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH--HHH
Q 045618           14 LNRATSCGIVKI-RRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE--YVR   90 (349)
Q Consensus        14 ~~~~~~gGiGKT-~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~--~l~   90 (349)
                      ...+||-|+||| |||+.++....-   ....      .+.+++.-....-..=|-++..++.+-+-.-..+..+  .-.
T Consensus       206 i~LVGPTGVGKTTTlAKLAar~~~~---~~~~------kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai  276 (407)
T COG1419         206 IALVGPTGVGKTTTLAKLAARYVML---KKKK------KVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAI  276 (407)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhh---ccCc------ceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHH
Confidence            346788999995 567766544310   1111      2222332222222333455666666666555555555  333


Q ss_pred             HHhCCCceEEEEecCC
Q 045618           91 ERLRRTKVLIVLDDVN  106 (349)
Q Consensus        91 ~~L~~~~~LlVlDdv~  106 (349)
                      ..+.+. =++.+|-+-
T Consensus       277 ~~l~~~-d~ILVDTaG  291 (407)
T COG1419         277 EALRDC-DVILVDTAG  291 (407)
T ss_pred             HHhhcC-CEEEEeCCC
Confidence            344444 345557664

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=82.90  E-value=1.7  Score=34.48  Aligned_cols=18  Identities=11%  Similarity=-0.110  Sum_probs=14.3

Q ss_pred             CCCCCchhhHHHHHHhhh
Q 045618           17 ATSCGIVKIRRCLMVFRL   34 (349)
Q Consensus        17 ~~~gGiGKT~la~~~f~~   34 (349)
                      .|+-|-||||+|+.....
T Consensus         5 ~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    5 CGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EESTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            467799999999976643

...

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

Probab=82.24  E-value=2.6  Score=43.59  Aligned_cols=31  Identities=13%  Similarity=0.415  Sum_probs=18.6

Q ss_pred             HHHHHhCC-CceEEEEecCCCc--hhHHHHHccc
Q 045618           88 YVRERLRR-TKVLIVLDDVNKV--GQLEYLIGGL  118 (349)
Q Consensus        88 ~l~~~L~~-~~~LlVlDdv~~~--~~~~~l~~~~  118 (349)
                      .+.+.+.. ...+|+||+++..  +.++.|+..+
T Consensus       548 ~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~l  581 (758)
T PRK11034        548 LLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVM  581 (758)
T ss_pred             hHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHH
Confidence            34444443 4579999999843  4455555443

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

Probab=81.96  E-value=8.5  Score=33.90  Aligned_cols=44  Identities=20%  Similarity=0.197  Sum_probs=24.6

Q ss_pred             CCceEEEEecCC---CchhHHHHHccc----CCCCCCcEEEEEeCcchhhc
Q 045618           95 RTKVLIVLDDVN---KVGQLEYLIGGL----ERFGPGSRIIVTTRDRRVLD  138 (349)
Q Consensus        95 ~~~~LlVlDdv~---~~~~~~~l~~~~----~~~~~~~~IlvTTR~~~~~~  138 (349)
                      ..|++|.+||..   +......|...+    .....+..|..||..+++..
T Consensus       105 ~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~  155 (249)
T PF05673_consen  105 PYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVP  155 (249)
T ss_pred             CCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccc
Confidence            469999999995   333345544433    22223455555665555543

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=81.30  E-value=5.8  Score=36.23  Aligned_cols=60  Identities=17%  Similarity=0.249  Sum_probs=36.9

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhcccC-cccEEEcCCCCh
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNFG-VGNIYKVNGLKY  153 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~~-~~~~~~l~~L~~  153 (349)
                      .++.-++|+|+++..  +....+...+......+.+|++|... .+...+. -...+++++.+.
T Consensus       107 ~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SRc~~i~f~~~~~  170 (325)
T COG0470         107 EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRCQRIRFKPPSR  170 (325)
T ss_pred             CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhcceeeecCCchH
Confidence            356778999999854  34566666655556677777777643 3333332 234677766333

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=80.28  E-value=4.2  Score=42.37  Aligned_cols=113  Identities=14%  Similarity=0.063  Sum_probs=58.6

Q ss_pred             CCceEEEEecCCC---chhH----HHHHcccCCCCCCcEEEEEeCcchhhcccCcc-cEEEcCCCChHhHHHHHHHhhcc
Q 045618           95 RTKVLIVLDDVNK---VGQL----EYLIGGLERFGPGSRIIVTTRDRRVLDNFGVG-NIYKVNGLKYREALELFCNCAFK  166 (349)
Q Consensus        95 ~~~~LlVlDdv~~---~~~~----~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~~~-~~~~l~~L~~~ea~~L~~~~a~~  166 (349)
                      ..+.|+++|..-.   +..-    ..++..+.  ..++.+|+||....+....... .+......-..+... +......
T Consensus       406 ~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~~~v~~~~~~~d~~~l~-~~Ykl~~  482 (782)
T PRK00409        406 DKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNREGVENASVEFDEETLR-PTYRLLI  482 (782)
T ss_pred             CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcCCCeEEEEEEEecCcCc-EEEEEee
Confidence            4778999999963   2222    22233322  2478999999987765443211 111111000111111 1111111


Q ss_pred             CCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhh
Q 045618          167 ENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLK  215 (349)
Q Consensus       167 ~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~  215 (349)
                      + .+.   ...|-+|++++ |+|-.+.--|..+..........+++.|.
T Consensus       483 G-~~g---~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~l~  526 (782)
T PRK00409        483 G-IPG---KSNAFEIAKRL-GLPENIIEEAKKLIGEDKEKLNELIASLE  526 (782)
T ss_pred             C-CCC---CcHHHHHHHHh-CcCHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            1 111   34467788877 78888887777776655556666666654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	349
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		7e-05
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		3e-04
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		4e-04
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		6e-04

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 44.7 bits (104), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 52/193 (26%), Positives = 87/193 (45%), Gaps = 33/193 (17%)
Query: 75  VEQEQIRTPNLP---EYVRERLR------RTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
           ++QE+  +  LP   E  ++RLR        + L++LDDV       +    L+ F    
Sbjct: 206 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV-------WDPWVLKAFDNQC 258
Query: 126 RIIVTTRDRRVLDN-FGVGNIYKV-NGLKYREALELFCNCAFKENHCPEDLLVHSKRILD 183
           +I++TTRD+ V D+  G  ++  V +GL   + LE+    +   N   EDL   +  I+ 
Sbjct: 259 QILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSIIK 315
Query: 184 YANGNPLAVRVLGSFLRQKSKLDWESALDNL-----KRISDPDIYD------VLKISYNE 232
              G+PL V ++G+ LR      W   L  L     KRI     YD       + IS   
Sbjct: 316 ECKGSPLVVSLIGALLRDFPN-RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEM 374
Query: 233 IKAEEKSLFLDIA 245
           ++ + K  + D++
Sbjct: 375 LREDIKDYYTDLS 387

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 51/193 (26%), Positives = 86/193 (44%), Gaps = 33/193 (17%)
Query: 75  VEQEQIRTPNLP---EYVRERLR------RTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
           ++QE+  +  LP   E  ++RLR        + L++LDDV       +    L+ F    
Sbjct: 213 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV-------WDPWVLKAFDNQC 265
Query: 126 RIIVTTRDRRVLDN-FGVGNIYKV-NGLKYREALELFCNCAFKENHCPEDLLVHSKRILD 183
           +I++TT D+ V D+  G  ++  V +GL   + LE+    +   N   EDL   +  I+ 
Sbjct: 266 QILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSIIK 322
Query: 184 YANGNPLAVRVLGSFLRQKSKLDWESALDNL-----KRISDPDIYD------VLKISYNE 232
              G+PL V ++G+ LR      W   L  L     KRI     YD       + IS   
Sbjct: 323 ECKGSPLVVSLIGALLRDFPN-RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEM 381
Query: 233 IKAEEKSLFLDIA 245
           ++ + K  + D++
Sbjct: 382 LREDIKDYYTDLS 394

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 56/197 (28%), Positives = 87/197 (44%), Gaps = 41/197 (20%)
Query: 75  VEQEQIRTPNLP---EYVRERLR------RTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
           ++Q++  +  LP   E  ++RLR        + L++LDDV       +    L+ F    
Sbjct: 206 LDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDV-------WDSWVLKAFDSQC 258
Query: 126 RIIVTTRDRRVLDNFGVGNIYKV------NGLKYREALELFCNCAFKENHCPEDLLVHSK 179
           +I++TTRD+ V D+  +G  Y V         K  E L LF N   K+   PE    HS 
Sbjct: 259 QILLTTRDKSVTDSV-MGPKYVVPVESSLGKEKGLEILSLFVN--MKKADLPEQ--AHS- 312
Query: 180 RILDYANGNPLAVRVLGSFLRQKSKLDWESALDNL-----KRISDPDIYD------VLKI 228
            I+    G+PL V ++G+ LR      WE  L  L     KRI     YD       + I
Sbjct: 313 -IIKECKGSPLVVSLIGALLRDFPN-RWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSI 370
Query: 229 SYNEIKAEEKSLFLDIA 245
           S   ++ + K  + D++
Sbjct: 371 SVEMLREDIKDYYTDLS 387

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	349
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-36
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-13
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	6e-32
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-26
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-15

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score =  138 bits (347), Expect = 5e-36
 Identities = 63/375 (16%), Positives = 127/375 (33%), Gaps = 90/375 (24%)

Query: 6   NTDDLLAELNRATSCGIVKIRRCLMVFR-----------------LCSTECLSEAL---- 44
           N + + A+ N +     +K+R+ L+  R                 +    CLS  +    
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 45  -----WKPSYLNSRAIRESRSIMN--QRVSNKF-LGWLVEQEQIRTPNLP-EYVRERLRR 95
                W    LN +      +++   Q++  +    W    +      L    ++  LRR
Sbjct: 181 DFKIFW----LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236

Query: 96  -------TKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV 148
                     L+VL +V               F    +I++TTR ++V D         +
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNA-------FNLSCKILLTTRFKQVTDFLSAATTTHI 289

Query: 149 ------NGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQK 202
                   L   E   L        +  P+DL    + +L     NP  + ++   +R  
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYL---DCRPQDL---PREVLT---TNPRRLSIIAESIR-- 338

Query: 203 SKLDWESALDNLKRISDPDIYDVLKISYNEIK-AEEKSLFLDIACFFNGQDKDS-----V 256
              D  +  DN K ++   +  +++ S N ++ AE + +F  ++ F       +     +
Sbjct: 339 ---DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF----PPSAHIPTIL 391

Query: 257 LKMI---GDSSFAHYGLNVLVDKSLVTV-SRGNQLQMHDLLQEMGREIVRQESIEQPGKR 312
           L +I      S     +N L   SLV    + + + +  +  E+     + +   +    
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL-----KVKLENEYALH 446

Query: 313 SRLWYYEDVYNVLKK 327
             +    D YN+ K 
Sbjct: 447 RSIV---DHYNIPKT 458

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 69.5 bits (169), Expect = 5e-13
 Identities = 59/364 (16%), Positives = 114/364 (31%), Gaps = 127/364 (34%)

Query: 63  NQRVSNKFLG--------WLVE--QEQIRTPNLP--EYV--RERLRRTKVLIVLDDVNKV 108
            + +  KF+         +L+   + + R P++    Y+  R+RL     +    +V+++
Sbjct: 75  QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRL 134

Query: 109 GQLEYLIGGLERFGPGSRIIV--------------TTRDRRVLDNFGVGNIYKVNGLKYR 154
                L   L    P   +++                   +V        I+ +N     
Sbjct: 135 QPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD-FKIFWLN----- 188

Query: 155 EALELFCNCAFKENHCPEDLLVHSKRIL-----------DYANGNPLAVRVLGSFLR--Q 201
                      K  + PE +L   +++L           D+++   L +  + + LR   
Sbjct: 189 ----------LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238

Query: 202 KSK--------LD--WES----ALDNLKRI----SDPDIYDVL------KISYNEI---- 233
           KSK        L     +    A +   +I        + D L       IS +      
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298

Query: 234 -KAEEKSLFLDIACFFNGQDKDS----------VLKMIGDS---------SFAHYG---L 270
              E KSL L    + + + +D            L +I +S         ++ H     L
Sbjct: 299 TPDEVKSLLLK---YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355

Query: 271 NVLVDKSLVTVSRGNQLQ---MHDLLQEMGREIVRQESIEQPGKR-SRLWY---YEDVYN 323
             +++ SL      N L+      +   +    V   S   P    S +W+     DV  
Sbjct: 356 TTIIESSL------NVLEPAEYRKMFDRLS---VFPPSAHIPTILLSLIWFDVIKSDVMV 406

Query: 324 VLKK 327
           V+ K
Sbjct: 407 VVNK 410

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  124 bits (313), Expect = 6e-32
 Identities = 32/249 (12%), Positives = 72/249 (28%), Gaps = 34/249 (13%)

Query: 87  EYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDN-FGVGNI 145
                 + R   L V DDV +   + +            R +VTTRD  + +        
Sbjct: 234 MICNALIDRPNTLFVFDDVVQEETIRWA------QELRLRCLVTTRDVEISNAASQTCEF 287

Query: 146 YKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKL 205
            +V  L+  E  +             ++  V   + ++ ++GNP  + +       K+  
Sbjct: 288 IEVTSLEIDECYDFLEAYGMPMPVGEKEEDV-LNKTIELSSGNPATLMMFFKSCEPKTFE 346

Query: 206 DWESALDNLKR-----------ISDPDIYDVLKISYNEIKAEEKSLFLDIACFFNGQD-- 252
                 + L+             S   +   L+     +  E++S          G D  
Sbjct: 347 KMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP 406

Query: 253 KDSVLKMIGDSSF----------AHYGLNVLVDKSLVTVSRGNQL---QMHDLLQEMGRE 299
                 +I                   L  L  +  +   +   +   ++  ++    + 
Sbjct: 407 VKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKH 466

Query: 300 IVRQESIEQ 308
           +V  ++I  
Sbjct: 467 VVDAQTIAN 475

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  109 bits (274), Expect = 2e-26
 Identities = 48/249 (19%), Positives = 93/249 (37%), Gaps = 44/249 (17%)

Query: 85  LPEYVRERL--RRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFG- 141
             + +R  +  +  + L++LDDV     L+        F    +I++TTRD+ V D+   
Sbjct: 223 AKDRLRILMLRKHPRSLLILDDVWDSWVLKA-------FDSQCQILLTTRDKSVTDSVMG 275

Query: 142 -VGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLR 200
               +   + L   + LE+             DL   +  I+    G+PL V ++G+ LR
Sbjct: 276 PKYVVPVESSLGKEKGLEILSLFVN---MKKADLPEQAHSIIKECKGSPLVVSLIGALLR 332

Query: 201 QKSKLDWESALDNLKR-----------ISDPDIYDVLKISYNEIKAEEKSLFLDIACFFN 249
                 WE  L  L+                 + + + IS   ++ + K  + D++    
Sbjct: 333 DFPN-RWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSIL-- 389

Query: 250 GQDKDSVLKM-------IGDSSFAHYGLNVLVDKSLVTVSRGNQL---QMHDLLQEMGRE 299
              KD  +           ++      L   V+KSL+   R  +     +HDL      +
Sbjct: 390 --QKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQ----VD 443

Query: 300 IVRQESIEQ 308
            + +++  Q
Sbjct: 444 FLTEKNCSQ 452

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 77.2 bits (190), Expect = 1e-15
 Identities = 59/288 (20%), Positives = 108/288 (37%), Gaps = 44/288 (15%)

Query: 47  PSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQI--RTPNLPEYVRERL------RRTKV 98
              ++  +I +                L ++E    R P   E  ++RL      +  + 
Sbjct: 179 SGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRS 238

Query: 99  LIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV---NGLKYRE 155
           L++LDDV     L+        F    +I++TTRD+ V D+   G  + V   +GL   +
Sbjct: 239 LLILDDVWDPWVLKA-------FDNQCQILLTTRDKSVTDSVM-GPKHVVPVESGLGREK 290

Query: 156 ALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESAL---- 211
            LE+    +   N   EDL   +  I+    G+PL V ++G+ LR      W   L    
Sbjct: 291 GLEIL---SLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPN-RWAYYLRQLQ 346

Query: 212 -DNLKRISD------PDIYDVLKISYNEIKAEEKSLFLDIACF-----FNGQDKDSVLKM 259
               KRI          + + + IS   ++ + K  + D++          +    +  +
Sbjct: 347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDL 406

Query: 260 IGDSSFAHYGLNVLVDKSLVTV---SRGNQLQMHDLLQEMGREIVRQE 304
             ++      L   V+KSL+      +     +HDL  +   E  R +
Sbjct: 407 --ETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ 452

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	349
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.52
2fna_A	357	Conserved hypothetical protein; structural genomic	99.43
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.34
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.06
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.91
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.87
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.85
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.62
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.4
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.25
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.18
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.86
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.69
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.59
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.5
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.3
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.21
3bos_A	242	Putative DNA replication factor; P-loop containing	97.15
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.04
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.98
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.96
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.81
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.79
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.62
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.61
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.61
3pvs_A	447	Replication-associated recombination protein A; ma	96.6
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.59
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	96.58
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.52
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.51
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.48
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.47
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.38
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.24
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.24
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.22
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.11
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.07
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.77
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.52
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	94.62
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	94.47
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.16
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	93.74
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	93.41
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	92.94
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	92.88
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	92.7
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	92.68
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	92.44
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	92.36
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	92.35
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	92.04
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	91.99
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	91.32
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	91.3
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	91.0
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	90.23
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	90.07
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	89.78
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	89.42
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	89.32
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	89.28
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	89.21
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	89.2
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	89.14
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	88.75
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	86.81
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	86.57
3co5_A	143	Putative two-component system transcriptional RES	85.96
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	84.51
2cvh_A	220	DNA repair and recombination protein RADB; filamen	84.47
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	83.42
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	82.29

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=1.3e-40  Score=327.29  Aligned_cols=275  Identities=13%  Similarity=0.110  Sum_probs=203.6

Q ss_pred             hhcccCCCCCchhhHHHHHHhh---hhcceeeccccccccccCcceeehhhhc--cHHHHHHHHHHHhhcccC----CCC
Q 045618           12 AELNRATSCGIVKIRRCLMVFR---LCSTECLSEALWKPSYLNSRAIRESRSI--MNQRVSNKFLGWLVEQEQ----IRT   82 (349)
Q Consensus        12 ~~~~~~~~gGiGKT~la~~~f~---~~~w~~~~~~f~~~~~~~~~~v~~~~~~--~~~~l~~~il~~l~~~~~----~~~   82 (349)
                      .....+|||||||||||+.+|.   ...-.++...+         |+.++...  +...++..|+.++.....    ...
T Consensus       153 ~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~---------wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~~  223 (549)
T 2a5y_B          153 FFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIV---------WLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSV  223 (549)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEE---------EEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEE---------EEEECCCCCCCHHHHHHHHHHHHhcCccccccccc
Confidence            3455789999999999998874   22222333333         34444432  678899999999854321    112


Q ss_pred             CC-----HHHHHHHHhCCC-ceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcccC-cccEEEcCCCChHh
Q 045618           83 PN-----LPEYVRERLRRT-KVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFG-VGNIYKVNGLKYRE  155 (349)
Q Consensus        83 ~~-----~~~~l~~~L~~~-~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~-~~~~~~l~~L~~~e  155 (349)
                      ++     +.+.+++.|.++ ||||||||||+.+++ .+ +.    .+||+||||||++.++..++ ...+|+|++|+.+|
T Consensus       224 ~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~-~~----~~gs~ilvTTR~~~v~~~~~~~~~~~~l~~L~~~e  297 (549)
T 2a5y_B          224 EHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RW-AQ----ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE  297 (549)
T ss_dssp             TTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HH-HH----HTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHH
T ss_pred             ccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cc-cc----cCCCEEEEEcCCHHHHHHcCCCCeEEECCCCCHHH
Confidence            22     245899999996 999999999998866 22 22    27999999999999988775 44689999999999


Q ss_pred             HHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHH-HhhcCCCCcHHHHHHHhHhcCC
Q 045618          156 ALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALD-NLKRISDPDIYDVLKISYNEIK  234 (349)
Q Consensus       156 a~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~-~l~~~~~~~l~~~l~~s~~~L~  234 (349)
                      |++||.+.++.... .+.+.+.+.+|+++|+|+||||+++|+.++.+. .+|...+. .+.......+..++.+||+.||
T Consensus       298 a~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~~~~~i~~~l~~Sy~~L~  375 (549)
T 2a5y_B          298 CYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESRGLVGVECITPYSYKSLA  375 (549)
T ss_dssp             HHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHHCSSTTCCCSSSSSSSHH
T ss_pred             HHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhcccHHHHHHHHhccccccc
Confidence            99999999876543 467788999999999999999999999998764 33333332 2332244567777888888888


Q ss_pred             hhHHHHHH-----------HhcccCCCCCHHHHHHHhccc--------------ccHHHhHHHHhhCcceEEcC---CCe
Q 045618          235 AEEKSLFL-----------DIACFFNGQDKDSVLKMIGDS--------------SFAHYGLNVLVDKSLVTVSR---GNQ  286 (349)
Q Consensus       235 ~~~~~~f~-----------~la~fp~~~~~~~l~~~~~~~--------------~~~~~~l~~L~~~sLl~~~~---~~~  286 (349)
                      ++.+.||+           +||+||++.+.+  +.+|.++              ..+..+|++|+++||++...   .++
T Consensus       376 ~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L~~rsLl~~~~~~~~~~  453 (549)
T 2a5y_B          376 MALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLT  453 (549)
T ss_dssp             HHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHTTTBSSCSEEECSSSCE
T ss_pred             HHHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHHHHcCCeeEecCCCceE
Confidence            88888887           999999984444  5666653              12334899999999999754   347


Q ss_pred             EEecHHHHHHHHHHHhhhc
Q 045618          287 LQMHDLLQEMGREIVRQES  305 (349)
Q Consensus       287 ~~mH~lv~~~a~~~~~~e~  305 (349)
                      |+|||+||+||+.++.+++
T Consensus       454 ~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          454 FKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             EECCHHHHHHHHTTSCTHH
T ss_pred             EEeChHHHHHHHHHHHHHH
Confidence            9999999999998877665

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=2e-36  Score=323.21  Aligned_cols=276  Identities=20%  Similarity=0.223  Sum_probs=209.7

Q ss_pred             hhcccCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhh--hccHHHHHHHHHHHhhcccC---CCCCC--
Q 045618           12 AELNRATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESR--SIMNQRVSNKFLGWLVEQEQ---IRTPN--   84 (349)
Q Consensus        12 ~~~~~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~--~~~~~~l~~~il~~l~~~~~---~~~~~--   84 (349)
                      ......|||||||||||+.++......  ...|    +..+.++.++.  ..........++..+.....   ....+  
T Consensus       148 ~~v~i~G~gG~GKTtLa~~~~~~~~~~--~~~~----~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  221 (1249)
T 3sfz_A          148 GWVTIYGMAGCGKSVLAAEAVRDHSLL--EGCF----SGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIE  221 (1249)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTCCHHHH--TTTS----TTCEEEEECCSCCHHHHHHHHHHHHHHHTTTCTTCSSCCSSHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcChhHH--HhhC----CCeEEEEEECCcCchHHHHHHHHHHHHhhhhcccccCCCCCHH
Confidence            344578899999999998665431100  0001    11222344433  22334445556666633221   11122  


Q ss_pred             -HHHHHHHHhCCC--ceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcc-cCcccEEEcCC-CChHhHHHH
Q 045618           85 -LPEYVRERLRRT--KVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDN-FGVGNIYKVNG-LKYREALEL  159 (349)
Q Consensus        85 -~~~~l~~~L~~~--~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~-~~~~~~~~l~~-L~~~ea~~L  159 (349)
                       +.+.++..+.++  ||||||||||+..+|+.+       ++||+||||||++.++.. .+....+.+++ |+.+||++|
T Consensus       222 ~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~~~~~~~~~~~~l~~~~a~~l  294 (1249)
T 3sfz_A          222 EAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEI  294 (1249)
T ss_dssp             HHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCCSCBCCEECCSSCCHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhcCCceEEEecCCCCHHHHHHH
Confidence             233778888877  999999999998876654       679999999999998854 45567899996 999999999


Q ss_pred             HHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhhcCCC-----------CcHHHHHHH
Q 045618          160 FCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISD-----------PDIYDVLKI  228 (349)
Q Consensus       160 ~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~~~~~-----------~~l~~~l~~  228 (349)
                      |...++...   +.+.+.+.+|+++|+|+||||+++|++|+.++ ..|.++++.+.....           .++..+|.+
T Consensus       295 ~~~~~~~~~---~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~  370 (1249)
T 3sfz_A          295 LSLFVNMKK---EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSI  370 (1249)
T ss_dssp             HHHHHTSCS---TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHH
T ss_pred             HHHhhCCCh---hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhhhcccccccchHHHHHHHHH
Confidence            998884332   23345688999999999999999999998865 579999988865421           348899999


Q ss_pred             hHhcCChhHHHHHHHhcccCCC--CCHHHHHHHhccc-ccHHHhHHHHhhCcceEEcCCCe---EEecHHHHHHHHHHHh
Q 045618          229 SYNEIKAEEKSLFLDIACFFNG--QDKDSVLKMIGDS-SFAHYGLNVLVDKSLVTVSRGNQ---LQMHDLLQEMGREIVR  302 (349)
Q Consensus       229 s~~~L~~~~~~~f~~la~fp~~--~~~~~l~~~~~~~-~~~~~~l~~L~~~sLl~~~~~~~---~~mH~lv~~~a~~~~~  302 (349)
                      ||+.|++++|.||++||+||++  ++.+.++.+|.++ ..++.+|++|+++||++...++.   |+||++||+|+++.+.
T Consensus       371 s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~  450 (1249)
T 3sfz_A          371 SVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNR  450 (1249)
T ss_dssp             HHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTG
T ss_pred             HHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhhhh
Confidence            9999999999999999999998  8999999999988 88899999999999999876554   9999999999999877


Q ss_pred             hh
Q 045618          303 QE  304 (349)
Q Consensus       303 ~e  304 (349)
                      ++
T Consensus       451 ~~  452 (1249)
T 3sfz_A          451 SQ  452 (1249)
T ss_dssp             GG
T ss_pred             HH
Confidence            65

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=1.4e-35  Score=299.38  Aligned_cols=267  Identities=15%  Similarity=0.137  Sum_probs=192.3

Q ss_pred             hhcccCCCCCchhhHHHHHHhh---------h-hcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhccc---
Q 045618           12 AELNRATSCGIVKIRRCLMVFR---------L-CSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQE---   78 (349)
Q Consensus        12 ~~~~~~~~gGiGKT~la~~~f~---------~-~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~---   78 (349)
                      ......|||||||||||+..+.         . ++|+++++.+                 +...+...|+..+....   
T Consensus       151 RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~-----------------d~~~IL~~Ll~lL~~i~~~~  213 (1221)
T 1vt4_I          151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN-----------------SPETVLEMLQKLLYQIDPNW  213 (1221)
T ss_dssp             CEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSS-----------------SHHHHHHHHHHHHHHHCSSS
T ss_pred             eEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCC-----------------CHHHHHHHHHHHHhhcCccc
Confidence            3455789999999999996653         1 3454444433                 55555555555431110   


Q ss_pred             CCCCC----------CHHHHHHHHh---CCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcccCcccE
Q 045618           79 QIRTP----------NLPEYVRERL---RRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNI  145 (349)
Q Consensus        79 ~~~~~----------~~~~~l~~~L---~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~~~~~  145 (349)
                      .....          ...+.+++.|   .++|+||||||||+.++|+.+       .+||+||||||++.++..+.....
T Consensus       214 ~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f-------~pGSRILVTTRd~~Va~~l~g~~v  286 (1221)
T 1vt4_I          214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF-------NLSCKILLTTRFKQVTDFLSAATT  286 (1221)
T ss_dssp             TTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHH-------HSSCCEEEECSCSHHHHHHHHHSS
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhh-------CCCeEEEEeccChHHHHhcCCCeE
Confidence            00111          1122566655   789999999999999888876       268999999999998764433334


Q ss_pred             EEcC------CCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccC--CHHHHHHHHHHhhcC
Q 045618          146 YKVN------GLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQK--SKLDWESALDNLKRI  217 (349)
Q Consensus       146 ~~l~------~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~--~~~~~~~~l~~l~~~  217 (349)
                      +.++      +|+.+||++||.+.. +..  .   .+...+   .|+|+||||+++|+.|+.+  +...|...       
T Consensus       287 y~LeL~d~dL~LS~eEA~eLF~~~~-g~~--~---eeL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW~~~-------  350 (1221)
T 1vt4_I          287 THISLDHHSMTLTPDEVKSLLLKYL-DCR--P---QDLPRE---VLTTNPRRLSIIAESIRDGLATWDNWKHV-------  350 (1221)
T ss_dssp             CEEEECSSSSCCCHHHHHHHHHHHH-CCC--T---TTHHHH---HCCCCHHHHHHHHHHHHHSCSSHHHHHHC-------
T ss_pred             EEecCccccCCcCHHHHHHHHHHHc-CCC--H---HHHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHHhcC-------
Confidence            6666      899999999999984 322  1   122233   3999999999999999986  67778653       


Q ss_pred             CCCcHHHHHHHhHhcCChhH-HHHHHHhcccCCC--CCHHHHHHHhccc--ccHHHhHHHHhhCcceEEcC-CCeEEecH
Q 045618          218 SDPDIYDVLKISYNEIKAEE-KSLFLDIACFFNG--QDKDSVLKMIGDS--SFAHYGLNVLVDKSLVTVSR-GNQLQMHD  291 (349)
Q Consensus       218 ~~~~l~~~l~~s~~~L~~~~-~~~f~~la~fp~~--~~~~~l~~~~~~~--~~~~~~l~~L~~~sLl~~~~-~~~~~mH~  291 (349)
                      ....+..+|.+||+.|+++. |.||++||+||++  ++.+.+..+|.++  ..++.+|++|+++||++... .++|+|||
T Consensus       351 ~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d~~~~rYrMHD  430 (1221)
T 1vt4_I          351 NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS  430 (1221)
T ss_dssp             SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBCSSSSEEBCCC
T ss_pred             ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEeCCCCEEEehH
Confidence            34679999999999999999 9999999999987  7888999999987  36888999999999999863 57899999


Q ss_pred             HHHHHHHHHHhhhcCCCCCCeeeeccchhHHH
Q 045618          292 LLQEMGREIVRQESIEQPGKRSRLWYYEDVYN  323 (349)
Q Consensus       292 lv~~~a~~~~~~e~~~~~~~~~rl~~~~d~~~  323 (349)
                      |+++++     ......+...+|+..+.+..+
T Consensus       431 LllELr-----~~~~e~~alHrRLvd~Y~~~~  457 (1221)
T 1vt4_I          431 IYLELK-----VKLENEYALHRSIVDHYNIPK  457 (1221)
T ss_dssp             HHHHHH-----HHHSCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHh-----cCCCcHHHHHHHHHHHHHhhC
Confidence            998843     111123444555555444443

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=6.3e-33  Score=275.26  Aligned_cols=201  Identities=24%  Similarity=0.342  Sum_probs=166.2

Q ss_pred             HHHHHhCC--CceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcccCcccEEEc---CCCChHhHHHHHHH
Q 045618           88 YVRERLRR--TKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVGNIYKV---NGLKYREALELFCN  162 (349)
Q Consensus        88 ~l~~~L~~--~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~~~~~~~l---~~L~~~ea~~L~~~  162 (349)
                      .++..+.+  +++||||||+|+...++.+       +++++||||||++.++..+. ...+++   ++|+.+|+++||..
T Consensus       226 ~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~  297 (591)
T 1z6t_A          226 RLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVM-GPKYVVPVESSLGKEKGLEILSL  297 (591)
T ss_dssp             HHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCC-SCEEEEECCSSCCHHHHHHHHHH
T ss_pred             HHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcC-CCceEeecCCCCCHHHHHHHHHH
Confidence            67777766  7899999999997766543       57899999999998776543 234555   58999999999999


Q ss_pred             hhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhhcCC-----------CCcHHHHHHHhHh
Q 045618          163 CAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRIS-----------DPDIYDVLKISYN  231 (349)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~~~~-----------~~~l~~~l~~s~~  231 (349)
                      .++..   .....+.+.+|+++|+|+||||.++|++++... ..|..+++.+....           ..++..++..||+
T Consensus       298 ~~~~~---~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~  373 (591)
T 1z6t_A          298 FVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVE  373 (591)
T ss_dssp             HHTSC---GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHH
T ss_pred             HhCCC---cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHH
Confidence            88542   122245678999999999999999999998764 46888888876542           1368899999999


Q ss_pred             cCChhHHHHHHHhcccCCC--CCHHHHHHHhccc-ccHHHhHHHHhhCcceEEcCC---CeEEecHHHHHHHHHH
Q 045618          232 EIKAEEKSLFLDIACFFNG--QDKDSVLKMIGDS-SFAHYGLNVLVDKSLVTVSRG---NQLQMHDLLQEMGREI  300 (349)
Q Consensus       232 ~L~~~~~~~f~~la~fp~~--~~~~~l~~~~~~~-~~~~~~l~~L~~~sLl~~~~~---~~~~mH~lv~~~a~~~  300 (349)
                      .|+++.+.||+++|+||++  ++.+.+..+|..+ ..+...++.|+++||+....+   .+|+||+++|+|+++.
T Consensus       374 ~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~  448 (591)
T 1z6t_A          374 MLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEK  448 (591)
T ss_dssp             TSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhh
Confidence            9999999999999999986  8889999999987 778899999999999996543   3699999999999987

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.52  E-value=1.8e-12  Score=119.31  Aligned_cols=190  Identities=12%  Similarity=0.068  Sum_probs=119.7

Q ss_pred             CceEEEEecCCCch--------hHHHHHcccCCCCCCcEEEEEeCcchhhcc----------c--CcccEEEcCCCChHh
Q 045618           96 TKVLIVLDDVNKVG--------QLEYLIGGLERFGPGSRIIVTTRDRRVLDN----------F--GVGNIYKVNGLKYRE  155 (349)
Q Consensus        96 ~~~LlVlDdv~~~~--------~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~----------~--~~~~~~~l~~L~~~e  155 (349)
                      ++.+|||||++...        .+..++..+....++..+|+|++.......          +  .....+.+++|+.+|
T Consensus       128 ~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e  207 (350)
T 2qen_A          128 GEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDT  207 (350)
T ss_dssp             SCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHH
T ss_pred             CCEEEEEeCHHHHhccCccchhhHHHHHHHHHHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHH
Confidence            38999999997633        222222222111357889999887543111          1  112479999999999


Q ss_pred             HHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhcc-CCHHHH-HHHHHHhhcCCCCcHHHHHHHhHhcC
Q 045618          156 ALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQ-KSKLDW-ESALDNLKRISDPDIYDVLKISYNEI  233 (349)
Q Consensus       156 a~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~-~~~~~~-~~~l~~l~~~~~~~l~~~l~~s~~~L  233 (349)
                      +.+++...........  ..+.+..+.+.|+|+|+++..++..+.. .+...+ ..+.+.        +...+...+..+
T Consensus       208 ~~~~l~~~~~~~~~~~--~~~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~l~~l  277 (350)
T 2qen_A          208 SVEFLKRGFREVNLDV--PENEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRAMKRTLEV--------AKGLIMGELEEL  277 (350)
T ss_dssp             HHHHHHHHHHTTTCCC--CHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCC--CHHHHHHHHHHhCCCHHHHHHHHHHHhccccHhHHHHHHHHH--------HHHHHHHHHHHH
Confidence            9999987542211111  1346789999999999999999876532 222222 111111        111122222333


Q ss_pred             ---ChhHHHHHHHhcccCCCCCHHHHHHHh-----ccc-ccHHHhHHHHhhCcceEEcCCCeEEe-cHHHHHHHH
Q 045618          234 ---KAEEKSLFLDIACFFNGQDKDSVLKMI-----GDS-SFAHYGLNVLVDKSLVTVSRGNQLQM-HDLLQEMGR  298 (349)
Q Consensus       234 ---~~~~~~~f~~la~fp~~~~~~~l~~~~-----~~~-~~~~~~l~~L~~~sLl~~~~~~~~~m-H~lv~~~a~  298 (349)
                         ++..+.++..+|.  +..+...+....     ... .....+++.|.+.+||... ++.|++ |+++++|.+
T Consensus       278 ~~~~~~~~~~l~~la~--g~~~~~~l~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          278 RRRSPRYVDILRAIAL--GYNRWSLIRDYLAVKGTKIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHCHHHHHHHHHHHT--TCCSHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHHT
T ss_pred             HhCChhHHHHHHHHHh--CCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHHc
Confidence               6788999999998  346667776665     333 4567889999999999986 567776 788888764

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.43  E-value=6.8e-12  Score=115.60  Aligned_cols=190  Identities=16%  Similarity=0.089  Sum_probs=117.2

Q ss_pred             CceEEEEecCCCch-----hHHHHHcccCCCCCCcEEEEEeCcchhhc----------cc-C-cccEEEcCCCChHhHHH
Q 045618           96 TKVLIVLDDVNKVG-----QLEYLIGGLERFGPGSRIIVTTRDRRVLD----------NF-G-VGNIYKVNGLKYREALE  158 (349)
Q Consensus        96 ~~~LlVlDdv~~~~-----~~~~l~~~~~~~~~~~~IlvTTR~~~~~~----------~~-~-~~~~~~l~~L~~~ea~~  158 (349)
                      ++.+|||||++...     .+..++..+....++..+|+|++......          .+ + ....+.+++|+.+|+.+
T Consensus       137 ~~~vlvlDe~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~  216 (357)
T 2fna_A          137 DNVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIE  216 (357)
T ss_dssp             SCEEEEEETGGGGGGCTTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHH
T ss_pred             CCeEEEEECHHHhhccCchhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHH
Confidence            48999999997532     22222222211134788999999764311          11 1 12579999999999999


Q ss_pred             HHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhcc-CCHHHHH-HHHHHhhcCCCCcHHHHHHHhH---hcC
Q 045618          159 LFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQ-KSKLDWE-SALDNLKRISDPDIYDVLKISY---NEI  233 (349)
Q Consensus       159 L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~-~~~~~~~-~~l~~l~~~~~~~l~~~l~~s~---~~L  233 (349)
                      ++..............    ..|++.|+|+|+++..++..+.. .+...|. .+.+....    .+...+.-.+   ..|
T Consensus       217 ~l~~~~~~~~~~~~~~----~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~l  288 (357)
T 2fna_A          217 FLRRGFQEADIDFKDY----EVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAKK----LILKEFENFLHGREIA  288 (357)
T ss_dssp             HHHHHHHHHTCCCCCH----HHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH----HHHHHHHHHHTTCGGG
T ss_pred             HHHHHHHHcCCCCCcH----HHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHHH----HHHHHHHHHhhccccc
Confidence            9987542111111121    68999999999999999877643 3333332 11111100    0111122111   167


Q ss_pred             ChhHHHHHHHhcccCCCCCHHHHHH----Hhc--cc-ccHHHhHHHHhhCcceEEcCCCeEE-ecHHHHHHH
Q 045618          234 KAEEKSLFLDIACFFNGQDKDSVLK----MIG--DS-SFAHYGLNVLVDKSLVTVSRGNQLQ-MHDLLQEMG  297 (349)
Q Consensus       234 ~~~~~~~f~~la~fp~~~~~~~l~~----~~~--~~-~~~~~~l~~L~~~sLl~~~~~~~~~-mH~lv~~~a  297 (349)
                      ++..+.++..+|+  +. +...+..    ...  .. .....+++.|.+.+||... ++.|+ -|++++++.
T Consensus       289 ~~~~~~~l~~la~--g~-~~~~l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~-~~~y~f~~~~~~~~l  356 (357)
T 2fna_A          289 RKRYLNIMRTLSK--CG-KWSDVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKE-GEKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHHHHHHHHHTT--CB-CHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEES-SSCEEESSHHHHHHT
T ss_pred             cHHHHHHHHHHHc--CC-CHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEec-CCEEEecCHHHHHhh
Confidence            8888999999998  33 6666653    333  22 4567789999999999986 46777 478998874

>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=99.34  E-value=3.1e-11  Score=113.68  Aligned_cols=267  Identities=15%  Similarity=0.066  Sum_probs=142.8

Q ss_pred             CCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCH---HHHHHHHh
Q 045618           17 ATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNL---PEYVRERL   93 (349)
Q Consensus        17 ~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~---~~~l~~~L   93 (349)
                      .|+.|+|||++++..+.......-...+    ...+.++......+...+..+++..+.........+.   .+.+.+.+
T Consensus        58 ~G~~G~GKT~L~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l  133 (412)
T 1w5s_A           58 IGRVGIGKTTLAKFTVKRVSEAAAKEGL----TVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNL  133 (412)
T ss_dssp             TTCCSSSHHHHHHHHHHHHHHHHHHTTC----CEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHH
T ss_pred             cCcCCCCHHHHHHHHHHHHHHHHhccCC----ceeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHH
Confidence            7899999999998655432110000000    0011122322334667788888887732111111122   22555555


Q ss_pred             C--CCceEEEEecCCCc--------hhHHHHHcccCCC---C--CCcEEEEEeCcchhhccc---------CcccEEEcC
Q 045618           94 R--RTKVLIVLDDVNKV--------GQLEYLIGGLERF---G--PGSRIIVTTRDRRVLDNF---------GVGNIYKVN  149 (349)
Q Consensus        94 ~--~~~~LlVlDdv~~~--------~~~~~l~~~~~~~---~--~~~~IlvTTR~~~~~~~~---------~~~~~~~l~  149 (349)
                      .  +++++|||||++..        +.+..+...+...   +  ....+|+||+...+...+         .....+.++
T Consensus       134 ~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~  213 (412)
T 1w5s_A          134 YVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLP  213 (412)
T ss_dssp             HHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECC
T ss_pred             HhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeC
Confidence            4  67999999999753        3333333322111   2  445688888765532111         112239999


Q ss_pred             CCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcC------CCchHHHHHhHHhc------cC---CHHHHHHHHHHh
Q 045618          150 GLKYREALELFCNCAFKENHCPEDLLVHSKRILDYAN------GNPLAVRVLGSFLR------QK---SKLDWESALDNL  214 (349)
Q Consensus       150 ~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~------glPLAl~~~a~~l~------~~---~~~~~~~~l~~l  214 (349)
                      +++.++..++|...+........-..+.+..|++.|+      |.|..+..+.....      ..   +...+...+...
T Consensus       214 ~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~  293 (412)
T 1w5s_A          214 AYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSEN  293 (412)
T ss_dssp             CCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            9999999999976542111111112356778899999      99975554433211      11   233333333332


Q ss_pred             hcCCCCcHHHHHHHhHhcCChhHHHHHHHhcccC----CCCCHHHHHH--------Hhccc----ccHHHhHHHHhhCcc
Q 045618          215 KRISDPDIYDVLKISYNEIKAEEKSLFLDIACFF----NGQDKDSVLK--------MIGDS----SFAHYGLNVLVDKSL  278 (349)
Q Consensus       215 ~~~~~~~l~~~l~~s~~~L~~~~~~~f~~la~fp----~~~~~~~l~~--------~~~~~----~~~~~~l~~L~~~sL  278 (349)
                      ..      ...+..++..||+..+.++..++.+.    ..++...+..        .....    .....+++.|.+.+|
T Consensus       294 ~~------~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gl  367 (412)
T 1w5s_A          294 EA------ASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGL  367 (412)
T ss_dssp             ------------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTS
T ss_pred             hc------cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCC
Confidence            10      22344467789999999998888653    2255544332        22211    234577999999999


Q ss_pred             eEEcC-----CCeEEecHHH
Q 045618          279 VTVSR-----GNQLQMHDLL  293 (349)
Q Consensus       279 l~~~~-----~~~~~mH~lv  293 (349)
                      |....     .|+|++|.|.
T Consensus       368 i~~~~~~~~~~g~~~~~~l~  387 (412)
T 1w5s_A          368 VDAKPSGRGMRGRTTLFRLA  387 (412)
T ss_dssp             EEEECC-------CCEEEEC
T ss_pred             EEeecccCCCCCceeEEEeC
Confidence            98653     3446555443

>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=99.06  E-value=1.8e-08  Score=93.70  Aligned_cols=250  Identities=13%  Similarity=0.021  Sum_probs=143.4

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceee-ccccccccccCcceeehhhhc-cHHHHHHHHHHHhhcccCCC----CCCHHHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECL-SEALWKPSYLNSRAIRESRSI-MNQRVSNKFLGWLVEQEQIR----TPNLPEYV   89 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~-~~~f~~~~~~~~~~v~~~~~~-~~~~l~~~il~~l~~~~~~~----~~~~~~~l   89 (349)
                      ..|+.|+|||++|+........... ...+  + ...+..+...... +...+..+++.++.+.....    .....+.+
T Consensus        50 l~G~~G~GKT~la~~l~~~~~~~~~~~~~~--~-~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l  126 (384)
T 2qby_B           50 FLGLTGTGKTFVSKYIFNEIEEVKKEDEEY--K-DVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKI  126 (384)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHHHHHSSSS--T-TCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHHHHhhhhcCC--C-CceEEEEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHH
Confidence            4567899999999866543211000 0000  0 0011223333334 66677788888774432221    12223367


Q ss_pred             HHHhCCCceEEEEecCCCch------h-HHHHHcccCCCCCCcEEEEEeCcchhhccc------CcccEEEcCCCChHhH
Q 045618           90 RERLRRTKVLIVLDDVNKVG------Q-LEYLIGGLERFGPGSRIIVTTRDRRVLDNF------GVGNIYKVNGLKYREA  156 (349)
Q Consensus        90 ~~~L~~~~~LlVlDdv~~~~------~-~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~------~~~~~~~l~~L~~~ea  156 (349)
                      .+.+..++.+||||+++...      . +..+....    .+..+|+||+.......+      .....+.+++++.++.
T Consensus       127 ~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~  202 (384)
T 2qby_B          127 KNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQL  202 (384)
T ss_dssp             HHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHH
T ss_pred             HHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHH
Confidence            77787777799999997532      2 33333332    678899999876321111      1123899999999999


Q ss_pred             HHHHHHhhcc---CCCCChhHHHHHHHHHHHcC---CCch-HHHHHhHHh--c----cCCHHHHHHHHHHhhcCCCCcHH
Q 045618          157 LELFCNCAFK---ENHCPEDLLVHSKRILDYAN---GNPL-AVRVLGSFL--R----QKSKLDWESALDNLKRISDPDIY  223 (349)
Q Consensus       157 ~~L~~~~a~~---~~~~~~~~~~~~~~i~~~c~---glPL-Al~~~a~~l--~----~~~~~~~~~~l~~l~~~~~~~l~  223 (349)
                      .+++...+..   .....   .+....+++.++   |.|. |+..+-...  .    .-+.+.+...++...       .
T Consensus       203 ~~il~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~i~~~~v~~~~~~~~-------~  272 (384)
T 2qby_B          203 KFILSKYAEYGLIKGTYD---DEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGIIRKEHVDKAIVDYE-------Q  272 (384)
T ss_dssp             HHHHHHHHHHTSCTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSCCCHHHHHHHHHHHH-------H
T ss_pred             HHHHHHHHHhhcccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHh-------c
Confidence            9999987532   12222   244567777787   8876 444333222  1    124666666666542       2


Q ss_pred             HHHHHhHhcCChhHHHHHHHhcccCC-C-C--CHHHHHHHhccc----ccHHHhHHHHhhCcceEEc
Q 045618          224 DVLKISYNEIKAEEKSLFLDIACFFN-G-Q--DKDSVLKMIGDS----SFAHYGLNVLVDKSLVTVS  282 (349)
Q Consensus       224 ~~l~~s~~~L~~~~~~~f~~la~fp~-~-~--~~~~l~~~~~~~----~~~~~~l~~L~~~sLl~~~  282 (349)
                      ..+..++..|++..+..+..++.... + +  ....+....+..    .....+++.|.+.++++..
T Consensus       273 ~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          273 ERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             chHHHHHHcCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCEEEE
Confidence            45667788999988888877776112 1 1  111112222111    2456779999999999974

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.91  E-value=5.9e-08  Score=90.02  Aligned_cols=252  Identities=14%  Similarity=0.031  Sum_probs=133.7

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCC-CCCCHHH---HHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQI-RTPNLPE---YVRE   91 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~-~~~~~~~---~l~~   91 (349)
                      ..|+.|+|||++++......... ....      ..+..+..........+...++..+ +.... ...+..+   .+.+
T Consensus        50 i~G~~G~GKTtl~~~l~~~~~~~-~~~~------~~~~~i~~~~~~~~~~~~~~i~~~l-~~~~~~~~~~~~~~~~~l~~  121 (386)
T 2qby_A           50 IYGLTGTGKTAVVKFVLSKLHKK-FLGK------FKHVYINTRQIDTPYRVLADLLESL-DVKVPFTGLSIAELYRRLVK  121 (386)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHH-TCSS------CEEEEEEHHHHCSHHHHHHHHTTTT-SCCCCSSSCCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHHHH-hcCC------ceEEEEECCCCCCHHHHHHHHHHHh-CCCCCCCCCCHHHHHHHHHH
Confidence            45678999999998655432100 0000      0111223233334555666666554 21111 1112222   4445


Q ss_pred             HhC--CCceEEEEecCCC------chhHHHHHcccCC-CCCCcEEEEEeCcchhhcccC-------cccEEEcCCCChHh
Q 045618           92 RLR--RTKVLIVLDDVNK------VGQLEYLIGGLER-FGPGSRIIVTTRDRRVLDNFG-------VGNIYKVNGLKYRE  155 (349)
Q Consensus        92 ~L~--~~~~LlVlDdv~~------~~~~~~l~~~~~~-~~~~~~IlvTTR~~~~~~~~~-------~~~~~~l~~L~~~e  155 (349)
                      .+.  +++.+||||+++.      ...+..+...+.. ...+..+|+||+.......+.       ....+.+++++.++
T Consensus       122 ~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~  201 (386)
T 2qby_A          122 AVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEE  201 (386)
T ss_dssp             HHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHH
T ss_pred             HHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHH
Confidence            554  3489999999964      3344444333211 134667788887664322221       12479999999999


Q ss_pred             HHHHHHHhhccCCCCChhHHHHHHHHHHHcC---CCchHH-HHHhHHhc-----c---CCHHHHHHHHHHhhcCCCCcHH
Q 045618          156 ALELFCNCAFKENHCPEDLLVHSKRILDYAN---GNPLAV-RVLGSFLR-----Q---KSKLDWESALDNLKRISDPDIY  223 (349)
Q Consensus       156 a~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~---glPLAl-~~~a~~l~-----~---~~~~~~~~~l~~l~~~~~~~l~  223 (349)
                      ..+++...+........-..+....+++.++   |.|..+ .++.....     +   -+...+...++...       .
T Consensus       202 ~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~  274 (386)
T 2qby_A          202 LEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEIE-------R  274 (386)
T ss_dssp             HHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHH-------H
T ss_pred             HHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHh-------h
Confidence            9999987652111011112344566777776   998843 33322211     1   13445555544431       2


Q ss_pred             HHHHHhHhcCChhHHHHHHHhcccCC-C---CCHHHH-------HHHhccc----ccHHHhHHHHhhCcceEEc
Q 045618          224 DVLKISYNEIKAEEKSLFLDIACFFN-G---QDKDSV-------LKMIGDS----SFAHYGLNVLVDKSLVTVS  282 (349)
Q Consensus       224 ~~l~~s~~~L~~~~~~~f~~la~fp~-~---~~~~~l-------~~~~~~~----~~~~~~l~~L~~~sLl~~~  282 (349)
                      ..+..++..++...+..+..++.+.. +   +....+       .......    .....+++.|.+.++|...
T Consensus       275 ~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          275 DRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAVTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTCCCCCHHHHHHHHHHHHHHTSEEEE
T ss_pred             chHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCEEEE
Confidence            34666778899888888877774322 2   334322       2222211    2356779999999999864

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.87  E-value=1.6e-07  Score=87.22  Aligned_cols=253  Identities=13%  Similarity=0.035  Sum_probs=136.9

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH---HHHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE---YVRER   92 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~---~l~~~   92 (349)
                      ..|+.|+|||++|+..........-....    ...+..+......+...+...++..+.........+..+   .+.+.
T Consensus        49 l~G~~G~GKT~l~~~~~~~~~~~~~~~~~----~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~  124 (387)
T 2v1u_A           49 LYGLTGTGKTAVARLVLRRLEARASSLGV----LVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKR  124 (387)
T ss_dssp             ECBCTTSSHHHHHHHHHHHHHHHHHHHTC----CEEEEEEETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHHHHHhccCC----CeEEEEEECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH
Confidence            56678999999998655432110000000    001112333333456677777887773211111122222   55556


Q ss_pred             h--CCCceEEEEecCCCch----h---HHHHHcccCCC--CCCcEEEEEeCcchhhccc------Cc-ccEEEcCCCChH
Q 045618           93 L--RRTKVLIVLDDVNKVG----Q---LEYLIGGLERF--GPGSRIIVTTRDRRVLDNF------GV-GNIYKVNGLKYR  154 (349)
Q Consensus        93 L--~~~~~LlVlDdv~~~~----~---~~~l~~~~~~~--~~~~~IlvTTR~~~~~~~~------~~-~~~~~l~~L~~~  154 (349)
                      +  .+++.+||||+++...    .   +..+.......  ..+..+|.||+..+....+      .. ...+.+++++.+
T Consensus       125 l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~  204 (387)
T 2v1u_A          125 LSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAP  204 (387)
T ss_dssp             HTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHH
T ss_pred             HhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHH
Confidence            5  3468899999998542    1   22223222211  3456778888766322111      11 147899999999


Q ss_pred             hHHHHHHHhhcc---CCCCChhHHHHHHHHHHHcC---CCch-HHHHHhHHhc-----c---CCHHHHHHHHHHhhcCCC
Q 045618          155 EALELFCNCAFK---ENHCPEDLLVHSKRILDYAN---GNPL-AVRVLGSFLR-----Q---KSKLDWESALDNLKRISD  219 (349)
Q Consensus       155 ea~~L~~~~a~~---~~~~~~~~~~~~~~i~~~c~---glPL-Al~~~a~~l~-----~---~~~~~~~~~l~~l~~~~~  219 (349)
                      +..+++...+..   .....   .+....+++.++   |.|. ++.++.....     +   -+.+.+...++...    
T Consensus       205 ~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~----  277 (387)
T 2v1u_A          205 QLRDILETRAEEAFNPGVLD---PDVVPLCAALAAREHGDARRALDLLRVAGEIAERRREERVRREHVYSARAEIE----  277 (387)
T ss_dssp             HHHHHHHHHHHHHBCTTTBC---SSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHh----
Confidence            999999987532   12222   234567777787   9993 3333222211     1   13555555555432    


Q ss_pred             CcHHHHHHHhHhcCChhHHHHHHHhcccCCC---CCHHHHHHHhc-------cc----ccHHHhHHHHhhCcceEEc
Q 045618          220 PDIYDVLKISYNEIKAEEKSLFLDIACFFNG---QDKDSVLKMIG-------DS----SFAHYGLNVLVDKSLVTVS  282 (349)
Q Consensus       220 ~~l~~~l~~s~~~L~~~~~~~f~~la~fp~~---~~~~~l~~~~~-------~~----~~~~~~l~~L~~~sLl~~~  282 (349)
                         ...+..++..|++..+..+..++....+   +....+.....       ..    ..+..+++.|...|+++..
T Consensus       278 ---~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          278 ---RDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLGLEHVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             ---HHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             ---hchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCeEEE
Confidence               2345667889999888887777633223   44443333221       11    2456789999999999974

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.85  E-value=1.5e-07  Score=87.52  Aligned_cols=252  Identities=13%  Similarity=0.000  Sum_probs=138.1

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH---HHHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE---YVRER   92 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~---~l~~~   92 (349)
                      ..|+.|+|||++++..........   .+      .+..+......+...+...++..+............+   .+...
T Consensus        49 i~G~~G~GKTtl~~~l~~~~~~~~---~~------~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~  119 (389)
T 1fnn_A           49 LLGRPGTGKTVTLRKLWELYKDKT---TA------RFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEH  119 (389)
T ss_dssp             EECCTTSSHHHHHHHHHHHHTTSC---CC------EEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHhhhc---Ce------eEEEEeCccCCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHH
Confidence            567789999999986554321100   00      1111222233355667777777662211111112222   34444


Q ss_pred             hC--CCceEEEEecCCCc--hhHHHHHcccCCCC----CCcEEEEEeCcchhhcccC-------cccEEEcCCCChHhHH
Q 045618           93 LR--RTKVLIVLDDVNKV--GQLEYLIGGLERFG----PGSRIIVTTRDRRVLDNFG-------VGNIYKVNGLKYREAL  157 (349)
Q Consensus        93 L~--~~~~LlVlDdv~~~--~~~~~l~~~~~~~~----~~~~IlvTTR~~~~~~~~~-------~~~~~~l~~L~~~ea~  157 (349)
                      +.  +++.+||||+++..  .....+...+....    .+..||++|+.......+.       ....+.+++++.++..
T Consensus       120 l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~  199 (389)
T 1fnn_A          120 LRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIF  199 (389)
T ss_dssp             HHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHH
T ss_pred             HhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHH
Confidence            43  56889999999754  34455544432211    4677888887764322221       1236999999999999


Q ss_pred             HHHHHhhccCCCCChhHHHHHHHHHHHc---------CCCchHHHHHhHH-hc-----c---CCHHHHHHHHHHhhcCCC
Q 045618          158 ELFCNCAFKENHCPEDLLVHSKRILDYA---------NGNPLAVRVLGSF-LR-----Q---KSKLDWESALDNLKRISD  219 (349)
Q Consensus       158 ~L~~~~a~~~~~~~~~~~~~~~~i~~~c---------~glPLAl~~~a~~-l~-----~---~~~~~~~~~l~~l~~~~~  219 (349)
                      +++...+........-..+....+++.+         +|.|..+..+... ..     +   -+.............   
T Consensus       200 ~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~~~~---  276 (389)
T 1fnn_A          200 DILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLF---  276 (389)
T ss_dssp             HHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHSC---
T ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHhh---
Confidence            9998876321100111245677888888         7887544333222 11     1   123333333333221   


Q ss_pred             CcHHHHHHHhHhcCChhHHHHHHHhcccC---C--CCCHHHHHHHhcc-------c----ccHHHhHHHHhhCcceEEcC
Q 045618          220 PDIYDVLKISYNEIKAEEKSLFLDIACFF---N--GQDKDSVLKMIGD-------S----SFAHYGLNVLVDKSLVTVSR  283 (349)
Q Consensus       220 ~~l~~~l~~s~~~L~~~~~~~f~~la~fp---~--~~~~~~l~~~~~~-------~----~~~~~~l~~L~~~sLl~~~~  283 (349)
                      .    .+.-.+..|+.+.+.++..++.+.   .  .++...+...+..       .    .....+++.|.+.++|....
T Consensus       277 ~----~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~  352 (389)
T 1fnn_A          277 G----ISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERPRVHSQLWSYLNDLREKGIVETRQ  352 (389)
T ss_dssp             C----CCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSSEEEE
T ss_pred             h----hHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCeEEee
Confidence            1    123346778888888877777543   2  3555555444332       1    23456799999999999753

>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=98.62  E-value=1.5e-07  Score=81.10  Aligned_cols=104  Identities=13%  Similarity=0.088  Sum_probs=72.4

Q ss_pred             CCCceEEEEecCCC--chhHHHHHcccCCCCCCcEEEEEeCcchhhc-cc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNK--VGQLEYLIGGLERFGPGSRIIVTTRDRRVLD-NF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~--~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~-~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++.+||+||++.  ...+..+...+.....+..+|+||+...... .+ .....+++++++.++..+++...+.....
T Consensus       124 ~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~  203 (250)
T 1njg_A          124 RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI  203 (250)
T ss_dssp             SSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTC
T ss_pred             cCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCC
Confidence            35679999999975  4456666655544456788888887654221 11 22357999999999999999987744332


Q ss_pred             CChhHHHHHHHHHHHcCCCchHHHHHhHHh
Q 045618          170 CPEDLLVHSKRILDYANGNPLAVRVLGSFL  199 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl~~~a~~l  199 (349)
                      ..  ..+....|++.|+|.|..+..+...+
T Consensus       204 ~~--~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          204 AH--EPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             CB--CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CC--CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            21  13557789999999999887766543

>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=98.40  E-value=5.1e-06  Score=70.35  Aligned_cols=100  Identities=10%  Similarity=0.063  Sum_probs=66.0

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcchhh-ccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRRVL-DNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~~~-~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++.+||+||++..  ...+.+...+.....++.+|+||+..... ..+ .....+.+++++.++..+++...+......
T Consensus       101 ~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~  180 (226)
T 2chg_A          101 APFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVK  180 (226)
T ss_dssp             CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC
T ss_pred             cCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHHHHHHHHHHcCCC
Confidence            57889999999854  33444544443345678888888775421 111 122379999999999999998876432221


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHHh
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVLG  196 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~a  196 (349)
                      .  ..+....+++.++|.|..+..+.
T Consensus       181 ~--~~~~~~~l~~~~~g~~r~l~~~l  204 (226)
T 2chg_A          181 I--TEDGLEALIYISGGDFRKAINAL  204 (226)
T ss_dssp             B--CHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHHHH
Confidence            1  13456788899999998654443

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.25  E-value=1.1e-05  Score=72.85  Aligned_cols=101  Identities=15%  Similarity=0.177  Sum_probs=65.4

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcchh-hccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRRV-LDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .+++.++|+||++..  ...+.+...+.....++.+|+||+...- ...+ .....+++++++.++..+++...+.....
T Consensus       105 ~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~  184 (323)
T 1sxj_B          105 PGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDV  184 (323)
T ss_dssp             TTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC
T ss_pred             CCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHHHHHHHHHHHcCC
Confidence            456899999999853  3344444444333567788888876532 1221 22348999999999999999887632221


Q ss_pred             CChhHHHHHHHHHHHcCCCch-HHHHHh
Q 045618          170 CPEDLLVHSKRILDYANGNPL-AVRVLG  196 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPL-Al~~~a  196 (349)
                      ..  .++.+..|++.++|.|. |+..+.
T Consensus       185 ~~--~~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          185 KY--TNDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             CB--CHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CC--CHHHHHHHHHHcCCCHHHHHHHHH
Confidence            11  13556789999999995 444443

>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=98.18  E-value=0.00025  Score=63.92  Aligned_cols=184  Identities=13%  Similarity=0.083  Sum_probs=107.6

Q ss_pred             CceEEEEecCCCch--hHHHHHcccCCC------------------CCCcEEEEEeCcchhh-ccc--CcccEEEcCCCC
Q 045618           96 TKVLIVLDDVNKVG--QLEYLIGGLERF------------------GPGSRIIVTTRDRRVL-DNF--GVGNIYKVNGLK  152 (349)
Q Consensus        96 ~~~LlVlDdv~~~~--~~~~l~~~~~~~------------------~~~~~IlvTTR~~~~~-~~~--~~~~~~~l~~L~  152 (349)
                      +..+|+||+++...  ....+...+...                  .++..+|.||...... ..+  .....+.+++++
T Consensus        90 ~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~  169 (324)
T 1hqc_A           90 EGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYT  169 (324)
T ss_dssp             TTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEECCCCC
T ss_pred             CCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEecCCCC
Confidence            56799999998643  233333222110                  1245677666654322 111  123479999999


Q ss_pred             hHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccC---------CHHHHHHHHHHhhcCCCCcHH
Q 045618          153 YREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQK---------SKLDWESALDNLKRISDPDIY  223 (349)
Q Consensus       153 ~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~---------~~~~~~~~l~~l~~~~~~~l~  223 (349)
                      .+|..+++...+.......  ..+....+++.++|.|..+..+...+...         +.......+..+         
T Consensus       170 ~~e~~~~l~~~~~~~~~~~--~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~~~---------  238 (324)
T 1hqc_A          170 PEELAQGVMRDARLLGVRI--TEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALAAL---------  238 (324)
T ss_dssp             HHHHHHHHHHHHHTTTCCC--CHHHHHHHHHHSCSCHHHHHHHHHHHTTTSTTTSCSCCCHHHHHHHHHHH---------
T ss_pred             HHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh---------
Confidence            9999999988764332221  13557789999999998877665544221         222333333222         


Q ss_pred             HHHHHhHhcCChhHHHHHHHhc-ccCCC-CCHHHHHHHhccc-ccHHHhHHH-HhhCcceEEcCCCeEEecHHHH
Q 045618          224 DVLKISYNEIKAEEKSLFLDIA-CFFNG-QDKDSVLKMIGDS-SFAHYGLNV-LVDKSLVTVSRGNQLQMHDLLQ  294 (349)
Q Consensus       224 ~~l~~s~~~L~~~~~~~f~~la-~fp~~-~~~~~l~~~~~~~-~~~~~~l~~-L~~~sLl~~~~~~~~~mH~lv~  294 (349)
                         ..+...++...+..+..+. .+.++ +....+...++.. ......++. +++.+|+.....|+ .+-+...
T Consensus       239 ---~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~l~~~~i~~~li~~~~~g~-~~~~~~~  309 (324)
T 1hqc_A          239 ---GLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEVHEPYLIRQGLLKRTPRGR-VPTELAY  309 (324)
T ss_dssp             ---TCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHHTHHHHHHTTSEEEETTEE-EECHHHH
T ss_pred             ---cccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHhHHHHHhcchhcCCccc-eecHHHH
Confidence               1234557776777776554 34333 7788888887766 444444554 88999998775554 4444433

>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=97.86  E-value=9e-05  Score=66.80  Aligned_cols=100  Identities=16%  Similarity=0.134  Sum_probs=66.1

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcchh-hccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRRV-LDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++.++|+|+++..  ...+.+...+.....++++|+||..... ...+ .....+.+++++.++..+++...+......
T Consensus       109 ~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~~l~~~~~~~~~~  188 (327)
T 1iqp_A          109 ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE  188 (327)
T ss_dssp             CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTTCE
T ss_pred             CCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHHHHHHHHHhcCCC
Confidence            56889999999854  3455555544444567888888876542 1111 122378999999999999998876433221


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHHh
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVLG  196 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~a  196 (349)
                        -.++....|++.++|.|..+..+.
T Consensus       189 --~~~~~~~~l~~~~~g~~r~~~~~l  212 (327)
T 1iqp_A          189 --LTEEGLQAILYIAEGDMRRAINIL  212 (327)
T ss_dssp             --ECHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             --CCHHHHHHHHHHCCCCHHHHHHHH
Confidence              123556788899999998654443

>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=97.69  E-value=0.00015  Score=66.66  Aligned_cols=100  Identities=12%  Similarity=0.071  Sum_probs=65.6

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcchh-hccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRRV-LDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++.++|+|+++..  ...+.+...+.....+..+|++|....- ...+ .....+++++++.++..+++...+......
T Consensus       118 ~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~  197 (373)
T 1jr3_A          118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA  197 (373)
T ss_dssp             SSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            46789999999753  3455555555444556777777765432 2221 223579999999999999998765322211


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHHh
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVLG  196 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~a  196 (349)
                      .  ..+.+..|++.++|.|..+..+.
T Consensus       198 ~--~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          198 H--EPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             B--CHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             C--CHHHHHHHHHHCCCCHHHHHHHH
Confidence            1  13456789999999998776554

>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=97.59  E-value=0.001  Score=59.48  Aligned_cols=98  Identities=10%  Similarity=0.101  Sum_probs=65.5

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++.++|+|+++..  ...+.+...+.....++.+|+||.... +...+ .....+++++++.++..+++...+......
T Consensus       101 ~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~  180 (319)
T 2chq_A          101 APFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVK  180 (319)
T ss_dssp             CCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHHHTTCCC
T ss_pred             CCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHHHHcCCC
Confidence            56889999999854  345566666655556778888886654 22221 223479999999999999998776433222


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      .  .++....+++.++|.|..+..
T Consensus       181 i--~~~~l~~l~~~~~G~~r~~~~  202 (319)
T 2chq_A          181 I--TEDGLEALIYISGGDFRKAIN  202 (319)
T ss_dssp             B--CHHHHHHHHHTTTTCHHHHHH
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHH
Confidence            1  134567788889998875443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.50  E-value=0.0084  Score=54.19  Aligned_cols=185  Identities=13%  Similarity=0.128  Sum_probs=105.9

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCC------------------CCCcEEEEEeCcchhhc-cc--CcccEEEcCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERF------------------GPGSRIIVTTRDRRVLD-NF--GVGNIYKVNGL  151 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~------------------~~~~~IlvTTR~~~~~~-~~--~~~~~~~l~~L  151 (349)
                      .+..+|+||+++..  .....+...+...                  .++..+|.+|....... .+  .....+.++++
T Consensus       105 ~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~  184 (338)
T 3pfi_A          105 SEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEFY  184 (338)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECCCC
T ss_pred             cCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCCCc
Confidence            35678999999854  2233333322111                  11245666665543211 11  22357999999


Q ss_pred             ChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhc------cC---CHHHHHHHHHHhhcCCCCcH
Q 045618          152 KYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLR------QK---SKLDWESALDNLKRISDPDI  222 (349)
Q Consensus       152 ~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~------~~---~~~~~~~~l~~l~~~~~~~l  222 (349)
                      +.++...++...+......  -..+....|++.+.|.|-.+..+...+.      ..   +.......+..         
T Consensus       185 ~~~e~~~il~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~~---------  253 (338)
T 3pfi_A          185 KDSELALILQKAALKLNKT--CEEKAALEIAKRSRSTPRIALRLLKRVRDFADVNDEEIITEKRANEALNS---------  253 (338)
T ss_dssp             CHHHHHHHHHHHHHHTTCE--ECHHHHHHHHHTTTTCHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH---------
T ss_pred             CHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHH---------
Confidence            9999999998876433211  1235567788889999855544433221      00   12222222222         


Q ss_pred             HHHHHHhHhcCChhHHHHHHHhcccCCC-CCHHHHHHHhccc-ccHHHhHH-HHhhCcceEEcCCCeEEecHHH
Q 045618          223 YDVLKISYNEIKAEEKSLFLDIACFFNG-QDKDSVLKMIGDS-SFAHYGLN-VLVDKSLVTVSRGNQLQMHDLL  293 (349)
Q Consensus       223 ~~~l~~s~~~L~~~~~~~f~~la~fp~~-~~~~~l~~~~~~~-~~~~~~l~-~L~~~sLl~~~~~~~~~mH~lv  293 (349)
                         +..+...+....+..+..++-..++ +....+...++.. ......++ .|++.++|.....|+.....-+
T Consensus       254 ---~~~~~~~l~~~e~~~l~~l~~~~~~~~~~~~~a~~lg~~~~tl~~~l~~~l~~~gli~~~~~g~~~t~~~~  324 (338)
T 3pfi_A          254 ---LGVNELGFDAMDLRYLELLTAAKQKPIGLASIAAALSEDENTIEDVIEPYLLANGYIERTAKGRIASAKSY  324 (338)
T ss_dssp             ---HTCCTTCCCHHHHHHHHHHHHSCSCCBCHHHHHHHTTCCHHHHHHTTHHHHHHTTSEEEETTEEEECHHHH
T ss_pred             ---hCCcccCCCHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHhHHHHHcCceecCCCcccccHHHH
Confidence               1223334555556666555544333 7788888888776 56666677 8999999998867765544433

>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=97.30  E-value=0.00062  Score=64.43  Aligned_cols=104  Identities=14%  Similarity=0.149  Sum_probs=60.9

Q ss_pred             HHHHhCCCceEEEEecCCCch----hHHHHHcccCC-CCCCcEEEEEeCcchh---------hcccCcccEEEcCCCChH
Q 045618           89 VRERLRRTKVLIVLDDVNKVG----QLEYLIGGLER-FGPGSRIIVTTRDRRV---------LDNFGVGNIYKVNGLKYR  154 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~~----~~~~l~~~~~~-~~~~~~IlvTTR~~~~---------~~~~~~~~~~~l~~L~~~  154 (349)
                      +...+..+..+|+||+++...    ..+.+...+.. ...+..||+||.+..-         ...+.....+.+++++.+
T Consensus       187 ~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e  266 (440)
T 2z4s_A          187 FREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEE  266 (440)
T ss_dssp             HHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHH
T ss_pred             HHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHH
Confidence            445555467899999996432    22333322210 1346788888876421         111222346889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHH
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      +-..++.+.+.......+  .+....|++.++|.+-.+.-
T Consensus       267 ~r~~iL~~~~~~~~~~i~--~e~l~~la~~~~gn~R~l~~  304 (440)
T 2z4s_A          267 TRKSIARKMLEIEHGELP--EEVLNFVAENVDDNLRRLRG  304 (440)
T ss_dssp             HHHHHHHHHHHHHTCCCC--TTHHHHHHHHCCSCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCC--HHHHHHHHHhcCCCHHHHHH
Confidence            999999887632221111  13356778888888765443

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

Probab=97.21  E-value=0.0034  Score=55.06  Aligned_cols=119  Identities=18%  Similarity=0.188  Sum_probs=62.7

Q ss_pred             HhCCCceEEEEecCCCc-----------h-hHHHHHcccC---CCCCCcEEEEEeCcchhhcc--c--CcccEEEcCCCC
Q 045618           92 RLRRTKVLIVLDDVNKV-----------G-QLEYLIGGLE---RFGPGSRIIVTTRDRRVLDN--F--GVGNIYKVNGLK  152 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~-----------~-~~~~l~~~~~---~~~~~~~IlvTTR~~~~~~~--~--~~~~~~~l~~L~  152 (349)
                      ....+..+|+||+++..           . ..+.+...+.   .......||.||........  +  .....+.+++++
T Consensus       120 ~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~  199 (272)
T 1d2n_A          120 AYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIA  199 (272)
T ss_dssp             HHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEE
T ss_pred             HHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCcc
Confidence            34467889999998642           1 1233333222   12334456777776643322  1  124578999998


Q ss_pred             h-HhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC------chHHHHHhHHhccCCHHHHHHHHHHhhcC
Q 045618          153 Y-REALELFCNCAFKENHCPEDLLVHSKRILDYANGN------PLAVRVLGSFLRQKSKLDWESALDNLKRI  217 (349)
Q Consensus       153 ~-~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl------PLAl~~~a~~l~~~~~~~~~~~l~~l~~~  217 (349)
                      . ++-..++....   .. .   .+....+++.+.|.      +-++..+-......+...+..+++.+...
T Consensus       200 ~r~~i~~i~~~~~---~~-~---~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          200 TGEQLLEALELLG---NF-K---DKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREE  264 (272)
T ss_dssp             EHHHHHHHHHHHT---CS-C---HHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGGGHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcC---CC-C---HHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchHHHHHHHHHHHHHc
Confidence            8 55555554421   11 1   34466788888873      33333333322223345566666655444

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.15  E-value=0.00063  Score=58.11  Aligned_cols=98  Identities=16%  Similarity=0.118  Sum_probs=56.4

Q ss_pred             CceEEEEecCCCch--h--HHHHHcccCCC-CCC-cEEEEEeCcchh-h----cc----cCcccEEEcCCCChHhHHHHH
Q 045618           96 TKVLIVLDDVNKVG--Q--LEYLIGGLERF-GPG-SRIIVTTRDRRV-L----DN----FGVGNIYKVNGLKYREALELF  160 (349)
Q Consensus        96 ~~~LlVlDdv~~~~--~--~~~l~~~~~~~-~~~-~~IlvTTR~~~~-~----~~----~~~~~~~~l~~L~~~ea~~L~  160 (349)
                      +..+||+||++...  .  .+.+...+... ..+ .++|+||+...- .    ..    +.....+++++++.++..+++
T Consensus       104 ~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l  183 (242)
T 3bos_A          104 QFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAAL  183 (242)
T ss_dssp             GSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHH
T ss_pred             CCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHH
Confidence            46789999997431  1  22232221100 112 247777764321 1    11    111257999999999999999


Q ss_pred             HHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHH
Q 045618          161 CNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVL  195 (349)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~  195 (349)
                      ...+.......  ..+....+++.++|.+-.+..+
T Consensus       184 ~~~~~~~~~~~--~~~~~~~l~~~~~g~~r~l~~~  216 (242)
T 3bos_A          184 QRRAAMRGLQL--PEDVGRFLLNRMARDLRTLFDV  216 (242)
T ss_dssp             HHHHHHTTCCC--CHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHcCCCC--CHHHHHHHHHHccCCHHHHHHH
Confidence            88764322211  1355678888888887665444

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

Probab=97.04  E-value=0.016  Score=50.05  Aligned_cols=96  Identities=15%  Similarity=0.189  Sum_probs=53.6

Q ss_pred             CCCceEEEEecCCCc-----------------hhHHHHHcccCC--CCCCcEEEEEeCcchhhc-cc----CcccEEEcC
Q 045618           94 RRTKVLIVLDDVNKV-----------------GQLEYLIGGLER--FGPGSRIIVTTRDRRVLD-NF----GVGNIYKVN  149 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~-----------------~~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~-~~----~~~~~~~l~  149 (349)
                      .....+|+||+++..                 ..+..++..+..  ...+..||.||....... .+    .....+.++
T Consensus        96 ~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~  175 (262)
T 2qz4_A           96 ARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFID  175 (262)
T ss_dssp             HTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECC
T ss_pred             hcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeC
Confidence            345789999999753                 112333332221  123556666776544221 11    123578899


Q ss_pred             CCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCch
Q 045618          150 GLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       150 ~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPL  190 (349)
                      +++.++-.+++...+....... ........+++.+.|.+-
T Consensus       176 ~p~~~~r~~il~~~~~~~~~~~-~~~~~~~~l~~~~~g~~~  215 (262)
T 2qz4_A          176 LPTLQERREIFEQHLKSLKLTQ-SSTFYSQRLAELTPGFSG  215 (262)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCCB-THHHHHHHHHHTCTTCCH
T ss_pred             CcCHHHHHHHHHHHHHhCCCCc-chhhHHHHHHHHCCCCCH
Confidence            9999999999988764333222 122234677777887754

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

Probab=96.98  E-value=0.0068  Score=53.35  Aligned_cols=98  Identities=18%  Similarity=0.278  Sum_probs=55.4

Q ss_pred             CCCceEEEEecCCCc----------------hhHHHHHcccC--CCCCCcEEEEEeCcchhhcc-c----CcccEEEcCC
Q 045618           94 RRTKVLIVLDDVNKV----------------GQLEYLIGGLE--RFGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNG  150 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~----------------~~~~~l~~~~~--~~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~  150 (349)
                      .....+|+||+++..                ..+..++..+.  ....+..||.||........ +    .....+.+++
T Consensus       108 ~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~  187 (285)
T 3h4m_A          108 EKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPA  187 (285)
T ss_dssp             HTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCC
T ss_pred             HcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECC
Confidence            345689999999642                12223322221  11345677777765543221 1    2234789999


Q ss_pred             CChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC-chHHHH
Q 045618          151 LKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGN-PLAVRV  194 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl-PLAl~~  194 (349)
                      ++.++..+++...+........   .....+++.+.|. |-.|..
T Consensus       188 p~~~~r~~il~~~~~~~~~~~~---~~~~~l~~~~~g~~~~~i~~  229 (285)
T 3h4m_A          188 PDEKGRLEILKIHTRKMNLAED---VNLEEIAKMTEGCVGAELKA  229 (285)
T ss_dssp             CCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHHCTTCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcCCCCCc---CCHHHHHHHcCCCCHHHHHH
Confidence            9999999999887643322111   1135677777764 434433

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.96  E-value=0.013  Score=56.55  Aligned_cols=100  Identities=13%  Similarity=0.153  Sum_probs=56.5

Q ss_pred             CCCceEEEEecCCCc-----hhHHHHHcccCCCCCCcEEEEEeCcch---hhcccCcccEEEcCCCChHhHHHHHHHhhc
Q 045618           94 RRTKVLIVLDDVNKV-----GQLEYLIGGLERFGPGSRIIVTTRDRR---VLDNFGVGNIYKVNGLKYREALELFCNCAF  165 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~-----~~~~~l~~~~~~~~~~~~IlvTTR~~~---~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~  165 (349)
                      .+++.+|++|+++..     ..+..+...+..  .+..||+++....   +.........+.+++++.++..+.+...+.
T Consensus       146 ~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~  223 (516)
T 1sxj_A          146 NGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAI  223 (516)
T ss_dssp             STTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHH
Confidence            357889999999743     112333322221  2333555554322   211112345799999999999998887664


Q ss_pred             cCCCCChhHHHHHHHHHHHcCC-CchHHHHHhH
Q 045618          166 KENHCPEDLLVHSKRILDYANG-NPLAVRVLGS  197 (349)
Q Consensus       166 ~~~~~~~~~~~~~~~i~~~c~g-lPLAl~~~a~  197 (349)
                      .......  .+....|++.++| ++-++..+..
T Consensus       224 ~~~~~i~--~~~l~~la~~s~GdiR~~i~~L~~  254 (516)
T 1sxj_A          224 REKFKLD--PNVIDRLIQTTRGDIRQVINLLST  254 (516)
T ss_dssp             HHTCCCC--TTHHHHHHHHTTTCHHHHHHHHTH
T ss_pred             HcCCCCC--HHHHHHHHHHcCCcHHHHHHHHHH
Confidence            3221111  1346678888988 4555555543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.81  E-value=0.0084  Score=54.52  Aligned_cols=101  Identities=14%  Similarity=0.168  Sum_probs=61.2

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .++.-++|||++...  ...+.+...+.....++.+|++|.+.. +...+ .-...+++++++.++....+...+.....
T Consensus       132 ~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~  211 (354)
T 1sxj_E          132 AHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI  211 (354)
T ss_dssp             --CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC
T ss_pred             CCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCC
Confidence            346779999999864  223444443333345677888876643 22222 22357999999999999999877633221


Q ss_pred             CChhHHHHHHHHHHHcCCCchHHHHH
Q 045618          170 CPEDLLVHSKRILDYANGNPLAVRVL  195 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPLAl~~~  195 (349)
                      ..+ .++.+..|++.++|.+-.+..+
T Consensus       212 ~~~-~~~~l~~i~~~~~G~~r~a~~~  236 (354)
T 1sxj_E          212 QLE-TKDILKRIAQASNGNLRVSLLM  236 (354)
T ss_dssp             EEC-CSHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCC-cHHHHHHHHHHcCCCHHHHHHH
Confidence            111 0244667888888887654433

>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=96.79  E-value=0.015  Score=52.64  Aligned_cols=94  Identities=14%  Similarity=0.108  Sum_probs=63.8

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  +..+.|+..+.....++.+|++|.++. +...+ .-...+++++++.++..+.+....   .. 
T Consensus       107 ~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~---~~-  182 (334)
T 1a5t_A          107 GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV---TM-  182 (334)
T ss_dssp             SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC---CC-
T ss_pred             CCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc---CC-
Confidence            56788999999854  345566665555456777777776653 33332 234579999999999999888775   11 


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRVL  195 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~~  195 (349)
                      .   .+.+..+++.++|.|..+..+
T Consensus       183 ~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          183 S---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             C---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             C---HHHHHHHHHHcCCCHHHHHHH
Confidence            1   244577889999999755443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.62  E-value=0.038  Score=49.61  Aligned_cols=143  Identities=10%  Similarity=0.041  Sum_probs=73.6

Q ss_pred             cCCCCCchhhHHHHHHhhhhc-ceeeccccccccccCcceeehh--hhccHHHHHHHHHHHhhcccCCCCCCHH--HHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCS-TECLSEALWKPSYLNSRAIRES--RSIMNQRVSNKFLGWLVEQEQIRTPNLP--EYVR   90 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~-w~~~~~~f~~~~~~~~~~v~~~--~~~~~~~l~~~il~~l~~~~~~~~~~~~--~~l~   90 (349)
                      .+|+-|.|||++++.+..... +....      ....+.++.+.  .-.+...+...|+.++.|..........  +.+.
T Consensus        50 i~GpPGTGKT~~v~~v~~~L~~~~~~~------~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f  123 (318)
T 3te6_A           50 ITNADDSTKFQLVNDVMDELITSSARK------ELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFYI  123 (318)
T ss_dssp             EECCCSHHHHHHHHHHHHHHHHTTTTT------SSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHHHHhhhc------cCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHH
Confidence            456679999999997664321 10000      00012333333  2235667788888888654322222222  1333


Q ss_pred             HHh---CCCceEEEEecCCCc---hhHHHHHcccCCCCCCcEEEEEeCcchhhc-cc------Cc-ccEEEcCCCChHhH
Q 045618           91 ERL---RRTKVLIVLDDVNKV---GQLEYLIGGLERFGPGSRIIVTTRDRRVLD-NF------GV-GNIYKVNGLKYREA  156 (349)
Q Consensus        91 ~~L---~~~~~LlVlDdv~~~---~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~-~~------~~-~~~~~l~~L~~~ea  156 (349)
                      ..+   .++.++++||.++..   +.+..+............||.++...+... .+      .. ...+.++|++.+|-
T Consensus       124 ~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el  203 (318)
T 3te6_A          124 TNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNEL  203 (318)
T ss_dssp             HHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHHH
T ss_pred             HHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhhcchhhhccCCceEEEeCCCCHHHH
Confidence            333   457899999999864   223333221101112233444443332211 11      11 24689999999999


Q ss_pred             HHHHHHhh
Q 045618          157 LELFCNCA  164 (349)
Q Consensus       157 ~~L~~~~a  164 (349)
                      .+++..++
T Consensus       204 ~~Il~~Rl  211 (318)
T 3te6_A          204 QQMIITRL  211 (318)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998876

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

Probab=96.61  E-value=0.045  Score=51.60  Aligned_cols=102  Identities=9%  Similarity=0.059  Sum_probs=59.9

Q ss_pred             HhCCCceEEEEecCCCc-------------hhHHHHHcccCC---CCCCcEEEEEeCcchhhcc-c--CcccEEEcCCCC
Q 045618           92 RLRRTKVLIVLDDVNKV-------------GQLEYLIGGLER---FGPGSRIIVTTRDRRVLDN-F--GVGNIYKVNGLK  152 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~---~~~~~~IlvTTR~~~~~~~-~--~~~~~~~l~~L~  152 (349)
                      .-.....+|+||+++..             .....++..+..   ...+..||.||..+..... +  .....+.++..+
T Consensus       223 a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~  302 (444)
T 2zan_A          223 ARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPE  302 (444)
T ss_dssp             HHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCC
T ss_pred             HHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHHHhhcceEEEeCCcC
Confidence            33457789999999853             123445444432   2345666767765532211 1  234578889899


Q ss_pred             hHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC-chHHHHH
Q 045618          153 YREALELFCNCAFKENHCPEDLLVHSKRILDYANGN-PLAVRVL  195 (349)
Q Consensus       153 ~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl-PLAl~~~  195 (349)
                      .++-..+|...+.......  .......|++.+.|. +-.|..+
T Consensus       303 ~~~r~~il~~~l~~~~~~l--~~~~l~~la~~t~G~sgadl~~l  344 (444)
T 2zan_A          303 AHARAAMFRLHLGSTQNSL--TEADFQELGRKTDGYSGADISII  344 (444)
T ss_dssp             HHHHHHHHHHHHTTSCEEC--CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHcCCCCHHHHHHH
Confidence            9999999988763322111  124456788888885 4344433

>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=96.61  E-value=0.017  Score=51.94  Aligned_cols=99  Identities=11%  Similarity=0.039  Sum_probs=57.3

Q ss_pred             CCceEEEEecCCCch-------------hHHHHHccc---CCCCCCcEEEEEeCcchhhcc-c--CcccEEEcCCCChHh
Q 045618           95 RTKVLIVLDDVNKVG-------------QLEYLIGGL---ERFGPGSRIIVTTRDRRVLDN-F--GVGNIYKVNGLKYRE  155 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~-------------~~~~l~~~~---~~~~~~~~IlvTTR~~~~~~~-~--~~~~~~~l~~L~~~e  155 (349)
                      .+..+|+||+++...             ....++..+   .....+..||.||..+..... +  .....+.++..+.++
T Consensus       109 ~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~  188 (322)
T 3eie_A          109 NKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAA  188 (322)
T ss_dssp             TSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHH
T ss_pred             cCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHH
Confidence            466899999997431             123333222   222445666667766543221 1  234568899999999


Q ss_pred             HHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC-chHHHHH
Q 045618          156 ALELFCNCAFKENHCPEDLLVHSKRILDYANGN-PLAVRVL  195 (349)
Q Consensus       156 a~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl-PLAl~~~  195 (349)
                      -.+++...+........  ......|++.+.|. +-.|..+
T Consensus       189 r~~il~~~~~~~~~~~~--~~~l~~la~~t~g~sg~di~~l  227 (322)
T 3eie_A          189 RTTMFEINVGDTPCVLT--KEDYRTLGAMTEGYSGSDIAVV  227 (322)
T ss_dssp             HHHHHHHHHTTCCCCCC--HHHHHHHHHTTTTCCHHHHHHH
T ss_pred             HHHHHHHHhccCCCCCC--HHHHHHHHHHcCCCCHHHHHHH
Confidence            99999988743322211  23456788888774 4344433

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.60  E-value=0.017  Score=54.52  Aligned_cols=99  Identities=13%  Similarity=0.192  Sum_probs=56.3

Q ss_pred             CCCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEE-EeCcch--hhccc-CcccEEEcCCCChHhHHHHHHHhhccC
Q 045618           94 RRTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIV-TTRDRR--VLDNF-GVGNIYKVNGLKYREALELFCNCAFKE  167 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~Ilv-TTR~~~--~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~  167 (349)
                      .+++.+|++|+++...  ..+.|++.+.. + ...+|. ||.++.  +...+ .-...+.+++++.++-..++.+.+...
T Consensus       104 ~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~-~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~il~~~l~~~  181 (447)
T 3pvs_A          104 AGRRTILFVDEVHRFNKSQQDAFLPHIED-G-TITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAMEDK  181 (447)
T ss_dssp             TTCCEEEEEETTTCC------CCHHHHHT-T-SCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHHHHHHHHHCT
T ss_pred             cCCCcEEEEeChhhhCHHHHHHHHHHHhc-C-ceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHHHHHHHHHHH
Confidence            4678899999998542  33444444432 2 233443 444442  11111 223478899999999999998876431


Q ss_pred             C-----CCChhHHHHHHHHHHHcCCCchHHHH
Q 045618          168 N-----HCPEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       168 ~-----~~~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      .     ....-..+....|++.++|.+-.+..
T Consensus       182 ~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln  213 (447)
T 3pvs_A          182 TRGYGGQDIVLPDETRRAIAELVNGDARRALN  213 (447)
T ss_dssp             TTSSTTSSEECCHHHHHHHHHHHCSCHHHHHH
T ss_pred             hhhhccccCcCCHHHHHHHHHHCCCCHHHHHH
Confidence            1     11111245567788888887765443

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

Probab=96.59  E-value=0.027  Score=50.68  Aligned_cols=101  Identities=9%  Similarity=0.060  Sum_probs=57.9

Q ss_pred             CCCceEEEEecCCCc-------------hhHHHHHcccC---CCCCCcEEEEEeCcchhhcc-c--CcccEEEcCCCChH
Q 045618           94 RRTKVLIVLDDVNKV-------------GQLEYLIGGLE---RFGPGSRIIVTTRDRRVLDN-F--GVGNIYKVNGLKYR  154 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~-------------~~~~~l~~~~~---~~~~~~~IlvTTR~~~~~~~-~--~~~~~~~l~~L~~~  154 (349)
                      ..+..+|+||+++..             .....++..+.   ....+..||.||..+..... +  .....+.++..+.+
T Consensus       103 ~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~  182 (322)
T 1xwi_A          103 ENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPH  182 (322)
T ss_dssp             HTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHH
T ss_pred             hcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHH
Confidence            356789999999753             11223332221   12345556666655432211 1  23457889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc-hHHHHHh
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGNP-LAVRVLG  196 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP-LAl~~~a  196 (349)
                      +-.+++...........  .......|++.+.|.. -.|..+.
T Consensus       183 ~r~~il~~~l~~~~~~l--~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          183 ARAAMFKLHLGTTQNSL--TEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             HHHHHHHHHHTTCCBCC--CHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCC--CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            99999988763322211  1344678888888874 3344433

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.58  E-value=0.021  Score=51.74  Aligned_cols=98  Identities=16%  Similarity=0.158  Sum_probs=61.1

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-+|++|+++..  .....+...+......+++|++|.... +...+ .-...+.+++++.++....+...+......
T Consensus       132 ~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~  211 (353)
T 1sxj_D          132 PPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFISEQENVK  211 (353)
T ss_dssp             CSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHHHHHHHHHHHHHTTTCC
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEEeCCCCHHHHHHHHHHHHHHhCCC
Confidence            35579999999753  334444444433345667777775543 22221 112378999999999999998876332221


Q ss_pred             ChhHHHHHHHHHHHcCCCchHHHH
Q 045618          171 PEDLLVHSKRILDYANGNPLAVRV  194 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLAl~~  194 (349)
                      .  .++....|++.++|.|..+..
T Consensus       212 i--~~~~l~~l~~~~~G~~r~~~~  233 (353)
T 1sxj_D          212 C--DDGVLERILDISAGDLRRGIT  233 (353)
T ss_dssp             C--CHHHHHHHHHHTSSCHHHHHH
T ss_pred             C--CHHHHHHHHHHcCCCHHHHHH
Confidence            1  135677899999999876443

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

Probab=96.52  E-value=0.013  Score=52.04  Aligned_cols=70  Identities=13%  Similarity=0.133  Sum_probs=45.6

Q ss_pred             CceEEEEecCC-----------CchhHHHHHcccCCCCCCcEEEEEeCcchhh------ccc--CcccEEEcCCCChHhH
Q 045618           96 TKVLIVLDDVN-----------KVGQLEYLIGGLERFGPGSRIIVTTRDRRVL------DNF--GVGNIYKVNGLKYREA  156 (349)
Q Consensus        96 ~~~LlVlDdv~-----------~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~------~~~--~~~~~~~l~~L~~~ea  156 (349)
                      +..+|+||+++           .......|...+.....+..||.||......      ..+  .....+.+++++.++-
T Consensus       130 ~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~  209 (309)
T 3syl_A          130 MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEEL  209 (309)
T ss_dssp             TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHH
T ss_pred             CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHH
Confidence            34699999998           3334455555554445567888888653211      111  1235799999999999


Q ss_pred             HHHHHHhhc
Q 045618          157 LELFCNCAF  165 (349)
Q Consensus       157 ~~L~~~~a~  165 (349)
                      ..++...+.
T Consensus       210 ~~il~~~l~  218 (309)
T 3syl_A          210 FEIAGHMLD  218 (309)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987763

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=96.51  E-value=0.022  Score=51.11  Aligned_cols=95  Identities=13%  Similarity=0.167  Sum_probs=52.4

Q ss_pred             CCceEEEEecCCCch---hHHHHHcccCCCCCCcEEEEEeCcchh-hccc-CcccEEEcCCCChHhHHHHHH-------H
Q 045618           95 RTKVLIVLDDVNKVG---QLEYLIGGLERFGPGSRIIVTTRDRRV-LDNF-GVGNIYKVNGLKYREALELFC-------N  162 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~---~~~~l~~~~~~~~~~~~IlvTTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~~-------~  162 (349)
                      +++.++++|+++...   ..+.|...+.....++.+|+||....- ...+ .-...+++++++.++-.+++.       .
T Consensus       104 ~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~l~~  183 (324)
T 3u61_B          104 GRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRRLTE  183 (324)
T ss_dssp             SCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEEECCCCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHHHH
Confidence            478899999999654   344444433322356778888876542 1111 112479999999887443332       2


Q ss_pred             hhccCCCCChhHHHHHHHHHHHcCCCch
Q 045618          163 CAFKENHCPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~i~~~c~glPL  190 (349)
                      .+......... .+....|++.++|.+-
T Consensus       184 ~~~~~~~~~~~-~~~~~~l~~~~~gd~R  210 (324)
T 3u61_B          184 ICKHEGIAIAD-MKVVAALVKKNFPDFR  210 (324)
T ss_dssp             HHHHHTCCBSC-HHHHHHHHHHTCSCTT
T ss_pred             HHHHcCCCCCc-HHHHHHHHHhCCCCHH
Confidence            22111111111 2445667777777655

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.48  E-value=0.0022  Score=52.33  Aligned_cols=65  Identities=9%  Similarity=0.061  Sum_probs=36.0

Q ss_pred             CCCceEEEEecCCCch---------h-HHHHHcccCCCCCCcEEEEEeCcchhh------ccc-CcccEEEcCCCChHhH
Q 045618           94 RRTKVLIVLDDVNKVG---------Q-LEYLIGGLERFGPGSRIIVTTRDRRVL------DNF-GVGNIYKVNGLKYREA  156 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~---------~-~~~l~~~~~~~~~~~~IlvTTR~~~~~------~~~-~~~~~~~l~~L~~~ea  156 (349)
                      .++..+|||||++...         . ...+.....  ..+..+|.||......      ..+ .--..+.+++++.++.
T Consensus       113 ~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~--~~~~~~i~~~~~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~~  190 (195)
T 1jbk_A          113 QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDT  190 (195)
T ss_dssp             STTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEECHHHHHHHTTTCHHHHTTEEEEECCCCCHHHH
T ss_pred             cCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhc--cCCeEEEEeCCHHHHHHHHhcCHHHHHHhceeecCCCCHHHH
Confidence            3567899999997531         1 222222221  2345577777655421      111 1122588899988887


Q ss_pred             HHHH
Q 045618          157 LELF  160 (349)
Q Consensus       157 ~~L~  160 (349)
                      .+++
T Consensus       191 ~~il  194 (195)
T 1jbk_A          191 IAIL  194 (195)
T ss_dssp             HTTC
T ss_pred             HHHh
Confidence            6543

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=96.47  E-value=0.042  Score=49.29  Aligned_cols=91  Identities=13%  Similarity=0.105  Sum_probs=51.8

Q ss_pred             CceEEEEecCCCch---h-HHHHHcccCC-CCCCcEEEEEeCcchh---------hcccCcccEEEcCCCChHhHHHHHH
Q 045618           96 TKVLIVLDDVNKVG---Q-LEYLIGGLER-FGPGSRIIVTTRDRRV---------LDNFGVGNIYKVNGLKYREALELFC  161 (349)
Q Consensus        96 ~~~LlVlDdv~~~~---~-~~~l~~~~~~-~~~~~~IlvTTR~~~~---------~~~~~~~~~~~l~~L~~~ea~~L~~  161 (349)
                      +..+|++|+++...   . .+.+...+.. ...+..||+||.+...         ...+.....+++++ +.++-..++.
T Consensus        98 ~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~  176 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIK  176 (324)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHH
T ss_pred             CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHH
Confidence            36799999997532   1 2222222110 1245678888865421         11112225689999 9999999998


Q ss_pred             HhhccCCCCChhHHHHHHHHHHHcCCCch
Q 045618          162 NCAFKENHCPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~i~~~c~glPL  190 (349)
                      ..+.......+  .+....|++.+ |.+-
T Consensus       177 ~~~~~~~~~l~--~~~l~~l~~~~-g~~r  202 (324)
T 1l8q_A          177 EKLKEFNLELR--KEVIDYLLENT-KNVR  202 (324)
T ss_dssp             HHHHHTTCCCC--HHHHHHHHHHC-SSHH
T ss_pred             HHHHhcCCCCC--HHHHHHHHHhC-CCHH
Confidence            87743322211  34456777777 6553

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

Probab=96.38  E-value=0.045  Score=49.99  Aligned_cols=101  Identities=11%  Similarity=0.029  Sum_probs=57.6

Q ss_pred             CCCceEEEEecCCCch-------------hHHHHHccc---CCCCCCcEEEEEeCcchhhc-cc--CcccEEEcCCCChH
Q 045618           94 RRTKVLIVLDDVNKVG-------------QLEYLIGGL---ERFGPGSRIIVTTRDRRVLD-NF--GVGNIYKVNGLKYR  154 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~-------------~~~~l~~~~---~~~~~~~~IlvTTR~~~~~~-~~--~~~~~~~l~~L~~~  154 (349)
                      ..+..+|+||+++...             ....++..+   .....+..||.||..+.... .+  .....+.++..+.+
T Consensus       141 ~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~  220 (355)
T 2qp9_X          141 ENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLA  220 (355)
T ss_dssp             HTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHH
T ss_pred             HcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHH
Confidence            3567899999997432             123333222   11234556666776553211 11  23457889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC-chHHHHHh
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGN-PLAVRVLG  196 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl-PLAl~~~a  196 (349)
                      +-.+++...+........  ......|++.+.|. |-.|..+.
T Consensus       221 ~r~~il~~~l~~~~~~~~--~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          221 ARTTMFEINVGDTPSVLT--KEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             HHHHHHHHHHTTSCBCCC--HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCCCCC--HHHHHHHHHHcCCCCHHHHHHHH
Confidence            999999887743321111  34466788888884 43444433

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.24  E-value=0.62  Score=41.82  Aligned_cols=136  Identities=10%  Similarity=0.076  Sum_probs=80.0

Q ss_pred             EEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhc------cC---CHHHHHHHHHHhh
Q 045618          145 IYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLR------QK---SKLDWESALDNLK  215 (349)
Q Consensus       145 ~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~------~~---~~~~~~~~l~~l~  215 (349)
                      .+.+++.+.++-.+++.+.+......  -..+.+..|++.+.|.|-.+..+-..+.      +.   +.+...++++.+.
T Consensus       174 ~~~Ld~~~~~~l~~iL~~~~~~~~~~--~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~~~~~It~~~v~~al~~~~  251 (334)
T 1in4_A          174 ILELDFYTVKELKEIIKRAASLMDVE--IEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTMEVLN  251 (334)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHHT
T ss_pred             eeeCCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHhC
Confidence            58899999999999998876332222  2245678899999999965433322211      11   2233333333321


Q ss_pred             cCCCCcHHHHHHHhHhcCChhHHHHHHHhc-ccCCC-CCHHHHHHHhccc-ccHHHhHH-HHhhCcceEEcCCCeEEecH
Q 045618          216 RISDPDIYDVLKISYNEIKAEEKSLFLDIA-CFFNG-QDKDSVLKMIGDS-SFAHYGLN-VLVDKSLVTVSRGNQLQMHD  291 (349)
Q Consensus       216 ~~~~~~l~~~l~~s~~~L~~~~~~~f~~la-~fp~~-~~~~~l~~~~~~~-~~~~~~l~-~L~~~sLl~~~~~~~~~mH~  291 (349)
                      .            .-..++...+..+..++ .|.++ ...+.+......+ ...+...+ .|...+|++....|++....
T Consensus       252 ~------------~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~t~~~~~~~~l~~~g~i~~~~~gr~~~~~  319 (334)
T 1in4_A          252 I------------DDEGLDEFDRKILKTIIEIYRGGPVGLNALAASLGVEADTLSEVYEPYLLQAGFLARTPRGRIVTEK  319 (334)
T ss_dssp             C------------CTTCCCHHHHHHHHHHHHHSTTCCBCHHHHHHHHTSCHHHHHHHTHHHHHHTTSEEEETTEEEECHH
T ss_pred             C------------CcCCCCHHHHHHHHHHHHHhCCCcchHHHHHHHhCCCcchHHHHHHHHHHHcCCeecccccHHhhHH
Confidence            1            11245555445544333 34333 7777777777665 44444444 89999999999888876554


Q ss_pred             HHH
Q 045618          292 LLQ  294 (349)
Q Consensus       292 lv~  294 (349)
                      -.+
T Consensus       320 ~~~  322 (334)
T 1in4_A          320 AYK  322 (334)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=96.24  E-value=0.077  Score=48.40  Aligned_cols=100  Identities=11%  Similarity=0.089  Sum_probs=55.8

Q ss_pred             CCceEEEEecCCCc-------------hhHHHHHcccC----CCCCCcEEEEEeCcchhhc-cc--CcccEEEcCCCChH
Q 045618           95 RTKVLIVLDDVNKV-------------GQLEYLIGGLE----RFGPGSRIIVTTRDRRVLD-NF--GVGNIYKVNGLKYR  154 (349)
Q Consensus        95 ~~~~LlVlDdv~~~-------------~~~~~l~~~~~----~~~~~~~IlvTTR~~~~~~-~~--~~~~~~~l~~L~~~  154 (349)
                      .+..+|+||+++..             .....++..+.    ....+..||.||....... .+  .....+.++..+.+
T Consensus       175 ~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~  254 (357)
T 3d8b_A          175 QQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEAS  254 (357)
T ss_dssp             TCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHH
T ss_pred             cCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHH
Confidence            46789999999532             11223332221    1123455666675543211 11  23346889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC-chHHHHHh
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGN-PLAVRVLG  196 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl-PLAl~~~a  196 (349)
                      +..+++...+.......  .......|++.+.|. |-.|..+.
T Consensus       255 ~r~~il~~~~~~~~~~l--~~~~l~~la~~t~G~s~~dl~~l~  295 (357)
T 3d8b_A          255 ARKQIVINLMSKEQCCL--SEEEIEQIVQQSDAFSGADMTQLC  295 (357)
T ss_dssp             HHHHHHHHHHHTSCBCC--CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCCc--cHHHHHHHHHHcCCCCHHHHHHHH
Confidence            99998887763322111  134567788888884 44555443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.22  E-value=0.036  Score=50.53  Aligned_cols=94  Identities=10%  Similarity=-0.011  Sum_probs=53.4

Q ss_pred             ceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCc------------c-hhhccc-CcccEEEcCCCChHhHHHHH
Q 045618           97 KVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRD------------R-RVLDNF-GVGNIYKVNGLKYREALELF  160 (349)
Q Consensus        97 ~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~------------~-~~~~~~-~~~~~~~l~~L~~~ea~~L~  160 (349)
                      +.+|+||+++..  .....+...+...... .++++|..            . .+...+ .-...+.+++++.++..+++
T Consensus       190 ~~vl~IDEi~~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il  268 (368)
T 3uk6_A          190 PGVLFIDEVHMLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQIL  268 (368)
T ss_dssp             BCEEEEESGGGSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHH
T ss_pred             CceEEEhhccccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHH
Confidence            359999999854  3344454444332223 44444431            1 011111 11235899999999999999


Q ss_pred             HHhhccCCCCChhHHHHHHHHHHHcC-CCchHHH
Q 045618          161 CNCAFKENHCPEDLLVHSKRILDYAN-GNPLAVR  193 (349)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~i~~~c~-glPLAl~  193 (349)
                      ...+.......  ..+....|++.+. |.|-.+.
T Consensus       269 ~~~~~~~~~~~--~~~~l~~l~~~~~~G~~r~~~  300 (368)
T 3uk6_A          269 RIRCEEEDVEM--SEDAYTVLTRIGLETSLRYAI  300 (368)
T ss_dssp             HHHHHHTTCCB--CHHHHHHHHHHHHHSCHHHHH
T ss_pred             HHHHHHcCCCC--CHHHHHHHHHHhcCCCHHHHH
Confidence            98764332221  1345667888886 6665443

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

Probab=96.11  E-value=0.063  Score=49.57  Aligned_cols=99  Identities=13%  Similarity=0.047  Sum_probs=54.3

Q ss_pred             CCceEEEEecCCCc-------------hhHHHHHccc---CC-CCCCcEEEEEeCcchhhc-cc--CcccEEEcCCCChH
Q 045618           95 RTKVLIVLDDVNKV-------------GQLEYLIGGL---ER-FGPGSRIIVTTRDRRVLD-NF--GVGNIYKVNGLKYR  154 (349)
Q Consensus        95 ~~~~LlVlDdv~~~-------------~~~~~l~~~~---~~-~~~~~~IlvTTR~~~~~~-~~--~~~~~~~l~~L~~~  154 (349)
                      ....+|+||+++..             .....++..+   .. ......||.||....... .+  .....+.++..+.+
T Consensus       206 ~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~  285 (389)
T 3vfd_A          206 LQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEE  285 (389)
T ss_dssp             SSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHH
T ss_pred             cCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHH
Confidence            35579999999643             1112222211   11 123455666665543221 11  23346889999999


Q ss_pred             hHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCch-HHHHH
Q 045618          155 EALELFCNCAFKENHCPEDLLVHSKRILDYANGNPL-AVRVL  195 (349)
Q Consensus       155 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPL-Al~~~  195 (349)
                      +-.+++...+........  ......|++.+.|..- +|..+
T Consensus       286 ~r~~il~~~~~~~~~~l~--~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          286 TRLLLLKNLLCKQGSPLT--QKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             HHHHHHHHHHTTSCCCSC--HHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCC--HHHHHHHHHHcCCCCHHHHHHH
Confidence            999999887633322221  2456788888888654 44443

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

Probab=96.07  E-value=0.089  Score=46.68  Aligned_cols=101  Identities=11%  Similarity=0.139  Sum_probs=56.9

Q ss_pred             HHHHHHhCCCceEEEEecCCCch----------------hHHHHHcccCC--CCCCcEEEEEeCcchhhcc--c---Ccc
Q 045618           87 EYVRERLRRTKVLIVLDDVNKVG----------------QLEYLIGGLER--FGPGSRIIVTTRDRRVLDN--F---GVG  143 (349)
Q Consensus        87 ~~l~~~L~~~~~LlVlDdv~~~~----------------~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~--~---~~~  143 (349)
                      ..+.........+|+||+++...                ....++..+..  ...+..||.||..++....  .   ...
T Consensus        99 ~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~al~r~gRf~  178 (301)
T 3cf0_A           99 EIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLD  178 (301)
T ss_dssp             HHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCGGGGSTTSSC
T ss_pred             HHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccChHHhcCCccc
Confidence            33444444567999999997321                12333332211  1235677777766543221  1   133


Q ss_pred             cEEEcCCCChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCchH
Q 045618          144 NIYKVNGLKYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       144 ~~~~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glPLA  191 (349)
                      ..+.++..+.++-.+++......... ....    ...+++.+.|.|-+
T Consensus       179 ~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~----~~~la~~~~g~sg~  223 (301)
T 3cf0_A          179 QLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  223 (301)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHTCSSCCHH
T ss_pred             eEEecCCcCHHHHHHHHHHHHccCCCCccch----HHHHHHHcCCCCHH
Confidence            57899999999988988877633221 1112    23566667777643

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

Probab=95.77  E-value=0.17  Score=44.52  Aligned_cols=100  Identities=14%  Similarity=0.092  Sum_probs=54.8

Q ss_pred             CCCceEEEEecCCCc-------------hhHHHHHcc---cCC--CCCCcEEEEEeCcchhhcc-c--CcccEEEcCCCC
Q 045618           94 RRTKVLIVLDDVNKV-------------GQLEYLIGG---LER--FGPGSRIIVTTRDRRVLDN-F--GVGNIYKVNGLK  152 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~-------------~~~~~l~~~---~~~--~~~~~~IlvTTR~~~~~~~-~--~~~~~~~l~~L~  152 (349)
                      .....+|+||+++..             .....++..   +..  .+.+..||.||..+..... +  .....+.++..+
T Consensus       111 ~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~  190 (297)
T 3b9p_A          111 HMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPD  190 (297)
T ss_dssp             HTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHHHHHCCEEEECCCCC
T ss_pred             HcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcC
Confidence            346789999999642             111122211   111  1234567777776532211 1  123467888888


Q ss_pred             hHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCch-HHHHH
Q 045618          153 YREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPL-AVRVL  195 (349)
Q Consensus       153 ~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPL-Al~~~  195 (349)
                      .++-..++...+........  ......+++.+.|.+- ++..+
T Consensus       191 ~~~r~~il~~~~~~~~~~~~--~~~~~~la~~~~g~~~~~l~~l  232 (297)
T 3b9p_A          191 EQTRELLLNRLLQKQGSPLD--TEALRRLAKITDGYSGSDLTAL  232 (297)
T ss_dssp             HHHHHHHHHHHHGGGSCCSC--HHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHcCCCCHHHHHHH
Confidence            88888888776633222111  2456678888888875 44433

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.52  E-value=0.11  Score=46.82  Aligned_cols=95  Identities=16%  Similarity=0.196  Sum_probs=56.1

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +.+-++|+|+++..  ...+.+...+......+.+|++|.... +...+ .-...+.+.+++.++..+.+...+-.....
T Consensus       109 ~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~~l~~~~~~~~~~  188 (340)
T 1sxj_C          109 KGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLK  188 (340)
T ss_dssp             CSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTTTCC
T ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHHHHHHHHHHcCCC
Confidence            34678999999743  333444433333345667777775543 21111 123478899999999888887765222211


Q ss_pred             ChhHHHHHHHHHHHcCCCchH
Q 045618          171 PEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLA  191 (349)
                      ..  ......+++.++|.+--
T Consensus       189 i~--~~~~~~i~~~s~G~~r~  207 (340)
T 1sxj_C          189 LS--PNAEKALIELSNGDMRR  207 (340)
T ss_dssp             BC--HHHHHHHHHHHTTCHHH
T ss_pred             CC--HHHHHHHHHHcCCCHHH
Confidence            11  34566788888887753

>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=94.62  E-value=0.12  Score=46.12  Aligned_cols=69  Identities=16%  Similarity=0.186  Sum_probs=48.9

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc-hhhcccCcccEEEcCCCChHhHHHHHHHhh
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR-RVLDNFGVGNIYKVNGLKYREALELFCNCA  164 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~-~~~~~~~~~~~~~l~~L~~~ea~~L~~~~a  164 (349)
                      +++-++|+|+++..  ...+.|+..+....+.+.+|++|.++ .+...+..- .++++++++++..+.+.+..
T Consensus        81 ~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           81 YTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             SSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCHHHHHHHHHHH
T ss_pred             CCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHHHHHHHHHHHh
Confidence            45778999999854  44566666665445677777776554 344444344 89999999999999888775

>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=94.47  E-value=0.071  Score=43.20  Aligned_cols=18  Identities=17%  Similarity=0.161  Sum_probs=14.2

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+.|.|||+|++....
T Consensus        43 l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           43 FVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             ECCSSSSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            567789999999985543

>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=94.16  E-value=0.046  Score=47.42  Aligned_cols=71  Identities=15%  Similarity=0.368  Sum_probs=40.6

Q ss_pred             CCCceEEEEecCCCch-----------------hHHHHHcccCCC---CCCcEEEEEeCcchhhc-cc----CcccEEEc
Q 045618           94 RRTKVLIVLDDVNKVG-----------------QLEYLIGGLERF---GPGSRIIVTTRDRRVLD-NF----GVGNIYKV  148 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~-----------------~~~~l~~~~~~~---~~~~~IlvTTR~~~~~~-~~----~~~~~~~l  148 (349)
                      .....+|+||+++...                 .+..++..+...   .....||.||....... ..    .....+.+
T Consensus       101 ~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i  180 (268)
T 2r62_A          101 KQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLV  180 (268)
T ss_dssp             HSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBC
T ss_pred             hcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEe
Confidence            3466899999996431                 122333332211   12345666776554221 11    12346788


Q ss_pred             CCCChHhHHHHHHHhh
Q 045618          149 NGLKYREALELFCNCA  164 (349)
Q Consensus       149 ~~L~~~ea~~L~~~~a  164 (349)
                      ++++.++-.+++...+
T Consensus       181 ~~p~~~~r~~il~~~~  196 (268)
T 2r62_A          181 DKPDFNGRVEILKVHI  196 (268)
T ss_dssp             CCCCTTTHHHHHHHHT
T ss_pred             cCcCHHHHHHHHHHHH
Confidence            8888888888887765

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=93.74  E-value=0.1  Score=43.02  Aligned_cols=18  Identities=17%  Similarity=0.002  Sum_probs=14.1

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+.|.|||++|.....
T Consensus        59 l~G~~GtGKT~la~~i~~   76 (202)
T 2w58_A           59 LHGSFGVGKTYLLAAIAN   76 (202)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            457789999999985544

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

Probab=93.41  E-value=0.23  Score=45.91  Aligned_cols=92  Identities=15%  Similarity=0.235  Sum_probs=55.3

Q ss_pred             CCCceEEEEecCCCc------------h----hHHHHHcccC--CCCCCcEEEEEeCcchhhcc-c----CcccEEEcCC
Q 045618           94 RRTKVLIVLDDVNKV------------G----QLEYLIGGLE--RFGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNG  150 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~------------~----~~~~l~~~~~--~~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~  150 (349)
                      ....++|.+|+++..            .    .+..++..+.  ....+..||.||..++.... +    .....+.++.
T Consensus       239 ~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~l  318 (405)
T 4b4t_J          239 EHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPP  318 (405)
T ss_dssp             HTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCC
T ss_pred             HhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCC
Confidence            456899999999732            0    1233333332  12345567777776654322 1    2356899999


Q ss_pred             CChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-.++|+.+.-.... ...+    ...|++.+.|.-
T Consensus       319 Pd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          319 PSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             CCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             cCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence            9999999999877633221 1222    346777887764

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=92.94  E-value=0.1  Score=41.99  Aligned_cols=18  Identities=11%  Similarity=-0.188  Sum_probs=13.5

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+.|+|||++|+....
T Consensus        48 l~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           48 LLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             EESCGGGCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            346679999999985543

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

Probab=92.88  E-value=0.45  Score=40.80  Aligned_cols=72  Identities=15%  Similarity=0.185  Sum_probs=40.5

Q ss_pred             hCCCceEEEEecCCCc----------------hhHHHHHcccCC--CCCCcEEEEEeCcchhh-ccc----CcccEEEcC
Q 045618           93 LRRTKVLIVLDDVNKV----------------GQLEYLIGGLER--FGPGSRIIVTTRDRRVL-DNF----GVGNIYKVN  149 (349)
Q Consensus        93 L~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~--~~~~~~IlvTTR~~~~~-~~~----~~~~~~~l~  149 (349)
                      ......++++|+++..                ..+..++..+..  ...+..||.||...... ..+    .....+.++
T Consensus       101 ~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~  180 (257)
T 1lv7_A          101 KKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVG  180 (257)
T ss_dssp             HTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECC
T ss_pred             HHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeC
Confidence            3455689999998311                122333322211  12345677777655422 111    123478888


Q ss_pred             CCChHhHHHHHHHhh
Q 045618          150 GLKYREALELFCNCA  164 (349)
Q Consensus       150 ~L~~~ea~~L~~~~a  164 (349)
                      ..+.++-.+++....
T Consensus       181 ~P~~~~r~~il~~~~  195 (257)
T 1lv7_A          181 LPDVRGREQILKVHM  195 (257)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            888888888887765

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=92.70  E-value=0.3  Score=43.07  Aligned_cols=18  Identities=11%  Similarity=-0.029  Sum_probs=14.1

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+-|.|||++|+....
T Consensus        52 l~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           52 FLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             EESCSSSSHHHHHHHHHH
T ss_pred             EECCCCcCHHHHHHHHHH
Confidence            557789999999985544

>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=92.68  E-value=0.17  Score=48.23  Aligned_cols=97  Identities=9%  Similarity=0.136  Sum_probs=52.4

Q ss_pred             HHHHhCCCceEEEEecCCCc-------------hhHHHHHcccC--CCCCCcEEEEEeCcchh-hccc----CcccEEEc
Q 045618           89 VRERLRRTKVLIVLDDVNKV-------------GQLEYLIGGLE--RFGPGSRIIVTTRDRRV-LDNF----GVGNIYKV  148 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~-------------~~~~~l~~~~~--~~~~~~~IlvTTR~~~~-~~~~----~~~~~~~l  148 (349)
                      +.....++..+|+||+++..             .....|+..+.  ....+..||.||..... ...+    .....+.+
T Consensus       290 f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i  369 (489)
T 3hu3_A          290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI  369 (489)
T ss_dssp             HHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTTSSCEEEEC
T ss_pred             HHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCCcCceEEEe
Confidence            33444556789999999411             11222322221  11334566666665532 1111    23347899


Q ss_pred             CCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCC
Q 045618          149 NGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGN  188 (349)
Q Consensus       149 ~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~gl  188 (349)
                      +..+.++-.++|...+........   ....++++.+.|.
T Consensus       370 ~~P~~~eR~~IL~~~~~~~~l~~~---~~l~~la~~t~g~  406 (489)
T 3hu3_A          370 GIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGH  406 (489)
T ss_dssp             CCCCHHHHHHHHHHHTTTSCBCTT---CCHHHHHHTCTTC
T ss_pred             CCCCHHHHHHHHHHHHhcCCCcch---hhHHHHHHHccCC
Confidence            999999999999887633221111   1124566666664

>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=92.44  E-value=1  Score=39.44  Aligned_cols=20  Identities=5%  Similarity=-0.013  Sum_probs=16.7

Q ss_pred             cEEEcCCCChHhHHHHHHHh
Q 045618          144 NIYKVNGLKYREALELFCNC  163 (349)
Q Consensus       144 ~~~~l~~L~~~ea~~L~~~~  163 (349)
                      ..+.+++++.++-.+++...
T Consensus       195 ~~i~~~~~~~~~~~~il~~~  214 (310)
T 1ofh_A          195 IRVELTALSAADFERILTEP  214 (310)
T ss_dssp             EEEECCCCCHHHHHHHHHSS
T ss_pred             ceEEcCCcCHHHHHHHHHhh
Confidence            46999999999988888753

>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=92.36  E-value=1.1  Score=42.41  Aligned_cols=98  Identities=11%  Similarity=0.134  Sum_probs=55.1

Q ss_pred             HHHHhCCCceEEEEecCCCc----------------hhHHHHHcccCC--CCCCcEEEEEeCcchhhcc--cC---cccE
Q 045618           89 VRERLRRTKVLIVLDDVNKV----------------GQLEYLIGGLER--FGPGSRIIVTTRDRRVLDN--FG---VGNI  145 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~--~~---~~~~  145 (349)
                      +........++|+||+++..                ..+..++..+..  ...+..||.||..++....  ..   ....
T Consensus       101 f~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~allR~gRFd~~  180 (476)
T 2ce7_A          101 FAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKK  180 (476)
T ss_dssp             HHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGGSTTSSCEE
T ss_pred             HHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhcccCcceeE
Confidence            34444567899999999532                123333332211  1235667777776654321  11   2347


Q ss_pred             EEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          146 YKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       146 ~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      +.++..+.++-.+++..++.........   ....+++.+.|..
T Consensus       181 i~i~~Pd~~~R~~Il~~~~~~~~l~~~v---~l~~la~~t~G~s  221 (476)
T 2ce7_A          181 IVVDPPDMLGRKKILEIHTRNKPLAEDV---NLEIIAKRTPGFV  221 (476)
T ss_dssp             EECCCCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCC
T ss_pred             eecCCCCHHHHHHHHHHHHHhCCCcchh---hHHHHHHhcCCCc
Confidence            8889888888888887766332211111   1334777788876

>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=92.35  E-value=0.31  Score=49.06  Aligned_cols=69  Identities=13%  Similarity=0.157  Sum_probs=40.3

Q ss_pred             CCceEEEEecCCCc----------hhHHHHHcccCCCCCCcEEEEEeCcchhhcc------c-CcccEEEcCCCChHhHH
Q 045618           95 RTKVLIVLDDVNKV----------GQLEYLIGGLERFGPGSRIIVTTRDRRVLDN------F-GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        95 ~~~~LlVlDdv~~~----------~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~------~-~~~~~~~l~~L~~~ea~  157 (349)
                      .++.+|++|+++..          .+...++..+.. ..+..+|.+|........      + .--..+.+++++.++..
T Consensus       277 ~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~-~~~~~~I~at~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~  355 (758)
T 1r6b_X          277 DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETV  355 (758)
T ss_dssp             SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHH
T ss_pred             cCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh-CCCeEEEEEeCchHHhhhhhcCHHHHhCceEEEcCCCCHHHHH
Confidence            35789999999744          222333333222 234566666654432111      1 11136889999999998


Q ss_pred             HHHHHhh
Q 045618          158 ELFCNCA  164 (349)
Q Consensus       158 ~L~~~~a  164 (349)
                      +++....
T Consensus       356 ~il~~l~  362 (758)
T 1r6b_X          356 QIINGLK  362 (758)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887654

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

Probab=92.04  E-value=0.44  Score=41.96  Aligned_cols=41  Identities=17%  Similarity=0.139  Sum_probs=23.1

Q ss_pred             CCcEEEEEeCcchhhcc-c----CcccEEEcCCCChHhHHHHHHHhhc
Q 045618          123 PGSRIIVTTRDRRVLDN-F----GVGNIYKVNGLKYREALELFCNCAF  165 (349)
Q Consensus       123 ~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~a~  165 (349)
                      .+..||.||...+.... +    .....+.++  +.++-.+++.....
T Consensus       154 ~~v~vI~ttN~~~~ld~al~R~~R~d~~i~~P--~~~~r~~Il~~~~~  199 (293)
T 3t15_A          154 ARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAP--TREDRIGVCTGIFR  199 (293)
T ss_dssp             CCCCEEEECSSCCC--CHHHHHHHEEEEEECC--CHHHHHHHHHHHHG
T ss_pred             CCcEEEEecCCcccCCHHHhCCCCCceeEeCc--CHHHHHHHHHHhcc
Confidence            45678888876542211 1    112234443  88888888887663

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=91.99  E-value=0.71  Score=43.62  Aligned_cols=75  Identities=11%  Similarity=0.066  Sum_probs=40.0

Q ss_pred             HHHHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchh------hccc-CcccEEEcCCCChHhHHH
Q 045618           86 PEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRV------LDNF-GVGNIYKVNGLKYREALE  158 (349)
Q Consensus        86 ~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~------~~~~-~~~~~~~l~~L~~~ea~~  158 (349)
                      ...+...-..++.+|++|  ...+....|.+.+.  ....++|.+|.....      ...+ .--..+.+++++.++..+
T Consensus       257 ~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~p~~e~~~~  332 (468)
T 3pxg_A          257 KKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQ  332 (468)
T ss_dssp             HHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHH
T ss_pred             HHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCHHHHHhCccceeCCCCHHHHHH
Confidence            333444444677899999  22233344545443  224556655554431      1111 112369999999999999


Q ss_pred             HHHHhh
Q 045618          159 LFCNCA  164 (349)
Q Consensus       159 L~~~~a  164 (349)
                      ++....
T Consensus       333 iL~~~~  338 (468)
T 3pxg_A          333 ILQGLR  338 (468)
T ss_dssp             HHHHTT
T ss_pred             HHHHHH
Confidence            998765

>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=91.32  E-value=0.44  Score=46.01  Aligned_cols=69  Identities=16%  Similarity=0.217  Sum_probs=38.2

Q ss_pred             CceEEEEecCCCchh------HHHHHcccCCCC---------------CCcEEEEEeCcchhhc-cc-CcccEEEcCCCC
Q 045618           96 TKVLIVLDDVNKVGQ------LEYLIGGLERFG---------------PGSRIIVTTRDRRVLD-NF-GVGNIYKVNGLK  152 (349)
Q Consensus        96 ~~~LlVlDdv~~~~~------~~~l~~~~~~~~---------------~~~~IlvTTR~~~~~~-~~-~~~~~~~l~~L~  152 (349)
                      ..-+++||.++....      ...++..+....               ....||.||....... .+ .-...+.+++++
T Consensus       175 ~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~~l~~aL~~R~~vi~~~~~~  254 (543)
T 3m6a_A          175 LNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLATIPGPLRDRMEIINIAGYT  254 (543)
T ss_dssp             SSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTTTSCHHHHHHEEEEECCCCC
T ss_pred             cCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccccCCHHHHhhcceeeeCCCC
Confidence            344888999975421      233333332111               2345666665543221 11 112368999999


Q ss_pred             hHhHHHHHHHhh
Q 045618          153 YREALELFCNCA  164 (349)
Q Consensus       153 ~~ea~~L~~~~a  164 (349)
                      .++-.+++..+.
T Consensus       255 ~~e~~~Il~~~l  266 (543)
T 3m6a_A          255 EIEKLEIVKDHL  266 (543)
T ss_dssp             HHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHH
Confidence            999988888765

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

Probab=91.30  E-value=0.94  Score=42.55  Aligned_cols=92  Identities=13%  Similarity=0.146  Sum_probs=53.1

Q ss_pred             CCCceEEEEecCCCch----------------hHHHHHcccC--CCCCCcEEEEEeCcchhhcc-c----CcccEEEcCC
Q 045618           94 RRTKVLIVLDDVNKVG----------------QLEYLIGGLE--RFGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNG  150 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~~----------------~~~~l~~~~~--~~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~  150 (349)
                      ....++|.+|+++...                ....++..+.  ....+..||.||..++.... +    .....+.++.
T Consensus       300 ~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~l  379 (467)
T 4b4t_H          300 TKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSL  379 (467)
T ss_dssp             HTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCC
T ss_pred             hcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhhccccccEEEEeCC
Confidence            4568999999996320                1222333221  11234456667765543321 1    2456788999


Q ss_pred             CChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-.++|+.++..... ....    ...|++.+.|.-
T Consensus       380 Pd~~~R~~Ilk~~l~~~~l~~dvd----l~~LA~~T~GfS  415 (467)
T 4b4t_H          380 PDLEGRANIFRIHSKSMSVERGIR----WELISRLCPNST  415 (467)
T ss_dssp             CCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHHCCSCC
T ss_pred             cCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHHCCCCC
Confidence            9999999999877633221 1122    346778888764

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

Probab=91.00  E-value=3.7  Score=38.31  Aligned_cols=92  Identities=17%  Similarity=0.182  Sum_probs=54.5

Q ss_pred             CCCceEEEEecCCCc------------h----hHHHHHcccC--CCCCCcEEEEEeCcchhhccc--C---cccEEEcCC
Q 045618           94 RRTKVLIVLDDVNKV------------G----QLEYLIGGLE--RFGPGSRIIVTTRDRRVLDNF--G---VGNIYKVNG  150 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~------------~----~~~~l~~~~~--~~~~~~~IlvTTR~~~~~~~~--~---~~~~~~l~~  150 (349)
                      ....++|.+|+++..            .    .+..|+..+.  ....+..||.||..++.....  .   ....+.++.
T Consensus       272 ~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~l  351 (437)
T 4b4t_L          272 EHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPL  351 (437)
T ss_dssp             HSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCC
T ss_pred             hcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHhCCCccceeeecCC
Confidence            357899999999631            0    1233433332  123456778888766543321  1   244788888


Q ss_pred             CChHhHHHHHHHhhccCC-CCChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKEN-HCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-.++|+.+..... .....    ...|++.+.|.-
T Consensus       352 Pd~~~R~~Il~~~~~~~~~~~d~d----l~~lA~~t~G~s  387 (437)
T 4b4t_L          352 PNEAGRLEIFKIHTAKVKKTGEFD----FEAAVKMSDGFN  387 (437)
T ss_dssp             CCHHHHHHHHHHHHHTSCBCSCCC----HHHHHHTCCSCC
T ss_pred             cCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhCCCCC
Confidence            898888899987763322 11222    346677777754

>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=90.23  E-value=0.42  Score=48.90  Aligned_cols=68  Identities=15%  Similarity=0.103  Sum_probs=35.3

Q ss_pred             CCceEEEEecCCCch---------h-HHHHHcccCCCCCCcEEEEEeCcchh-----hccc-CcccEEEcCCCChHhHHH
Q 045618           95 RTKVLIVLDDVNKVG---------Q-LEYLIGGLERFGPGSRIIVTTRDRRV-----LDNF-GVGNIYKVNGLKYREALE  158 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~---------~-~~~l~~~~~~~~~~~~IlvTTR~~~~-----~~~~-~~~~~~~l~~L~~~ea~~  158 (349)
                      +++.+|++|+++...         + ...+.+.+.  ..+..+|.+|.....     ...+ .-...+.+++++.++..+
T Consensus       262 ~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~at~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~  339 (854)
T 1qvr_A          262 QGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATTLDEYREIEKDPALERRFQPVYVDEPTVEETIS  339 (854)
T ss_dssp             CSSEEEEECCC-------------------HHHHH--TTCCCEEEEECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHH
T ss_pred             CCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEecCchHHhhhccCHHHHhCCceEEeCCCCHHHHHH
Confidence            367899999997532         1 122323222  123445555543321     1111 112358999999999999


Q ss_pred             HHHHhh
Q 045618          159 LFCNCA  164 (349)
Q Consensus       159 L~~~~a  164 (349)
                      ++....
T Consensus       340 iL~~~~  345 (854)
T 1qvr_A          340 ILRGLK  345 (854)
T ss_dssp             HHHHHH
T ss_pred             HHHhhh
Confidence            987543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=90.07  E-value=0.14  Score=40.37  Aligned_cols=18  Identities=11%  Similarity=-0.258  Sum_probs=14.0

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+.|.|||+|++....
T Consensus        41 l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           41 VWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             EESSSTTTTCHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            567789999999985544

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

Probab=89.78  E-value=2.3  Score=39.61  Aligned_cols=91  Identities=11%  Similarity=0.150  Sum_probs=52.3

Q ss_pred             CCceEEEEecCCCc------------h----hHHHHHcccCCC--CCCcEEEEEeCcchhhcc-c----CcccEEEcCCC
Q 045618           95 RTKVLIVLDDVNKV------------G----QLEYLIGGLERF--GPGSRIIVTTRDRRVLDN-F----GVGNIYKVNGL  151 (349)
Q Consensus        95 ~~~~LlVlDdv~~~------------~----~~~~l~~~~~~~--~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L  151 (349)
                      ...++|.+|+++..            .    .+..++..+...  ..+..||.||..++.... +    .....+.++..
T Consensus       273 ~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lP  352 (434)
T 4b4t_M          273 KAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLP  352 (434)
T ss_dssp             HCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCC
T ss_pred             cCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCc
Confidence            35799999999521            0    122343333222  234456667766654332 1    13457889999


Q ss_pred             ChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCc
Q 045618          152 KYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       152 ~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glP  189 (349)
                      +.++-.++|+.+...... ....    ...|++.+.|.-
T Consensus       353 d~~~R~~Il~~~~~~~~~~~dvd----l~~lA~~t~G~s  387 (434)
T 4b4t_M          353 SEDSRAQILQIHSRKMTTDDDIN----WQELARSTDEFN  387 (434)
T ss_dssp             CHHHHHHHHHHHHHHSCBCSCCC----HHHHHHHCSSCC
T ss_pred             CHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCCC
Confidence            999888998876633221 1112    346777787753

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

Probab=89.42  E-value=0.84  Score=42.57  Aligned_cols=92  Identities=17%  Similarity=0.211  Sum_probs=48.4

Q ss_pred             CCCceEEEEecCCC------------ch----hHHHHHcccC--CCCCCcEEEEEeCcchhhcc-c-C---cccEEEcCC
Q 045618           94 RRTKVLIVLDDVNK------------VG----QLEYLIGGLE--RFGPGSRIIVTTRDRRVLDN-F-G---VGNIYKVNG  150 (349)
Q Consensus        94 ~~~~~LlVlDdv~~------------~~----~~~~l~~~~~--~~~~~~~IlvTTR~~~~~~~-~-~---~~~~~~l~~  150 (349)
                      ....+++.+|+++.            ..    .+..|+..+.  ....+..||.||..++.... + .   ....++++.
T Consensus       263 ~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~  342 (428)
T 4b4t_K          263 ENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPS  342 (428)
T ss_dssp             HTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCS
T ss_pred             HcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhcChhhhcCCcceEEEEcCC
Confidence            45689999999941            01    1333333222  12345667778876654322 1 1   234677765


Q ss_pred             C-ChHhHHHHHHHhhccCC-CCChhHHHHHHHHHHHcCCCc
Q 045618          151 L-KYREALELFCNCAFKEN-HCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L-~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~c~glP  189 (349)
                      + +.++-..+|..+..... .+...    ...|++.+.|.-
T Consensus       343 lPd~~~R~~Il~~~~~~~~l~~~~d----l~~lA~~t~G~s  379 (428)
T 4b4t_K          343 LRDRRERRLIFGTIASKMSLAPEAD----LDSLIIRNDSLS  379 (428)
T ss_dssp             SCCHHHHHHHHHHHHHSSCBCTTCC----HHHHHHHTTTCC
T ss_pred             CCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHHCCCCC
Confidence            5 45555667766653322 11222    346777777753

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=89.32  E-value=0.71  Score=35.76  Aligned_cols=37  Identities=16%  Similarity=0.008  Sum_probs=22.0

Q ss_pred             eEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcc
Q 045618           98 VLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDR  134 (349)
Q Consensus        98 ~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~  134 (349)
                      ..|+||+++..  .....+...+.......++|.||...
T Consensus        78 g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~  116 (145)
T 3n70_A           78 GTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTS  116 (145)
T ss_dssp             SCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSC
T ss_pred             cEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcC
Confidence            56899999854  23334444333334466787777653

>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=89.28  E-value=0.84  Score=39.22  Aligned_cols=18  Identities=11%  Similarity=-0.202  Sum_probs=13.5

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+-|.|||++|+....
T Consensus        34 l~G~~GtGKt~la~~i~~   51 (265)
T 2bjv_A           34 IIGERGTGKELIASRLHY   51 (265)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHH
Confidence            345579999999986543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=89.21  E-value=1.2  Score=39.50  Aligned_cols=18  Identities=11%  Similarity=-0.108  Sum_probs=13.8

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..|+-|.|||++|+....
T Consensus        30 i~Ge~GtGKt~lAr~i~~   47 (304)
T 1ojl_A           30 IHGDSGTGKELVARALHA   47 (304)
T ss_dssp             EESCTTSCHHHHHHHHHH
T ss_pred             EECCCCchHHHHHHHHHH
Confidence            346679999999986554

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

Probab=89.20  E-value=1.2  Score=41.33  Aligned_cols=92  Identities=10%  Similarity=0.134  Sum_probs=53.1

Q ss_pred             CCCceEEEEecCCCc----------------hhHHHHHcccC--CCCCCcEEEEEeCcchhhccc--C---cccEEEcCC
Q 045618           94 RRTKVLIVLDDVNKV----------------GQLEYLIGGLE--RFGPGSRIIVTTRDRRVLDNF--G---VGNIYKVNG  150 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~----------------~~~~~l~~~~~--~~~~~~~IlvTTR~~~~~~~~--~---~~~~~~l~~  150 (349)
                      ....++|.+|+++..                ..+..++..+.  ....+..||.||..++.....  .   ....+.++.
T Consensus       273 ~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~l  352 (437)
T 4b4t_I          273 ENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFEN  352 (437)
T ss_dssp             HTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCC
T ss_pred             hcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCC
Confidence            346799999998621                11223333221  123455677777766543321  1   234688888


Q ss_pred             CChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-.++|..+...... ....    ...|++.+.|.-
T Consensus       353 Pd~~~R~~Il~~~l~~~~l~~dvd----l~~LA~~T~GfS  388 (437)
T 4b4t_I          353 PDLSTKKKILGIHTSKMNLSEDVN----LETLVTTKDDLS  388 (437)
T ss_dssp             CCHHHHHHHHHHHHTTSCBCSCCC----HHHHHHHCCSCC
T ss_pred             cCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCCC
Confidence            8988889999877633221 1222    346777777753

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=89.14  E-value=1.1  Score=45.13  Aligned_cols=67  Identities=16%  Similarity=0.238  Sum_probs=37.8

Q ss_pred             CceEEEEecCCCc--hhHHHHHcccCC-----------CCCCcEEEEEeCcch-----------------hhcccCcccE
Q 045618           96 TKVLIVLDDVNKV--GQLEYLIGGLER-----------FGPGSRIIVTTRDRR-----------------VLDNFGVGNI  145 (349)
Q Consensus        96 ~~~LlVlDdv~~~--~~~~~l~~~~~~-----------~~~~~~IlvTTR~~~-----------------~~~~~~~~~~  145 (349)
                      ...+|+||+++..  .....|...+..           ...++.||.||....                 ....  ....
T Consensus       579 ~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~R--l~~~  656 (758)
T 3pxi_A          579 PYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFINR--IDEI  656 (758)
T ss_dssp             SSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHTT--SSEE
T ss_pred             CCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHhh--CCeE
Confidence            3458999999743  333444332211           123568888887311                 1111  2247


Q ss_pred             EEcCCCChHhHHHHHHHhh
Q 045618          146 YKVNGLKYREALELFCNCA  164 (349)
Q Consensus       146 ~~l~~L~~~ea~~L~~~~a  164 (349)
                      +.+++++.++-.+++....
T Consensus       657 i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          657 IVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             EECC--CHHHHHHHHHHHH
T ss_pred             EecCCCCHHHHHHHHHHHH
Confidence            8899999988887776654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=88.75  E-value=1.6  Score=43.95  Aligned_cols=76  Identities=12%  Similarity=0.083  Sum_probs=41.7

Q ss_pred             HHHHHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchh------hccc-CcccEEEcCCCChHhHH
Q 045618           85 LPEYVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRV------LDNF-GVGNIYKVNGLKYREAL  157 (349)
Q Consensus        85 ~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~------~~~~-~~~~~~~l~~L~~~ea~  157 (349)
                      +...+......++.+|++|  ...+....+.+.+.  ....++|.||.....      ...+ .--..+.+++++.++..
T Consensus       256 l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~p~~~~~~  331 (758)
T 3pxi_A          256 LKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESI  331 (758)
T ss_dssp             HHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHH
T ss_pred             HHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHH
Confidence            3444444555678999999  22223334444443  234566666654441      1111 11146999999999999


Q ss_pred             HHHHHhh
Q 045618          158 ELFCNCA  164 (349)
Q Consensus       158 ~L~~~~a  164 (349)
                      +++....
T Consensus       332 ~il~~~~  338 (758)
T 3pxi_A          332 QILQGLR  338 (758)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHH
Confidence            9998655

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

Probab=86.81  E-value=4.7  Score=38.29  Aligned_cols=90  Identities=12%  Similarity=0.208  Sum_probs=49.0

Q ss_pred             ceEEEEecCCCc----------------hhHHHHHcccCCC--CCCcEEEEEeCcchhhcc-c----CcccEEEcCCCCh
Q 045618           97 KVLIVLDDVNKV----------------GQLEYLIGGLERF--GPGSRIIVTTRDRRVLDN-F----GVGNIYKVNGLKY  153 (349)
Q Consensus        97 ~~LlVlDdv~~~----------------~~~~~l~~~~~~~--~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L~~  153 (349)
                      .+++++|+++..                ..+..++..+...  .....|+.||..++.... +    .....+.++..+.
T Consensus       124 p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~  203 (499)
T 2dhr_A          124 PCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDV  203 (499)
T ss_dssp             SCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCH
T ss_pred             CCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcccccccccceEEecCCCCH
Confidence            489999999521                1123443333211  223456666666654321 1    1334788999999


Q ss_pred             HhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          154 REALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       154 ~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      ++-.+++..++-.......   .....|++.+.|..
T Consensus       204 ~~R~~IL~~~~~~~~l~~d---v~l~~lA~~t~G~~  236 (499)
T 2dhr_A          204 KGREQILRIHARGKPLAED---VDLALLAKRTPGFV  236 (499)
T ss_dssp             HHHHHHHHHTTSSSCCCCS---STTHHHHTTSCSCC
T ss_pred             HHHHHHHHHHHhcCCCChH---HHHHHHHHhcCCCC
Confidence            9888888877632221111   11234566666655

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

Probab=86.57  E-value=3.8  Score=35.52  Aligned_cols=70  Identities=13%  Similarity=0.173  Sum_probs=42.7

Q ss_pred             CCceEEEEecCCCc-------------hhHHHHHcccCC--CCCCcEEEEEeCcchhhccc-----CcccEEEcCCCChH
Q 045618           95 RTKVLIVLDDVNKV-------------GQLEYLIGGLER--FGPGSRIIVTTRDRRVLDNF-----GVGNIYKVNGLKYR  154 (349)
Q Consensus        95 ~~~~LlVlDdv~~~-------------~~~~~l~~~~~~--~~~~~~IlvTTR~~~~~~~~-----~~~~~~~l~~L~~~  154 (349)
                      ...+++++|+++..             .....+...+..  ......++.+|..+++....     .....+.++..+.+
T Consensus       102 ~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~  181 (274)
T 2x8a_A          102 SAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPA  181 (274)
T ss_dssp             TCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHH
T ss_pred             cCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHH
Confidence            35688999999642             112233322221  12345566777777654321     23457889999999


Q ss_pred             hHHHHHHHhh
Q 045618          155 EALELFCNCA  164 (349)
Q Consensus       155 ea~~L~~~~a  164 (349)
                      +-.++|+...
T Consensus       182 ~r~~il~~~~  191 (274)
T 2x8a_A          182 DRLAILKTIT  191 (274)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            9999998765

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=85.96  E-value=0.66  Score=35.91  Aligned_cols=17  Identities=6%  Similarity=-0.080  Sum_probs=12.8

Q ss_pred             CCCCCchhhHHHHHHhh
Q 045618           17 ATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        17 ~~~gGiGKT~la~~~f~   33 (349)
                      .|+-|.|||++|+....
T Consensus        33 ~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           33 TGEAGSPFETVARYFHK   49 (143)
T ss_dssp             EEETTCCHHHHHGGGCC
T ss_pred             ECCCCccHHHHHHHHHH
Confidence            34479999999985543

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

Probab=84.51  E-value=4.2  Score=35.08  Aligned_cols=70  Identities=13%  Similarity=0.260  Sum_probs=39.9

Q ss_pred             CCceEEEEecCCCc----------------hhHHHHHcccCCCC--CCcEEEEEeCcchhhccc-----CcccEEEcCCC
Q 045618           95 RTKVLIVLDDVNKV----------------GQLEYLIGGLERFG--PGSRIIVTTRDRRVLDNF-----GVGNIYKVNGL  151 (349)
Q Consensus        95 ~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~~--~~~~IlvTTR~~~~~~~~-----~~~~~~~l~~L  151 (349)
                      ....++++|+++..                ..+..+...+....  ....++.||..++.....     .....+.++..
T Consensus       131 ~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p  210 (278)
T 1iy2_A          131 HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAP  210 (278)
T ss_dssp             SCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCC
T ss_pred             cCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCc
Confidence            35689999999421                11233333332211  223455566665543211     23457889988


Q ss_pred             ChHhHHHHHHHhh
Q 045618          152 KYREALELFCNCA  164 (349)
Q Consensus       152 ~~~ea~~L~~~~a  164 (349)
                      +.++-.+++...+
T Consensus       211 ~~~~r~~il~~~~  223 (278)
T 1iy2_A          211 DVKGREQILRIHA  223 (278)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9888888887665

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=84.47  E-value=1.5  Score=36.05  Aligned_cols=16  Identities=13%  Similarity=-0.128  Sum_probs=12.7

Q ss_pred             cCCCCCchhhHHHHHH
Q 045618           16 RATSCGIVKIRRCLMV   31 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~   31 (349)
                      ..|+.|.||||++...
T Consensus        25 i~G~~GsGKTtl~~~l   40 (220)
T 2cvh_A           25 VYGPYASGKTTLALQT   40 (220)
T ss_dssp             EECSTTSSHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHH
Confidence            4566899999999844

>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=83.42  E-value=4.7  Score=34.11  Aligned_cols=70  Identities=13%  Similarity=0.290  Sum_probs=39.5

Q ss_pred             CCceEEEEecCCCc------------h----hHHHHHcccCCC--CCCcEEEEEeCcchhhcc-c----CcccEEEcCCC
Q 045618           95 RTKVLIVLDDVNKV------------G----QLEYLIGGLERF--GPGSRIIVTTRDRRVLDN-F----GVGNIYKVNGL  151 (349)
Q Consensus        95 ~~~~LlVlDdv~~~------------~----~~~~l~~~~~~~--~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~L  151 (349)
                      ....++++|+++..            .    .+..+...+...  .....++.||..++.... +    .....+.++..
T Consensus       107 ~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p  186 (254)
T 1ixz_A          107 HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAP  186 (254)
T ss_dssp             SSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSC
T ss_pred             cCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCc
Confidence            35689999999421            1    123333332211  223345556666654322 1    23457888988


Q ss_pred             ChHhHHHHHHHhh
Q 045618          152 KYREALELFCNCA  164 (349)
Q Consensus       152 ~~~ea~~L~~~~a  164 (349)
                      +.++-.+++...+
T Consensus       187 ~~~~r~~il~~~~  199 (254)
T 1ixz_A          187 DVKGREQILRIHA  199 (254)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9888888887665

>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=82.29  E-value=3.9  Score=41.31  Aligned_cols=97  Identities=10%  Similarity=0.153  Sum_probs=55.3

Q ss_pred             HHHHhCCCceEEEEecCCCc-------------hhHHHHHcccCCC--CCCcEEEEEeCcchhhc-cc----CcccEEEc
Q 045618           89 VRERLRRTKVLIVLDDVNKV-------------GQLEYLIGGLERF--GPGSRIIVTTRDRRVLD-NF----GVGNIYKV  148 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~-------------~~~~~l~~~~~~~--~~~~~IlvTTR~~~~~~-~~----~~~~~~~l  148 (349)
                      +........++|+||+++..             .....|+..+...  ..+..||.||..++... .+    .....+++
T Consensus       290 F~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i  369 (806)
T 3cf2_A          290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI  369 (806)
T ss_dssp             HHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTTSSCEEEEC
T ss_pred             HHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCcccceEEec
Confidence            33444567899999999632             1123333322111  23445666666554322 11    23457899


Q ss_pred             CCCChHhHHHHHHHhhccCC-CCChhHHHHHHHHHHHcCCCc
Q 045618          149 NGLKYREALELFCNCAFKEN-HCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       149 ~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~c~glP  189 (349)
                      +..+.++-.++|..+..... .....    ...|++.+.|.-
T Consensus       370 ~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          370 GIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             CCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             CCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            99999999999987763322 11222    346777787764

---

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	349
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	7e-26

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  102 bits (255), Expect = 7e-26
 Identities = 23/154 (14%), Positives = 47/154 (30%), Gaps = 8/154 (5%)

Query: 89  VRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNF-GVGNIYK 147
               + R   L V DDV +   + +            R +VTTRD  + +         +
Sbjct: 128 CNALIDRPNTLFVFDDVVQEETIRWAQEL------RLRCLVTTRDVEISNAASQTCEFIE 181

Query: 148 VNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDW 207
           V  L+  E  +             E       + ++ ++GNP  + +       K+    
Sbjct: 182 VTSLEIDECYDFLEAYGMPM-PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKM 240

Query: 208 ESALDNLKRISDPDIYDVLKISYNEIKAEEKSLF 241
               + L+      +  +   SY  +    +   
Sbjct: 241 AQLNNKLESRGLVGVECITPYSYKSLAMALQRCV 274

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	349
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.36
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.41
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.26
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.09
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.06
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.03
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.97
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.95
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.92
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.58
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.26
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.04
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.01
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	95.98
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.92
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.87
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.5
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.26
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	94.94
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	94.89
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	94.32
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.11
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	85.58
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	81.18

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=1.8e-35  Score=263.70  Aligned_cols=216  Identities=14%  Similarity=0.112  Sum_probs=160.6

Q ss_pred             hcccCCCCCchhhHHHHHHhhhh---cceeeccccccccccCcceeehhhhccHHHHHHH---HHHHhhcccCCC----C
Q 045618           13 ELNRATSCGIVKIRRCLMVFRLC---STECLSEALWKPSYLNSRAIRESRSIMNQRVSNK---FLGWLVEQEQIR----T   82 (349)
Q Consensus        13 ~~~~~~~gGiGKT~la~~~f~~~---~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~---il~~l~~~~~~~----~   82 (349)
                      .+..+|||||||||||+.+|...   ...++...+|         +.++...+...+...   ++..+.+.....    .
T Consensus        46 ~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~W---------v~vs~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  116 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVW---------LKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVE  116 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEE---------EECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEE---------EEecCCCCHHHHHHHHHHHHHHhcchhhcCCccch
Confidence            45688999999999998665321   1111222222         333322233333333   233322221111    1


Q ss_pred             CCHHH-----HHHHHhCCCceEEEEecCCCchhHHHHHcccCCCCCCcEEEEEeCcchhhcccCcc-cEEEcCCCChHhH
Q 045618           83 PNLPE-----YVRERLRRTKVLIVLDDVNKVGQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFGVG-NIYKVNGLKYREA  156 (349)
Q Consensus        83 ~~~~~-----~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~~~-~~~~l~~L~~~ea  156 (349)
                      .....     .+.+.+.++++|+||||+|+..+++.+..      .+|+||||||++.++..+... ..|+|++|+.+||
T Consensus       117 ~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea  190 (277)
T d2a5yb3         117 HVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDEC  190 (277)
T ss_dssp             TCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHH
T ss_pred             hhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHHhcCCCCceEECCCCCHHHH
Confidence            11111     57788999999999999999999987643      478999999999998876443 6899999999999


Q ss_pred             HHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhccCCHHHHHHHHHHhhcCCCCcHHHHHHHhHhcCChh
Q 045618          157 LELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWESALDNLKRISDPDIYDVLKISYNEIKAE  236 (349)
Q Consensus       157 ~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~~~~~~~~~~l~~l~~~~~~~l~~~l~~s~~~L~~~  236 (349)
                      ++||.+.++....+ +..++.+++|+++|+|+||||+++|+.++.++.+.|.+..+.|.+.....+..++.+||+.||++
T Consensus       191 ~~Lf~~~~~~~~~~-~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~~~v~~il~~sY~~L~~~  269 (277)
T d2a5yb3         191 YDFLEAYGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMA  269 (277)
T ss_dssp             HHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHH
T ss_pred             HHHHHHHhCCccCc-hhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccHH
Confidence            99999998765543 34678899999999999999999999999999999999999998777788999999999999999


Q ss_pred             HHHHHHHh
Q 045618          237 EKSLFLDI  244 (349)
Q Consensus       237 ~~~~f~~l  244 (349)
                      .|.||.+|
T Consensus       270 lk~c~~~l  277 (277)
T d2a5yb3         270 LQRCVEVL  277 (277)
T ss_dssp             HHHHHHTS
T ss_pred             HHHHHHhC
Confidence            99999764

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.36  E-value=1.5e-06  Score=74.30  Aligned_cols=105  Identities=15%  Similarity=0.153  Sum_probs=64.1

Q ss_pred             HhCCCceEEEEecCCCc------hhHHHHHcccCCCCCCcEEEEEeCcchhhc----cc--------CcccEEEcCCCCh
Q 045618           92 RLRRTKVLIVLDDVNKV------GQLEYLIGGLERFGPGSRIIVTTRDRRVLD----NF--------GVGNIYKVNGLKY  153 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~------~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~----~~--------~~~~~~~l~~L~~  153 (349)
                      ...++++++|+|++...      ..+..+...... ......+++++......    ..        .....+.|++++.
T Consensus       132 ~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~  210 (283)
T d2fnaa2         132 QASKDNVIIVLDEAQELVKLRGVNLLPALAYAYDN-LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSR  210 (283)
T ss_dssp             HTCSSCEEEEEETGGGGGGCTTCCCHHHHHHHHHH-CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCH
T ss_pred             hhcccccccccchhhhhcccchHHHHHHHHHHHHh-hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCH
Confidence            34578999999998532      112222211111 33445555555432211    10        1234689999999


Q ss_pred             HhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHHHHHhHHhcc
Q 045618          154 REALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQ  201 (349)
Q Consensus       154 ~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl~~~a~~l~~  201 (349)
                      +++.+++.+.........+.    ..+|.+.++|+|..+..++..+..
T Consensus       211 ~e~~~~l~~~~~~~~~~~~~----~~~i~~~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         211 EEAIEFLRRGFQEADIDFKD----YEVVYEKIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             HHHHHHHHHHHHHHTCCCCC----HHHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhcCCCHHH----HHHHHHHhCCCHHHHHHHHHHHHh
Confidence            99999998765332222222    458999999999999999876644

>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=97.41  E-value=0.00011  Score=61.65  Aligned_cols=96  Identities=14%  Similarity=0.168  Sum_probs=56.9

Q ss_pred             CCCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCC
Q 045618           94 RRTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENH  169 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~  169 (349)
                      .++.-++|+|+++..  .....+...+......+++|+||.+.+ +...+ .-...+++++++.++..+.+...+-....
T Consensus       129 ~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~  208 (252)
T d1sxje2         129 AHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI  208 (252)
T ss_dssp             --CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC
T ss_pred             CCCceEEEeccccccccccchhhhcccccccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCC
Confidence            345568999999864  334444443333356777777776653 22211 12247899999999999988776522221


Q ss_pred             CChhHHHHHHHHHHHcCCCch
Q 045618          170 CPEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       170 ~~~~~~~~~~~i~~~c~glPL  190 (349)
                      .. ..++....|++.+.|-+.
T Consensus       209 ~~-~~~~~l~~i~~~s~Gd~R  228 (252)
T d1sxje2         209 QL-ETKDILKRIAQASNGNLR  228 (252)
T ss_dssp             EE-CCSHHHHHHHHHHTTCHH
T ss_pred             CC-CcHHHHHHHHHHcCCcHH
Confidence            11 112445678888888753

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.26  E-value=0.00055  Score=56.34  Aligned_cols=92  Identities=16%  Similarity=0.203  Sum_probs=60.0

Q ss_pred             CceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCCC
Q 045618           96 TKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHCP  171 (349)
Q Consensus        96 ~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  171 (349)
                      ++-.+|+|+++..  .....++..+......+.++++|.... +...+ .....+.+.+++.++-...+.+.+.......
T Consensus        99 ~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~~e~i~i  178 (227)
T d1sxjc2          99 GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKL  178 (227)
T ss_dssp             SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTTTCCB
T ss_pred             CeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccccccccccccccccccccccC
Confidence            4558899999854  333444444444466788888887653 22222 3345789999999999998888764433222


Q ss_pred             hhHHHHHHHHHHHcCCCc
Q 045618          172 EDLLVHSKRILDYANGNP  189 (349)
Q Consensus       172 ~~~~~~~~~i~~~c~glP  189 (349)
                      +  .+....|++.++|-.
T Consensus       179 ~--~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         179 S--PNAEKALIELSNGDM  194 (227)
T ss_dssp             C--HHHHHHHHHHHTTCH
T ss_pred             C--HHHHHHHHHHcCCcH
Confidence            2  355678888888854

>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=97.09  E-value=0.0019  Score=52.88  Aligned_cols=94  Identities=13%  Similarity=0.164  Sum_probs=58.8

Q ss_pred             CCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-++|+|+++...  ....++..+......++++++|.+.. +...+ .....+++++++.++-...+.+.+......
T Consensus       100 ~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~~~l~~i~~~e~~~  179 (224)
T d1sxjb2         100 GKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVK  179 (224)
T ss_dssp             TCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC
T ss_pred             cceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhhHHHHHHHHHhcccC
Confidence            355688999998543  22333333333355667777766543 32222 334579999999999999888776433222


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      ..  .+....|++.|+|-+.
T Consensus       180 i~--~~~l~~I~~~s~Gd~R  197 (224)
T d1sxjb2         180 YT--NDGLEAIIFTAEGDMR  197 (224)
T ss_dssp             BC--HHHHHHHHHHHTTCHH
T ss_pred             CC--HHHHHHHHHHcCCcHH
Confidence            21  3456789999988764

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.06  E-value=0.0015  Score=53.74  Aligned_cols=99  Identities=16%  Similarity=0.170  Sum_probs=59.9

Q ss_pred             HHHHhCCCceEEEEecCCCch--hHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhh
Q 045618           89 VRERLRRTKVLIVLDDVNKVG--QLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCA  164 (349)
Q Consensus        89 l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a  164 (349)
                      +......+.-.+|+|+++...  ....+..........+++++|+.+.. ....+ .....+++.+++.++..+++.+.+
T Consensus       101 ~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~~~~~~~~~~L~~i~  180 (237)
T d1sxjd2         101 LENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS  180 (237)
T ss_dssp             HHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhccccccccccchhhhhhh
Confidence            334444455579999997542  33333333333355667777766543 22222 123578999999999999998877


Q ss_pred             ccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          165 FKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       165 ~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .......  ..+....|++.++|-+
T Consensus       181 ~~e~i~i--~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         181 EQENVKC--DDGVLERILDISAGDL  203 (237)
T ss_dssp             HTTTCCC--CHHHHHHHHHHTSSCH
T ss_pred             hhhcCcC--CHHHHHHHHHHcCCCH
Confidence            4433222  1355678888887754

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.03  E-value=0.001  Score=54.07  Aligned_cols=90  Identities=13%  Similarity=0.096  Sum_probs=62.6

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      +++-++|+|+++..  +....++..+.....++.+|.||++.. +...+ .-...+.+.+++.++..+.+....   .. 
T Consensus       107 ~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~---~~-  182 (207)
T d1a5ta2         107 GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV---TM-  182 (207)
T ss_dssp             SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC---CC-
T ss_pred             CccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCCCHHHHHHHHHHcC---CC-
Confidence            35668999999854  345666666665567888888887764 43333 234589999999999998887653   11 


Q ss_pred             ChhHHHHHHHHHHHcCCCchH
Q 045618          171 PEDLLVHSKRILDYANGNPLA  191 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPLA  191 (349)
                         .++.+..+++..+|.|-.
T Consensus       183 ---~~~~~~~i~~~s~Gs~r~  200 (207)
T d1a5ta2         183 ---SQDALLAALRLSAGSPGA  200 (207)
T ss_dssp             ---CHHHHHHHHHHTTTCHHH
T ss_pred             ---CHHHHHHHHHHcCCCHHH
Confidence               135567788888888743

>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=96.97  E-value=0.0011  Score=54.72  Aligned_cols=93  Identities=17%  Similarity=0.199  Sum_probs=57.5

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      .++.++++|+++..  .....+...+......+.+|.||.... +...+ .....+.+.+.+.++....+.+.+......
T Consensus       108 ~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~e~i~  187 (231)
T d1iqpa2         108 ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE  187 (231)
T ss_dssp             CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTTCE
T ss_pred             CCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhHHHHHHHHHHHhCCC
Confidence            46778999999743  334444444433344556666665443 33322 223578999999999999888877443322


Q ss_pred             ChhHHHHHHHHHHHcCCCc
Q 045618          171 PEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glP  189 (349)
                      .  ..+....|++.|+|-+
T Consensus       188 i--~~~~l~~I~~~~~gdi  204 (231)
T d1iqpa2         188 L--TEEGLQAILYIAEGDM  204 (231)
T ss_dssp             E--CHHHHHHHHHHHTTCH
T ss_pred             C--CHHHHHHHHHHcCCCH
Confidence            1  2345678888888754

>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=96.95  E-value=0.0013  Score=54.61  Aligned_cols=94  Identities=12%  Similarity=0.077  Sum_probs=61.2

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcchh-hccc-CcccEEEcCCCChHhHHHHHHHhhccCCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRRV-LDNF-GVGNIYKVNGLKYREALELFCNCAFKENHC  170 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~~-~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  170 (349)
                      ++.-++|||+++..  .....|+..+....+++.+|.+|.+..- ...+ .-...+.+++++.++-.+.+...+......
T Consensus       114 ~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~  193 (239)
T d1njfa_         114 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA  193 (239)
T ss_dssp             SSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccC
Confidence            35568999999864  3344555555444667778777766542 2222 234589999999999888887766332222


Q ss_pred             ChhHHHHHHHHHHHcCCCch
Q 045618          171 PEDLLVHSKRILDYANGNPL  190 (349)
Q Consensus       171 ~~~~~~~~~~i~~~c~glPL  190 (349)
                      .  ..+.+..|++.++|-+-
T Consensus       194 ~--~~~~l~~i~~~s~Gd~R  211 (239)
T d1njfa_         194 H--EPRALQLLARAAEGSLR  211 (239)
T ss_dssp             B--CHHHHHHHHHHTTTCHH
T ss_pred             C--CHHHHHHHHHHcCCCHH
Confidence            2  13456788888888774

>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=96.92  E-value=0.0016  Score=54.92  Aligned_cols=69  Identities=14%  Similarity=0.189  Sum_probs=47.7

Q ss_pred             CCCceEEEEecCCCc----------hhHHHHH-cccCCCCCCcEEEEEeCcchhhcccC-------cccEEEcCCCChHh
Q 045618           94 RRTKVLIVLDDVNKV----------GQLEYLI-GGLERFGPGSRIIVTTRDRRVLDNFG-------VGNIYKVNGLKYRE  155 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~----------~~~~~l~-~~~~~~~~~~~IlvTTR~~~~~~~~~-------~~~~~~l~~L~~~e  155 (349)
                      +..+.++++|+++..          .+...++ |.+.  ...-++|.||..+.......       --..+.+++++.++
T Consensus       108 ~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~~~~e~d~al~rrF~~I~V~Eps~e~  185 (268)
T d1r6bx2         108 QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEE  185 (268)
T ss_dssp             SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHCCCCCTTSSGGGEEEEECCCCCHHH
T ss_pred             ccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHHHHHhhcHHHHhhhcccccCCCCHHH
Confidence            456799999998642          2344444 5543  34568888888776544332       12489999999999


Q ss_pred             HHHHHHHhh
Q 045618          156 ALELFCNCA  164 (349)
Q Consensus       156 a~~L~~~~a  164 (349)
                      +..++....
T Consensus       186 t~~IL~~~~  194 (268)
T d1r6bx2         186 TVQIINGLK  194 (268)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999997654

>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=96.58  E-value=0.0064  Score=50.34  Aligned_cols=94  Identities=14%  Similarity=0.181  Sum_probs=51.8

Q ss_pred             HhCCCceEEEEecCCCc-----hhHHHHHcccCCCCCCcEEEEEeC--cchhhccc-CcccEEEcCCCChHhHHHHHHHh
Q 045618           92 RLRRTKVLIVLDDVNKV-----GQLEYLIGGLERFGPGSRIIVTTR--DRRVLDNF-GVGNIYKVNGLKYREALELFCNC  163 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~-----~~~~~l~~~~~~~~~~~~IlvTTR--~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~  163 (349)
                      ...++..++++|+++..     ..+..+......  ....+++|+.  .......+ .....+++.+++.++-...+...
T Consensus       119 ~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~--~~~~ii~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i  196 (253)
T d1sxja2         119 NLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTI  196 (253)
T ss_dssp             CSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             cccccceEEEeeeccccccchhhhhHHHhhhhcc--cccccccccccccccccccccceeeeeeccccchhHHHHHHHHH
Confidence            34457788999998632     223333322111  1223444432  22222222 23458999999999988888876


Q ss_pred             hccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          164 AFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       164 a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .-.......  ++...+|++.++|-.
T Consensus       197 ~~~e~i~i~--~~~l~~i~~~s~GDi  220 (253)
T d1sxja2         197 AIREKFKLD--PNVIDRLIQTTRGDI  220 (253)
T ss_dssp             HHHHTCCCC--TTHHHHHHHHTTTCH
T ss_pred             HHHhCCCCC--HHHHHHHHHhCCCcH
Confidence            532221111  134568888898855

>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=96.26  E-value=0.0051  Score=51.23  Aligned_cols=92  Identities=12%  Similarity=0.185  Sum_probs=53.2

Q ss_pred             CCCceEEEEecCCCc----------------hhHHHHHcccCCC--CCCcEEEEEeCcchhh-ccc----CcccEEEcCC
Q 045618           94 RRTKVLIVLDDVNKV----------------GQLEYLIGGLERF--GPGSRIIVTTRDRRVL-DNF----GVGNIYKVNG  150 (349)
Q Consensus        94 ~~~~~LlVlDdv~~~----------------~~~~~l~~~~~~~--~~~~~IlvTTR~~~~~-~~~----~~~~~~~l~~  150 (349)
                      ...+++|++||++..                ..+..|+..+...  ..+.-||-||..+... ..+    .....+++++
T Consensus        99 ~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~  178 (247)
T d1ixza_          99 RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDA  178 (247)
T ss_dssp             TSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCS
T ss_pred             HcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECC
Confidence            457899999998521                0123333222211  2233344477665432 222    2446899999


Q ss_pred             CChHhHHHHHHHhhccCC-CCChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKEN-HCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-.++|+....... .....    ...+++.+.|..
T Consensus       179 P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s  214 (247)
T d1ixza_         179 PDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  214 (247)
T ss_dssp             CCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             cCHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCC
Confidence            999999999998874433 22222    346777787764

>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=96.04  E-value=0.057  Score=44.68  Aligned_cols=144  Identities=13%  Similarity=0.093  Sum_probs=69.2

Q ss_pred             CCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH---HHHHHh
Q 045618           17 ATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE---YVRERL   93 (349)
Q Consensus        17 ~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~---~l~~~L   93 (349)
                      .||-|.|||++++............    ......+..+......+.......+.................   .+.+..
T Consensus        52 ~GppGtGKT~l~~~l~~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  127 (287)
T d1w5sa2          52 IGRVGIGKTTLAKFTVKRVSEAAAK----EGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNL  127 (287)
T ss_dssp             TTCCSSSHHHHHHHHHHHHHHHHHH----TTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHHhhccc----ccCCceeeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHH
Confidence            5888999999998655432110000    000111222344444455555556666553322222222222   333333


Q ss_pred             --CCCceEEEEecCCCc--------hhHHHH---Hc---ccCCCCCCcEEEEEeCcchhh------cc--cCcccEEEcC
Q 045618           94 --RRTKVLIVLDDVNKV--------GQLEYL---IG---GLERFGPGSRIIVTTRDRRVL------DN--FGVGNIYKVN  149 (349)
Q Consensus        94 --~~~~~LlVlDdv~~~--------~~~~~l---~~---~~~~~~~~~~IlvTTR~~~~~------~~--~~~~~~~~l~  149 (349)
                        .+...++++|.++..        +....+   ..   .......-..|++++......      ..  ......+.++
T Consensus       128 ~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~  207 (287)
T d1w5sa2         128 YVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLP  207 (287)
T ss_dssp             HHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECC
T ss_pred             HhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccceeEEeecccHHHHHHHHhhccchhcccceeeecc
Confidence              345678888887522        111111   11   111112223344444332111      01  1124578899


Q ss_pred             CCChHhHHHHHHHhh
Q 045618          150 GLKYREALELFCNCA  164 (349)
Q Consensus       150 ~L~~~ea~~L~~~~a  164 (349)
                      +++.++..+++...+
T Consensus       208 ~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         208 AYKSRELYTILEQRA  222 (287)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHhhhH
Confidence            999999999998765

>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=96.01  E-value=0.16  Score=41.38  Aligned_cols=140  Identities=14%  Similarity=0.051  Sum_probs=70.9

Q ss_pred             cCCCCCchhhHHHHHHhhhhcceeeccccccccccCcceeehhhhccHHHHHHHHHHHhhcccCCCCCCHHH---HHHHH
Q 045618           16 RATSCGIVKIRRCLMVFRLCSTECLSEALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPE---YVRER   92 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~~~~w~~~~~~f~~~~~~~~~~v~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~---~l~~~   92 (349)
                      .+||-|.|||++|+.......-   ...+      .+..+..........+...+..+..............   .+.+.
T Consensus        48 l~GppGtGKT~l~~~l~~~l~~---~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (276)
T d1fnna2          48 LLGRPGTGKTVTLRKLWELYKD---KTTA------RFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEH  118 (276)
T ss_dssp             EECCTTSSHHHHHHHHHHHHTT---SCCC------EEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHhc---ccCC------cEEEecchhhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHH
Confidence            5677899999999865443210   0000      1112222333355566666666653333333333333   33333


Q ss_pred             hC--CCceEEEEecCCCchh-----HHHHHccc-CCCCCCcEEEEEeCcchhhcccC-------cccEEEcCCCChHhHH
Q 045618           93 LR--RTKVLIVLDDVNKVGQ-----LEYLIGGL-ERFGPGSRIIVTTRDRRVLDNFG-------VGNIYKVNGLKYREAL  157 (349)
Q Consensus        93 L~--~~~~LlVlDdv~~~~~-----~~~l~~~~-~~~~~~~~IlvTTR~~~~~~~~~-------~~~~~~l~~L~~~ea~  157 (349)
                      +.  ......++|++++...     ...+.... ........+|.++........+.       ....+.+++++.++..
T Consensus       119 ~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~  198 (276)
T d1fnna2         119 LRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIF  198 (276)
T ss_dssp             HHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHH
T ss_pred             HhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhcchhhhhhhcchhccccchhHHHHH
Confidence            32  3566777888765322     12221111 11123445556665543322111       2246889999999999


Q ss_pred             HHHHHhh
Q 045618          158 ELFCNCA  164 (349)
Q Consensus       158 ~L~~~~a  164 (349)
                      +++.+.+
T Consensus       199 ~il~~r~  205 (276)
T d1fnna2         199 DILLDRA  205 (276)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988755

>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=95.98  E-value=0.0034  Score=50.06  Aligned_cols=64  Identities=9%  Similarity=0.063  Sum_probs=40.6

Q ss_pred             CCceEEEEecCCCc----------hhHHHHHcccCCCCCCcEEEEEeCcchhhcccC-------cccEEEcCCCChHhHH
Q 045618           95 RTKVLIVLDDVNKV----------GQLEYLIGGLERFGPGSRIIVTTRDRRVLDNFG-------VGNIYKVNGLKYREAL  157 (349)
Q Consensus        95 ~~~~LlVlDdv~~~----------~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~~~-------~~~~~~l~~L~~~ea~  157 (349)
                      ..+.+|++|+++..          +..+-|.|.+.  ...-++|.||..+.......       --..+.+++++.+++.
T Consensus       114 ~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~IgatT~eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~  191 (195)
T d1jbka_         114 EGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTI  191 (195)
T ss_dssp             TTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEECHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHH
T ss_pred             CCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEecCCHHHHHHHHHcCHHHHhcCCEeecCCCCHHHHH
Confidence            35799999999632          12344445543  24567888887666444322       2247899999998887


Q ss_pred             HHH
Q 045618          158 ELF  160 (349)
Q Consensus       158 ~L~  160 (349)
                      .++
T Consensus       192 ~IL  194 (195)
T d1jbka_         192 AIL  194 (195)
T ss_dssp             TTC
T ss_pred             HHh
Confidence            654

>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=95.92  E-value=0.022  Score=47.51  Aligned_cols=96  Identities=11%  Similarity=0.174  Sum_probs=57.5

Q ss_pred             HHhCCCceEEEEecCCCch-------------hHHHHHccc--CCCCCCcEEEEEeCcchhhcc-c----CcccEEEcCC
Q 045618           91 ERLRRTKVLIVLDDVNKVG-------------QLEYLIGGL--ERFGPGSRIIVTTRDRRVLDN-F----GVGNIYKVNG  150 (349)
Q Consensus        91 ~~L~~~~~LlVlDdv~~~~-------------~~~~l~~~~--~~~~~~~~IlvTTR~~~~~~~-~----~~~~~~~l~~  150 (349)
                      ..-...+++|++||++...             ....+....  .....+.-||.||..+..... +    .....++++.
T Consensus        92 ~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~  171 (258)
T d1e32a2          92 EAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGI  171 (258)
T ss_dssp             HHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCC
T ss_pred             HHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcccccceeECCC
Confidence            3344678999999997421             122222211  122334556668877754322 1    2456899999


Q ss_pred             CChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          151 LKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       151 L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      .+.++-..+|.....+... ...  .....|++.+.|+-
T Consensus       172 P~~~~R~~il~~~l~~~~~-~~~--~~~~~la~~t~G~s  207 (258)
T d1e32a2         172 PDATGRLEILQIHTKNMKL-ADD--VDLEQVANETHGHV  207 (258)
T ss_dssp             CCHHHHHHHHHHTTTTSCB-CTT--CCHHHHHHHCTTCC
T ss_pred             CCHHHHHHHhhhhccCccc-ccc--cchhhhhhcccCCC
Confidence            9999999999887633221 111  11457888898864

>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=95.87  E-value=0.015  Score=48.49  Aligned_cols=94  Identities=16%  Similarity=0.145  Sum_probs=55.7

Q ss_pred             HhCCCceEEEEecCCCc------------h----hHHHHHcccC--CCCCCcEEEEEeCcchhhc-cc----CcccEEEc
Q 045618           92 RLRRTKVLIVLDDVNKV------------G----QLEYLIGGLE--RFGPGSRIIVTTRDRRVLD-NF----GVGNIYKV  148 (349)
Q Consensus        92 ~L~~~~~LlVlDdv~~~------------~----~~~~l~~~~~--~~~~~~~IlvTTR~~~~~~-~~----~~~~~~~l  148 (349)
                      .-...+++|++||++..            .    .+..|+..+.  ....+.-||.||..+.... .+    .....+.+
T Consensus       100 A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i  179 (256)
T d1lv7a_         100 AKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVV  179 (256)
T ss_dssp             HHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEEC
T ss_pred             HHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCCCCCEEEEC
Confidence            33457789999999521            1    1233333222  1233455666887765432 22    24568999


Q ss_pred             CCCChHhHHHHHHHhhccCCC-CChhHHHHHHHHHHHcCCCc
Q 045618          149 NGLKYREALELFCNCAFKENH-CPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       149 ~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~c~glP  189 (349)
                      ++.+.++-.++|+....+... ....    ...+++.+.|..
T Consensus       180 ~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s  217 (256)
T d1lv7a_         180 GLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFS  217 (256)
T ss_dssp             CCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCC
Confidence            999999999999887743332 2222    346777788764

>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=95.50  E-value=0.017  Score=48.42  Aligned_cols=94  Identities=10%  Similarity=0.156  Sum_probs=54.1

Q ss_pred             hCCCceEEEEecCCCch----------------hHHHHHcccCC--CCCCcEEEEEeCcchhh-ccc----CcccEEEcC
Q 045618           93 LRRTKVLIVLDDVNKVG----------------QLEYLIGGLER--FGPGSRIIVTTRDRRVL-DNF----GVGNIYKVN  149 (349)
Q Consensus        93 L~~~~~LlVlDdv~~~~----------------~~~~l~~~~~~--~~~~~~IlvTTR~~~~~-~~~----~~~~~~~l~  149 (349)
                      -...+++|+|||++...                ....++..+..  ..++..||.||..++.. ..+    .....++++
T Consensus        97 ~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~  176 (265)
T d1r7ra3          97 RQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP  176 (265)
T ss_dssp             HHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECC
T ss_pred             HhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEec
Confidence            34578999999996321                12334433321  12345677777766533 222    234689999


Q ss_pred             CCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCc
Q 045618          150 GLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNP  189 (349)
Q Consensus       150 ~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glP  189 (349)
                      +.+.++-.++|+.......... +  .....|++.+.|..
T Consensus       177 ~p~~~~R~~il~~~l~~~~~~~-~--~~l~~la~~t~g~s  213 (265)
T d1r7ra3         177 LPDEKSRVAILKANLRKSPVAK-D--VDLEFLAKMTNGFS  213 (265)
T ss_dssp             CCCCHHHHHHHHHHTTCC-----C--CCCHHHHHHHCSSC
T ss_pred             chHHHHHHHHHHHHhccCCchh-h--hhHHHHHhcCCCCC
Confidence            9999999999987663221111 0  11356777887765

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.26  E-value=0.088  Score=42.23  Aligned_cols=71  Identities=14%  Similarity=0.150  Sum_probs=41.7

Q ss_pred             CceEEEEecCCCc---hhHHHHH-cccC-CCCCCcEEEEEeCcchhhc---------ccCcccEEEcCCCChHhHHHHHH
Q 045618           96 TKVLIVLDDVNKV---GQLEYLI-GGLE-RFGPGSRIIVTTRDRRVLD---------NFGVGNIYKVNGLKYREALELFC  161 (349)
Q Consensus        96 ~~~LlVlDdv~~~---~~~~~l~-~~~~-~~~~~~~IlvTTR~~~~~~---------~~~~~~~~~l~~L~~~ea~~L~~  161 (349)
                      .--+|++||++..   ..|+..+ ..+. ....|.+||+||+......         .+.....+.++ ++.++-.++++
T Consensus        97 ~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~  175 (213)
T d1l8qa2          97 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIK  175 (213)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHH
T ss_pred             hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHH
Confidence            3568999999743   3343321 1111 1135788999998764211         12244577785 47777777887


Q ss_pred             HhhccC
Q 045618          162 NCAFKE  167 (349)
Q Consensus       162 ~~a~~~  167 (349)
                      +.+-..
T Consensus       176 ~~a~~r  181 (213)
T d1l8qa2         176 EKLKEF  181 (213)
T ss_dssp             HHHHHT
T ss_pred             HHHHHc
Confidence            777433

>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=94.94  E-value=0.07  Score=43.91  Aligned_cols=18  Identities=6%  Similarity=-0.249  Sum_probs=13.8

Q ss_pred             cCCCCCchhhHHHHHHhh
Q 045618           16 RATSCGIVKIRRCLMVFR   33 (349)
Q Consensus        16 ~~~~gGiGKT~la~~~f~   33 (349)
                      ..||-|.|||++|+....
T Consensus        45 L~GppGtGKT~la~alA~   62 (246)
T d1d2na_          45 LEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHhh
Confidence            456679999999985543

>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=94.89  E-value=0.21  Score=40.26  Aligned_cols=49  Identities=10%  Similarity=-0.147  Sum_probs=35.0

Q ss_pred             cccEEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHH
Q 045618          142 VGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       142 ~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      ....+.+.+.+.++..+++.+.+.......  ..+....|++.+.|.+-..
T Consensus       156 ~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~--~~~~l~~ia~~s~gd~R~a  204 (239)
T d1ixsb2         156 FGIVEHLEYYTPEELAQGVMRDARLLGVRI--TEEAALEIGRRSRGTMRVA  204 (239)
T ss_dssp             CSEEEECCCCCHHHHHHHHHHHHGGGCCCB--CHHHHHHHHHHTTSSHHHH
T ss_pred             cceeeEeeccChhhhhHHHHHHHHHhCCcc--chHHHHHHHHHcCCCHHHH
Confidence            456788999999999888887764433222  2456789999999976544

>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=94.32  E-value=0.43  Score=38.21  Aligned_cols=67  Identities=15%  Similarity=0.098  Sum_probs=41.5

Q ss_pred             CcEEEEEeCcch-hhccc--CcccEEEcCCCChHhHHHHHHHhhccCCCCChhHHHHHHHHHHHcCCCchHH
Q 045618          124 GSRIIVTTRDRR-VLDNF--GVGNIYKVNGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAV  192 (349)
Q Consensus       124 ~~~IlvTTR~~~-~~~~~--~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~c~glPLAl  192 (349)
                      ...+|.+|.+.. .....  .....+.+++.+.++-..++...+........  ......+++.++|-+-.+
T Consensus       134 ~~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~l~~i~~~s~gd~R~a  203 (238)
T d1in4a2         134 PFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIE--DAAAEMIAKRSRGTPRIA  203 (238)
T ss_dssp             CCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBC--HHHHHHHHHTSTTCHHHH
T ss_pred             CeEEEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhh--HHHHHHHHHhCCCCHHHH
Confidence            445555555543 22221  23456789999999999999887744433222  345678888888876544

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.11  E-value=0.05  Score=48.03  Aligned_cols=67  Identities=15%  Similarity=0.093  Sum_probs=39.3

Q ss_pred             CceEEEEecCCCc----------hhHHHHHcccCCCCCCcEEEEEeCcchhhcc------cCcccEEEcCCCChHhHHHH
Q 045618           96 TKVLIVLDDVNKV----------GQLEYLIGGLERFGPGSRIIVTTRDRRVLDN------FGVGNIYKVNGLKYREALEL  159 (349)
Q Consensus        96 ~~~LlVlDdv~~~----------~~~~~l~~~~~~~~~~~~IlvTTR~~~~~~~------~~~~~~~~l~~L~~~ea~~L  159 (349)
                      .+++|++|+++..          +...-|.|.+.  ...-++|-+|........      ..--+.+.+++++.+++..+
T Consensus       115 ~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~tT~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~i  192 (387)
T d1qvra2         115 GEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATTLDEYREIEKDPALERRFQPVYVDEPTVEETISI  192 (387)
T ss_dssp             SSEEEEECCC-------------------HHHHH--TTCCCEEEEECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHH
T ss_pred             CceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeecCHHHHHHhcccHHHHHhcccccCCCCcHHHHHHH
Confidence            4799999999743          11233444443  234567777765544221      11234799999999999999


Q ss_pred             HHHhh
Q 045618          160 FCNCA  164 (349)
Q Consensus       160 ~~~~a  164 (349)
                      +....
T Consensus       193 l~~~~  197 (387)
T d1qvra2         193 LRGLK  197 (387)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98655

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.58  E-value=0.51  Score=36.99  Aligned_cols=57  Identities=18%  Similarity=0.157  Sum_probs=35.0

Q ss_pred             CCceEEEEecCCCc--hhHHHHHcccCCCCCCcEEEEEeCcch-hhcccC-cccEEEcCCC
Q 045618           95 RTKVLIVLDDVNKV--GQLEYLIGGLERFGPGSRIIVTTRDRR-VLDNFG-VGNIYKVNGL  151 (349)
Q Consensus        95 ~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~~IlvTTR~~~-~~~~~~-~~~~~~l~~L  151 (349)
                      +++-++|+|+++..  +....|+..+.....++.+|++|.+.. +...+. -...+.+++.
T Consensus        78 ~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p  138 (198)
T d2gnoa2          78 YTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP  138 (198)
T ss_dssp             SSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             CCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCc
Confidence            45558999999854  456677766655556777777766654 433332 2345666543

>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator IclR, N-terminal domain
domain: Transcriptional regulator IclR, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=81.18  E-value=4.1  Score=25.92  Aligned_cols=61  Identities=20%  Similarity=0.041  Sum_probs=48.9

Q ss_pred             HHhcccCCCCCHHHHHHHhccc-ccHHHhHHHHhhCcceEEcCCCeEEecHHHHHHHHHHHh
Q 045618          242 LDIACFFNGQDKDSVLKMIGDS-SFAHYGLNVLVDKSLVTVSRGNQLQMHDLLQEMGREIVR  302 (349)
Q Consensus       242 ~~la~fp~~~~~~~l~~~~~~~-~~~~~~l~~L~~~sLl~~~~~~~~~mH~lv~~~a~~~~~  302 (349)
                      -.++--+++.+...+....... -.....+..|.+.++++..++++|++=+=+-+++...++
T Consensus        12 ~~~a~~~~~~s~~eia~~~~~~~st~~rll~tL~~~g~l~~~~~g~y~lG~~l~~lg~~~l~   73 (75)
T d1mkma1          12 DFIVKNPGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFVLRKKDKRYVPGYKLIEYGSFVLR   73 (75)
T ss_dssp             HHHHHCSSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECTTSCEEECTHHHHHHHHHHH
T ss_pred             HHHHhCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEECCCCCEeecHHHHHHHHHHHh
Confidence            3344445568888888888777 778889999999999999878899999988888876654