Psyllid ID: psy6208

---

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-------
Protein Sequence
MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK
Secondary Structure (PSIPRED)
cEEcccccccHHHHHHHHHHHHHcccccccccEEEEEEcccEEEEEEEEEcccccEEEccccEEEEccccccHHHHHHHcccccccccccHHHHHHHHHHHHHcccccHHHHHHcccccccEEEEEcccccHHHHHHHHHHHHcccEEEEEEcHHHHHHcccccHHHHHHHHHHHHHccccEEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
ccccEcccccHHHHHHHHHHHHHHccccccccEEEEEccccEEEEEEEEEccccEEEEccccEEEEEccccccEEEEEEcccccHcccccHHHHHHHHHHHHccccccHHHHHHHccccccEEEEEcccccHHHHHHHHHHHHcccEEEEEccHHHHHHHHcccHHHHHHHHHHHHHcccEEEEEccHHHHcccccc
Coil and Loop (DISEMBL)
mklvpegemsNLFEVYLkpyfleayrpvhkddlfivrggmravefkivdtdpapycivaadtvihcegdpikreeeeeasnavgyddiggCRKQLAQIKEMVelplrhpslfkaigvkpprgillygppgtgkTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEeadknspsiifideldaiapkrek
Flexible Loop (DISEMBL)
mklvpegemSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEeeasnavgyddigGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEeadknspsiifideldaiapkrek
Low Complexity Region (SEG)
MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK
Disordered region (IsUnstruct)
**********NLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCE***************VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM************************IIFIDE**********
Disordered Region (DISOPRED)
MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCE***************VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK***
Disordered Region (DISEMBL)
MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKR********AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK
Disordered Region (DISPRO)
MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	197	2.2.26 [Sep-21-2011]
Q6GL04	805	Transitional endoplasmic	yes	N/A	0.974	0.238	0.890	3e-99
P23787	805	Transitional endoplasmic	N/A	N/A	0.974	0.238	0.890	5e-99
Q3ZBT1	806	Transitional endoplasmic	yes	N/A	0.974	0.238	0.890	6e-99
P46462	806	Transitional endoplasmic	yes	N/A	0.974	0.238	0.890	6e-99
Q01853	806	Transitional endoplasmic	yes	N/A	0.974	0.238	0.890	6e-99
P55072	806	Transitional endoplasmic	yes	N/A	0.974	0.238	0.890	6e-99
P03974	806	Transitional endoplasmic	yes	N/A	0.974	0.238	0.890	6e-99
Q7ZU99	806	Transitional endoplasmic	no	N/A	0.969	0.236	0.885	7e-98
Q7KN62	801	Transitional endoplasmic	yes	N/A	0.969	0.238	0.864	2e-95
P54811	809	Transitional endoplasmic	yes	N/A	0.969	0.236	0.791	9e-90

>sp|Q6GL04|TERA_XENTR Transitional endoplasmic reticulum ATPase OS=Xenopus tropicalis GN=vcp PE=2 SV=1

 Score =  360 bits (924), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the nuclear envelope and of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process.
Xenopus tropicalis (taxid: 8364)

>sp|P23787|TERA_XENLA Transitional endoplasmic reticulum ATPase OS=Xenopus laevis GN=vcp PE=1 SV=3

 Score =  359 bits (922), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process.

Xenopus laevis (taxid: 8355)

>sp|Q3ZBT1|TERA_BOVIN Transitional endoplasmic reticulum ATPase OS=Bos taurus GN=VCP PE=2 SV=1

 Score =  359 bits (922), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Bos taurus (taxid: 9913)

>sp|P46462|TERA_RAT Transitional endoplasmic reticulum ATPase OS=Rattus norvegicus GN=Vcp PE=1 SV=3

 Score =  359 bits (922), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Rattus norvegicus (taxid: 10116)

>sp|Q01853|TERA_MOUSE Transitional endoplasmic reticulum ATPase OS=Mus musculus GN=Vcp PE=1 SV=4

 Score =  359 bits (922), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Mus musculus (taxid: 10090)

>sp|P55072|TERA_HUMAN Transitional endoplasmic reticulum ATPase OS=Homo sapiens GN=VCP PE=1 SV=4

 Score =  359 bits (922), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Homo sapiens (taxid: 9606)

>sp|P03974|TERA_PIG Transitional endoplasmic reticulum ATPase OS=Sus scrofa GN=VCP PE=1 SV=5

 Score =  359 bits (922), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Sus scrofa (taxid: 9823)

>sp|Q7ZU99|TERA_DANRE Transitional endoplasmic reticulum ATPase OS=Danio rerio GN=vcp PE=1 SV=1

 Score =  356 bits (913), Expect = 7e-98,   Method: Compositional matrix adjust.
 Identities = 170/192 (88%), Positives = 183/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGG RKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGVRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process (By similarity). Enhances cell cycle progression and inhibits apoptosis at low temperatures.

Danio rerio (taxid: 7955)

>sp|Q7KN62|TERA_DROME Transitional endoplasmic reticulum ATPase TER94 OS=Drosophila melanogaster GN=TER94 PE=1 SV=1

 Score =  347 bits (891), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 166/192 (86%), Positives = 178/192 (92%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFE+YLKPYFLEAYRP+H  D FIVR  MR +EFK+V TDP PYCIVA +TVI 
Sbjct: 121 EGVTGNLFEIYLKPYFLEAYRPIHMGDNFIVRAAMRPIEFKVVLTDPEPYCIVAPETVIF 180

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           C+GDPIKREEEEE+ NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGIL+
Sbjct: 181 CDGDPIKREEEEESLNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILM 240

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KNSP+IIFI
Sbjct: 241 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNSPAIIFI 300

Query: 186 DELDAIAPKREK 197
           DE+DAIAPKR+K
Sbjct: 301 DEIDAIAPKRDK 312

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process (By similarity). Involved in the ubiquitin-proteasome system. Important for oskar mRNA localization and/or anchoring during oogenesis.

Drosophila melanogaster (taxid: 7227)

>sp|P54811|TERA1_CAEEL Transitional endoplasmic reticulum ATPase homolog 1 OS=Caenorhabditis elegans GN=cdc-48.1 PE=1 SV=1

 Score =  328 bits (842), Expect = 9e-90,   Method: Compositional matrix adjust.
 Identities = 152/192 (79%), Positives = 175/192 (91%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLF+V+LKPYFLEAYRP+HK D+F V+  MR VEFK+V+T+PAP CIV+ DT+IH
Sbjct: 130 EGLTGNLFDVFLKPYFLEAYRPLHKGDIFTVQAAMRTVEFKVVETEPAPACIVSPDTMIH 189

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
            EGDPIKREEEEE+ N +GYDD+GG RKQLAQIKEMVELPLRHP LFKAIG+KPPRGILL
Sbjct: 190 YEGDPIKREEEEESMNDIGYDDLGGVRKQLAQIKEMVELPLRHPQLFKAIGIKPPRGILL 249

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           +GPPGTGKTLIARAVANETG+FFFLINGPE+MSK++GESESNLRKAFEE +KN P+I+FI
Sbjct: 250 FGPPGTGKTLIARAVANETGSFFFLINGPEVMSKMSGESESNLRKAFEECEKNQPAILFI 309

Query: 186 DELDAIAPKREK 197
           DE+DAIAPKREK
Sbjct: 310 DEIDAIAPKREK 321

Caenorhabditis elegans (taxid: 6239)

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	197
193617621	804	PREDICTED: transitional endoplasmic reti	0.974	0.238	0.932	1e-102
91086235	803	PREDICTED: similar to transitional endop	0.969	0.237	0.927	1e-100
242008814	804	conserved hypothetical protein [Pediculu	0.969	0.237	0.927	1e-100
344251788	2171	Transitional endoplasmic reticulum ATPas	0.974	0.088	0.890	1e-99
307211146	796	Transitional endoplasmic reticulum ATPas	0.974	0.241	0.921	2e-99
322801676	793	hypothetical protein SINV_06607 [Solenop	0.974	0.242	0.921	2e-99
170036949	797	spermatogenesis associated factor [Culex	0.969	0.239	0.911	2e-99
332031336	832	Transitional endoplasmic reticulum ATPas	0.974	0.230	0.921	2e-99
345486620	801	PREDICTED: transitional endoplasmic reti	0.974	0.239	0.916	2e-99
307174120	801	Transitional endoplasmic reticulum ATPas	0.974	0.239	0.916	5e-99

>gi|193617621|ref|XP_001949588.1| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like [Acyrthosiphon pisum]

 Score =  375 bits (963), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/192 (93%), Positives = 186/192 (96%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEV+LKPYFLEAYRP+HKDD FIVRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 122 EGLTGNLFEVFLKPYFLEAYRPIHKDDNFIVRGGMRAVEFKVVETDPSPYCIVAYDTVIH 181

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEGDPIKREEEEEASN VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 182 CEGDPIKREEEEEASNTVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 241

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAD+NSP+IIFI
Sbjct: 242 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADRNSPAIIFI 301

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 302 DELDAIAPKREK 313

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91086235|ref|XP_966692.1| PREDICTED: similar to transitional endoplasmic reticulum ATPase TER94 isoform 1 [Tribolium castaneum] gi|270011017|gb|EFA07465.1| transitional endoplasmic reticulum ATPase TER94 [Tribolium castaneum]

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 178/192 (92%), Positives = 187/192 (97%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG + NLFEVYLKPYFLEAYRP+HK D+FIVRGGMRAVEFK+V+T+P+PYCIVA DTVIH
Sbjct: 122 EGLVGNLFEVYLKPYFLEAYRPIHKGDVFIVRGGMRAVEFKVVETEPSPYCIVAPDTVIH 181

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           C+GDPIKREEEEEA NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 182 CDGDPIKREEEEEALNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 241

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSP+IIFI
Sbjct: 242 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPAIIFI 301

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 302 DELDAIAPKREK 313

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242008814|ref|XP_002425193.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212508909|gb|EEB12455.1| conserved hypothetical protein [Pediculus humanus corporis]

 Score =  369 bits (948), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 178/192 (92%), Positives = 185/192 (96%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEV+LKPYFLEAYRP+HK+D+FIVRG MRAVEFK+V+TDP PYCIVA DTVIH
Sbjct: 122 EGLTGNLFEVFLKPYFLEAYRPIHKNDVFIVRGKMRAVEFKVVETDPQPYCIVAPDTVIH 181

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
            EGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 182 SEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 241

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSP+IIFI
Sbjct: 242 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPAIIFI 301

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 302 DELDAIAPKREK 313

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|344251788|gb|EGW07892.1| Transitional endoplasmic reticulum ATPase [Cricetulus griseus]

 Score =  367 bits (943), Expect = 1e-99,   Method: Composition-based stats.
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query: 6    EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
            EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 1467 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 1526

Query: 66   CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
            CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 1527 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 1586

Query: 126  YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
            YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 1587 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 1646

Query: 186  DELDAIAPKREK 197
            DELDAIAPKREK
Sbjct: 1647 DELDAIAPKREK 1658

Source: Cricetulus griseus

Species: Cricetulus griseus

Genus: Cricetulus

Family: Cricetidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|307211146|gb|EFN87364.1| Transitional endoplasmic reticulum ATPase TER94 [Harpegnathos saltator]

 Score =  367 bits (942), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 177/192 (92%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           +G   NLFEVYLKPYFLEAYRP+HKDD FIVRGGMRAVEFK+V+TDP P+CIVA DTVIH
Sbjct: 122 DGLTGNLFEVYLKPYFLEAYRPIHKDDNFIVRGGMRAVEFKVVETDPGPFCIVAPDTVIH 181

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEGDPIKREEEEEA NAVGYDDIGG RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 182 CEGDPIKREEEEEALNAVGYDDIGGVRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 241

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KNSP+IIFI
Sbjct: 242 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNSPAIIFI 301

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 302 DELDAIAPKREK 313

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322801676|gb|EFZ22299.1| hypothetical protein SINV_06607 [Solenopsis invicta]

 Score =  367 bits (941), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 177/192 (92%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           +G   NLFEVYLKPYFLEAYRP+HKDD FIVRGGMRAVEFK+V+TDP P+CIVA DTVIH
Sbjct: 114 DGLTGNLFEVYLKPYFLEAYRPIHKDDNFIVRGGMRAVEFKVVETDPGPFCIVAPDTVIH 173

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEGDPIKREEEEEA NAVGYDDIGG RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 174 CEGDPIKREEEEEALNAVGYDDIGGVRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 233

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KNSP+IIFI
Sbjct: 234 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNSPAIIFI 293

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 294 DELDAIAPKREK 305

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170036949|ref|XP_001846323.1| spermatogenesis associated factor [Culex quinquefasciatus] gi|167879951|gb|EDS43334.1| spermatogenesis associated factor [Culex quinquefasciatus]

 Score =  367 bits (941), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 175/192 (91%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLF+VYLKPYFLEAYRP+HKDD FIVRGGMRAVEFK+V  DP+P+CIVA DTVIH
Sbjct: 115 EGLTGNLFDVYLKPYFLEAYRPIHKDDTFIVRGGMRAVEFKVVGADPSPFCIVAPDTVIH 174

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEGDPIKREEEEEA NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGIL+
Sbjct: 175 CEGDPIKREEEEEALNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILM 234

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KNSP+IIFI
Sbjct: 235 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNSPAIIFI 294

Query: 186 DELDAIAPKREK 197
           DE+DAIAPKREK
Sbjct: 295 DEIDAIAPKREK 306

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332031336|gb|EGI70849.1| Transitional endoplasmic reticulum ATPase TER94 [Acromyrmex echinatior]

 Score =  367 bits (941), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 177/192 (92%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           +G   NLFEVYLKPYFLEAYRP+HKDD FIVRGGMRAVEFK+V+TDP P+CIVA DTVIH
Sbjct: 153 DGLAGNLFEVYLKPYFLEAYRPIHKDDNFIVRGGMRAVEFKVVETDPGPFCIVAPDTVIH 212

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEGDPIKREEEEEA NAVGYDDIGG RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 213 CEGDPIKREEEEEALNAVGYDDIGGVRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 272

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KNSP+IIFI
Sbjct: 273 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNSPAIIFI 332

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 333 DELDAIAPKREK 344

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345486620|ref|XP_001605497.2| PREDICTED: transitional endoplasmic reticulum ATPase TER94-like [Nasonia vitripennis]

 Score =  366 bits (940), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 176/192 (91%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+HKDD FIVRGGMRAVEFK+V+TDP P+CIVA +TVIH
Sbjct: 122 EGLTGNLFEVYLKPYFLEAYRPIHKDDTFIVRGGMRAVEFKVVETDPGPFCIVAPETVIH 181

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEGDP+KREEEEEA NAVGYDDIGG RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 182 CEGDPVKREEEEEALNAVGYDDIGGVRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 241

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KNSP+IIFI
Sbjct: 242 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNSPAIIFI 301

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 302 DELDAIAPKREK 313

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307174120|gb|EFN64778.1| Transitional endoplasmic reticulum ATPase TER94 [Camponotus floridanus]

 Score =  365 bits (938), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 176/192 (91%), Positives = 184/192 (95%)

Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           +G   NLFEV+LKPYFLEAYRP+HKDD FIVRGGMRAVEFK+V+TDP P+CIVA DTVIH
Sbjct: 122 DGLTGNLFEVFLKPYFLEAYRPIHKDDNFIVRGGMRAVEFKVVETDPGPFCIVAPDTVIH 181

Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEGDPIKREEEEEA NAVGYDDIGG RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL
Sbjct: 182 CEGDPIKREEEEEALNAVGYDDIGGVRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 241

Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KNSP+IIFI
Sbjct: 242 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNSPAIIFI 301

Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 302 DELDAIAPKREK 313

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	197
UNIPROTKB|G3X757	806	VCP "Transitional endoplasmic	0.974	0.238	0.890	2.7e-91
UNIPROTKB|Q3ZBT1	806	VCP "Transitional endoplasmic	0.974	0.238	0.890	2.7e-91
UNIPROTKB|E2RLQ9	822	VCP "Uncharacterized protein"	0.974	0.233	0.890	2.7e-91
UNIPROTKB|P55072	806	VCP "Transitional endoplasmic	0.974	0.238	0.890	2.7e-91
UNIPROTKB|F1SIH8	808	VCP "Transitional endoplasmic	0.974	0.237	0.890	2.7e-91
UNIPROTKB|P23787	805	vcp "Transitional endoplasmic	0.974	0.238	0.890	2.7e-91
UNIPROTKB|Q6GL04	805	vcp "Transitional endoplasmic	0.974	0.238	0.890	2.7e-91
MGI|MGI:99919	806	Vcp "valosin containing protei	0.974	0.238	0.890	2.7e-91
RGD|621595	806	Vcp "valosin-containing protei	0.974	0.238	0.890	2.7e-91
UNIPROTKB|P03974	806	VCP "Transitional endoplasmic	0.974	0.238	0.890	2.7e-91

UNIPROTKB|G3X757 VCP "Transitional endoplasmic reticulum ATPase" [Bos taurus (taxid:9913)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0070842 "aggresome assembly" evidence=IEA

GO:0045732 "positive regulation of protein catabolic process" evidence=IEA

GO:0035861 "site of double-strand break" evidence=IEA

GO:0031593 "polyubiquitin binding" evidence=IEA

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=IEA

GO:0019904 "protein domain specific binding" evidence=IEA

GO:0019903 "protein phosphatase binding" evidence=IEA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=IEA

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q3ZBT1 VCP "Transitional endoplasmic reticulum ATPase" [Bos taurus (taxid:9913)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0019985 "translesion synthesis" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0006974 "response to DNA damage stimulus" evidence=ISS

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

GO:0035861 "site of double-strand break" evidence=ISS

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0005829 "cytosol" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008289 "lipid binding" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|E2RLQ9 VCP "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   140 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 199

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   200 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 259

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   260 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 319

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   320 DELDAIAPKREK 331

GO:0070842 "aggresome assembly" evidence=IEA

GO:0045732 "positive regulation of protein catabolic process" evidence=IEA

GO:0035861 "site of double-strand break" evidence=IEA

GO:0031593 "polyubiquitin binding" evidence=IEA

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=IEA

GO:0019904 "protein domain specific binding" evidence=IEA

GO:0019903 "protein phosphatase binding" evidence=IEA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=IEA

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|P55072 VCP "Transitional endoplasmic reticulum ATPase" [Homo sapiens (taxid:9606)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0008289 "lipid binding" evidence=IEA

GO:0005102 "receptor binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0070842 "aggresome assembly" evidence=IEA

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISS

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=ISS

GO:0006281 "DNA repair" evidence=NAS

GO:0006974 "response to DNA damage stimulus" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA;TAS

GO:0005829 "cytosol" evidence=IDA

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

GO:0019904 "protein domain specific binding" evidence=IPI

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=NAS

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=IDA

GO:0030433 "ER-associated protein catabolic process" evidence=IMP;TAS

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=TAS

GO:0016887 "ATPase activity" evidence=TAS

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA;NAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0045184 "establishment of protein localization" evidence=TAS

GO:0019985 "translesion synthesis" evidence=IMP

GO:0035861 "site of double-strand break" evidence=IDA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=IMP

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

GO:0019903 "protein phosphatase binding" evidence=IPI

GO:0045732 "positive regulation of protein catabolic process" evidence=IDA

GO:0031334 "positive regulation of protein complex assembly" evidence=IDA

GO:0031593 "polyubiquitin binding" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F1SIH8 VCP "Transitional endoplasmic reticulum ATPase" [Sus scrofa (taxid:9823)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|P23787 vcp "Transitional endoplasmic reticulum ATPase" [Xenopus laevis (taxid:8355)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0000785 "chromatin" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0006200 "ATP catabolic process" evidence=IDA

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

GO:0006974 "response to DNA damage stimulus" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0016887 "ATPase activity" evidence=IDA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0019985 "translesion synthesis" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0032403 "protein complex binding" evidence=IPI

GO:0034214 "protein hexamerization" evidence=IDA

GO:0035861 "site of double-strand break" evidence=ISS

GO:0035101 "FACT complex" evidence=IPI

UNIPROTKB|Q6GL04 vcp "Transitional endoplasmic reticulum ATPase" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0000785 "chromatin" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

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

GO:0006974 "response to DNA damage stimulus" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0019985 "translesion synthesis" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0032403 "protein complex binding" evidence=ISS

GO:0034214 "protein hexamerization" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

GO:0035101 "FACT complex" evidence=ISS

MGI|MGI:99919 Vcp "valosin containing protein" [Mus musculus (taxid:10090)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000502 "proteasome complex" evidence=ISO

GO:0005102 "receptor binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005524 "ATP binding" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=ISO

GO:0005829 "cytosol" evidence=ISO

GO:0006200 "ATP catabolic process" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

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

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IGI

GO:0006810 "transport" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=ISO

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IDA

GO:0006974 "response to DNA damage stimulus" evidence=ISO

GO:0008289 "lipid binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0016887 "ATPase activity" evidence=ISO

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

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISO

GO:0019903 "protein phosphatase binding" evidence=ISO

GO:0019904 "protein domain specific binding" evidence=ISO

GO:0019985 "translesion synthesis" evidence=ISO

GO:0030433 "ER-associated protein catabolic process" evidence=ISO

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=ISO

GO:0031334 "positive regulation of protein complex assembly" evidence=ISO

GO:0031593 "polyubiquitin binding" evidence=ISO;IDA

GO:0032403 "protein complex binding" evidence=ISO

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0035861 "site of double-strand break" evidence=ISO

GO:0042802 "identical protein binding" evidence=ISO

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISO

GO:0043234 "protein complex" evidence=IPI

GO:0043531 "ADP binding" evidence=ISO

GO:0045732 "positive regulation of protein catabolic process" evidence=ISO

GO:0051260 "protein homooligomerization" evidence=ISO

GO:0070842 "aggresome assembly" evidence=IGI

RGD|621595 Vcp "valosin-containing protein" [Rattus norvegicus (taxid:10116)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0000502 "proteasome complex" evidence=IEA;ISO

GO:0005102 "receptor binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005524 "ATP binding" evidence=IDA;IMP

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005783 "endoplasmic reticulum" evidence=ISO;IDA

GO:0005829 "cytosol" evidence=ISO;IDA

GO:0006200 "ATP catabolic process" evidence=IDA

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

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IEA;ISO

GO:0006974 "response to DNA damage stimulus" evidence=ISO;ISS

GO:0008289 "lipid binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=ISO;ISS

GO:0016887 "ATPase activity" evidence=IDA

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISO;ISS

GO:0019903 "protein phosphatase binding" evidence=IEA;ISO

GO:0019904 "protein domain specific binding" evidence=IEA;ISO

GO:0019985 "translesion synthesis" evidence=ISO;ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISO;ISS

GO:0030970 "retrograde protein transport, ER to cytosol" evidence=IEA;ISO

GO:0031334 "positive regulation of protein complex assembly" evidence=IEA;ISO

GO:0031593 "polyubiquitin binding" evidence=IEA;ISO

GO:0032403 "protein complex binding" evidence=IPI

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO;IMP

GO:0035861 "site of double-strand break" evidence=ISO;ISS

GO:0042802 "identical protein binding" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0043234 "protein complex" evidence=ISO

GO:0043531 "ADP binding" evidence=IMP

GO:0045732 "positive regulation of protein catabolic process" evidence=ISO

GO:0051260 "protein homooligomerization" evidence=IDA

GO:0070842 "aggresome assembly" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|P03974 VCP "Transitional endoplasmic reticulum ATPase" [Sus scrofa (taxid:9823)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 171/192 (89%), Positives = 184/192 (95%)

Query:     6 EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct:   124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183

Query:    66 CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
             CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct:   184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243

Query:   126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
             YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct:   244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303

Query:   186 DELDAIAPKREK 197
             DELDAIAPKREK
Sbjct:   304 DELDAIAPKREK 315

GO:0019985 "translesion synthesis" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0006974 "response to DNA damage stimulus" evidence=ISS

GO:0035861 "site of double-strand break" evidence=ISS

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

GO:0018279 "protein N-linked glycosylation via asparagine" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0005829 "cytosol" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008289 "lipid binding" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q58556	Y1156_METJA	No assigned EC number	0.5512	0.7868	0.1716	yes	N/A
P54609	CD48A_ARATH	No assigned EC number	0.7968	0.9695	0.2360	yes	N/A
P46462	TERA_RAT	No assigned EC number	0.8906	0.9746	0.2382	yes	N/A
Q3ZBT1	TERA_BOVIN	No assigned EC number	0.8906	0.9746	0.2382	yes	N/A
Q9P3A7	CDC48_SCHPO	No assigned EC number	0.7656	0.9746	0.2355	yes	N/A
P55072	TERA_HUMAN	No assigned EC number	0.8906	0.9746	0.2382	yes	N/A
Q01853	TERA_MOUSE	No assigned EC number	0.8906	0.9746	0.2382	yes	N/A
Q5AWS6	CDC48_EMENI	No assigned EC number	0.7708	0.9746	0.2332	yes	N/A
Q8SSJ5	CDC48_ENCCU	No assigned EC number	0.6041	0.9441	0.2384	yes	N/A
Q7KN62	TERA_DROME	No assigned EC number	0.8645	0.9695	0.2384	yes	N/A
P54811	TERA1_CAEEL	No assigned EC number	0.7916	0.9695	0.2360	yes	N/A
Q6GL04	TERA_XENTR	No assigned EC number	0.8906	0.9746	0.2385	yes	N/A
O05209	VAT_THEAC	No assigned EC number	0.5254	0.8629	0.2281	yes	N/A
P25694	CDC48_YEAST	No assigned EC number	0.7760	0.9695	0.2287	yes	N/A
Q9LZF6	CD48E_ARATH	No assigned EC number	0.7968	0.9695	0.2358	yes	N/A
P03974	TERA_PIG	No assigned EC number	0.8906	0.9746	0.2382	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	197
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	3e-58
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	3e-51
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	2e-47
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	2e-43
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	3e-43
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	3e-43
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	8e-41
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	3e-40
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	2e-36
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	2e-35
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	3e-33
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	3e-29
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	7e-29
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-28
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	5e-28
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	2e-26
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	6e-20
smart00382	148	smart00382, AAA, ATPases associated with a variety	3e-14
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	7e-13
smart01072	64	smart01072, CDC48_2, Cell division protein 48 (CDC	9e-12
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	2e-11
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	1e-10
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	9e-09
pfam02933	61	pfam02933, CDC48_2, Cell division protein 48 (CDC4	7e-08
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	1e-07
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	2e-07
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	9e-07
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	1e-06
COG1484	254	COG1484, DnaC, DNA replication protein [DNA replic	3e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-06
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	4e-06
TIGR03922	557	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPas	6e-06
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	7e-06
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	1e-05
pfam07724	168	pfam07724, AAA_2, AAA domain (Cdc48 subfamily)	3e-05
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	5e-05
TIGR02928	365	TIGR02928, TIGR02928, orc1/cdc6 family replication	7e-05
TIGR00382	413	TIGR00382, clpX, endopeptidase Clp ATP-binding reg	1e-04
PRK08116	268	PRK08116, PRK08116, hypothetical protein; Validate	2e-04
COG0542	786	COG0542, clpA, ATP-binding subunits of Clp proteas	2e-04
pfam13401	124	pfam13401, AAA_22, AAA domain	4e-04
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	5e-04
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	5e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	8e-04
pfam00910	105	pfam00910, RNA_helicase, RNA helicase	0.001
pfam01057	271	pfam01057, Parvo_NS1, Parvovirus non-structural pr	0.002
pfam13207	114	pfam13207, AAA_17, AAA domain	0.002
PRK05342	412	PRK05342, clpX, ATP-dependent protease ATP-binding	0.003
COG1219	408	COG1219, ClpX, ATP-dependent protease Clp, ATPase	0.003

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

 Score =  194 bits (494), Expect = 3e-58
 Identities = 98/185 (52%), Positives = 131/185 (70%), Gaps = 3/185 (1%)

Query: 13  FEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIK 72
           F  Y+K + L   +P+ K +  IV     A+ F +V T PA +  V   T +     P+ 
Sbjct: 108 FVDYVKEFLLG--KPISKGETVIVPVLEGALPFVVVSTQPAGFVYVTEATEVEIREKPV- 164

Query: 73  REEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTG 132
           REE E     V Y+DIGG ++   +I+EMVELP++HP LF+ +G++PP+G+LLYGPPGTG
Sbjct: 165 REEIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTG 224

Query: 133 KTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIA 192
           KTL+A+AVANE GA+F  INGPEIMSK  GESE  LR+ F+EA++N+PSIIFIDE+DAIA
Sbjct: 225 KTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIA 284

Query: 193 PKREK 197
           PKRE+
Sbjct: 285 PKREE 289

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

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

 Score =  169 bits (430), Expect = 3e-51
 Identities = 68/129 (52%), Positives = 92/129 (71%)

Query: 67  EGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLY 126
           E DP     E E    V Y+DIGG  +Q+ +I+E+VELPL++P LF+ +G+ PP+G+LLY
Sbjct: 132 EVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLY 191

Query: 127 GPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFID 186
           GPPGTGKTL+A+AVAN+T A F  + G E++ K  GE    +R+ FE A + +PSIIFID
Sbjct: 192 GPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFID 251

Query: 187 ELDAIAPKR 195
           E+DAI  KR
Sbjct: 252 EIDAIGAKR 260

Length = 406

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

 Score =  159 bits (404), Expect = 2e-47
 Identities = 68/129 (52%), Positives = 93/129 (72%)

Query: 67  EGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLY 126
           E DP  +  E   S  V Y+DIGG  +Q+ +++E VELPL+ P LF+ +G++PP+G+LLY
Sbjct: 112 EKDPRVQAMEVIESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLY 171

Query: 127 GPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFID 186
           GPPGTGKTL+A+AVA+ET A F  + G E++ K  GE    +R+ FE A + +PSIIFID
Sbjct: 172 GPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFID 231

Query: 187 ELDAIAPKR 195
           E+DAIA KR
Sbjct: 232 EIDAIAAKR 240

Length = 389

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

 Score =  148 bits (375), Expect = 2e-43
 Identities = 70/133 (52%), Positives = 96/133 (72%)

Query: 63  VIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRG 122
           V+    DP+ +  E E    V Y+DIGG  +Q+ +I+E VELPL+HP LF+ +G++PP+G
Sbjct: 99  VLPTSKDPLVKGMEVEERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKG 158

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSI 182
           +LLYGPPGTGKTL+A+AVA+ET A F  + G E++ K  GE    +R+ FE A + +PSI
Sbjct: 159 VLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSI 218

Query: 183 IFIDELDAIAPKR 195
           IFIDE+DAIA KR
Sbjct: 219 IFIDEIDAIAAKR 231

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

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

 Score =  148 bits (376), Expect = 3e-43
 Identities = 62/113 (54%), Positives = 79/113 (69%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V Y DIGG   Q  +I+E VELPL  P L++ IG+ PPRG+LLYGPPGTGKT++A+AVA+
Sbjct: 142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAH 201

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
            T A F  + G E + K  GE    +R  F  A +N+PSIIFIDE+D+IA KR
Sbjct: 202 HTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR 254

Length = 398

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

 Score =  149 bits (377), Expect = 3e-43
 Identities = 63/111 (56%), Positives = 84/111 (75%)

Query: 85  YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET 144
           Y DIGG  +Q+ +IKE VELPL HP L+  IG+KPP+G++LYGPPGTGKTL+A+AVANET
Sbjct: 182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET 241

Query: 145 GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
            A F  + G E++ K  G+    +R+ F  A++N+PSI+FIDE+DAI  KR
Sbjct: 242 SATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKR 292

Length = 438

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

 Score =  143 bits (363), Expect = 8e-41
 Identities = 61/114 (53%), Positives = 86/114 (75%)

Query: 82  AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVA 141
            V  DDIGG  +   ++KE +E PL+ P LF+ +G++PP+G+LLYGPPGTGKTL+A+AVA
Sbjct: 238 DVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVA 297

Query: 142 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
            E+ + F  + G E++SK  GESE N+R+ FE+A K +PSIIFIDE+D++A  R
Sbjct: 298 LESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGR 351

Length = 494

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

 Score =  144 bits (365), Expect = 3e-40
 Identities = 61/113 (53%), Positives = 87/113 (76%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + DIGG  +   +++E VE PL+HP +F+ +G++PP+G+LL+GPPGTGKTL+A+AVA 
Sbjct: 450 VRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVAT 509

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E+GA F  + GPEI+SK  GESE  +R+ F +A + +P+IIF DE+DAIAP R
Sbjct: 510 ESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPAR 562

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

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

 Score =  132 bits (333), Expect = 2e-36
 Identities = 61/140 (43%), Positives = 83/140 (59%), Gaps = 18/140 (12%)

Query: 70  PIKREEEE----EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
            I R E E    E    V Y DIGG   Q+ QI++ VELP  HP L++  G+KPP+G+LL
Sbjct: 162 AIPRTEVEDLVLEEVPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLL 221

Query: 126 YGPPGTGKTLIARAVANETG----------AFFFLINGPEIMSKLAGESESNLRKAFEEA 175
           YGPPG GKTLIA+AVAN             ++F  I GPE+++K  GE+E  +R  F+ A
Sbjct: 222 YGPPGCGKTLIAKAVANSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRA 281

Query: 176 DK----NSPSIIFIDELDAI 191
            +      P I+F DE+D++
Sbjct: 282 REKASEGRPVIVFFDEMDSL 301

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

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

 Score =  120 bits (304), Expect = 2e-35
 Identities = 44/74 (59%), Positives = 55/74 (74%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSI 182
           +LLYGPPGTGKT +A+AVA E GA F  I+G E++SK  GESE  LR+ FE A K +P +
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60

Query: 183 IFIDELDAIAPKRE 196
           IFIDE+DA+A  R 
Sbjct: 61  IFIDEIDALAGSRG 74

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

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

 Score =  123 bits (311), Expect = 3e-33
 Identities = 53/119 (44%), Positives = 76/119 (63%), Gaps = 1/119 (0%)

Query: 77  EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLI 136
            E    V + D+ G  +   ++ E+V+  L++PS F  +G K P+G+LL GPPGTGKTL+
Sbjct: 46  NEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLL 104

Query: 137 ARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           A+AVA E G  FF I+G + +    G   S +R  FE+A KN+P IIFIDE+DA+  +R
Sbjct: 105 AKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQR 163

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

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

 Score =  110 bits (277), Expect = 3e-29
 Identities = 58/186 (31%), Positives = 95/186 (51%), Gaps = 11/186 (5%)

Query: 12  LFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPI 71
           +F +Y +  +L     V + D            FK++   P+   I+ + T+   E    
Sbjct: 52  VFNIYARDQWLGEV--VREGDYLFDTRMFPDYAFKVIRVVPSGGGIITSTTIFVLETP-- 107

Query: 72  KREEEEEASNAVGYDDIGGCRKQLAQIK-EMVELPLRHPSLFKAIGVKPPRGILLYGPPG 130
            REE+ E  + +  DD+ G  ++ A+ K  ++   L +P  F   G   P+ +L YGPPG
Sbjct: 108 -REEDREIISDITLDDVIG--QEEAKRKCRLIMEYLENPERF---GDWAPKNVLFYGPPG 161

Query: 131 TGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA 190
           TGKT++A+A+ANE      L+   E++ +  G+    + + +E A K +P I+FIDELDA
Sbjct: 162 TGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDA 221

Query: 191 IAPKRE 196
           IA  R 
Sbjct: 222 IALDRR 227

Length = 368

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

 Score =  112 bits (281), Expect = 7e-29
 Identities = 51/125 (40%), Positives = 76/125 (60%), Gaps = 1/125 (0%)

Query: 71  IKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPG 130
            K   + EA   + + DI G  +   + +E+V   L+ P  F A+G K P+G+LL GPPG
Sbjct: 168 SKARFQMEADTGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPG 226

Query: 131 TGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA 190
           TGKTL+A+A+A E    FF I+G E +    G   + +R  F++A +NSP I+FIDE+DA
Sbjct: 227 TGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDA 286

Query: 191 IAPKR 195
           +  +R
Sbjct: 287 VGRQR 291

Length = 638

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

 Score =  110 bits (277), Expect = 1e-28
 Identities = 65/95 (68%), Positives = 80/95 (84%), Gaps = 1/95 (1%)

Query: 103 ELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG 162
           ELPL+ P LFK +G++PP+G+LL+GPPGTGKTL+ARA+ANE GA F  INGPEI+SK  G
Sbjct: 1   ELPLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVG 59

Query: 163 ESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK 197
           ESE  LR+ FEEA+K +PSIIFIDE+DA+APKR  
Sbjct: 60  ESELRLRELFEEAEKLAPSIIFIDEIDALAPKRSS 94

Length = 494

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

 Score =  109 bits (274), Expect = 5e-28
 Identities = 53/127 (41%), Positives = 79/127 (62%), Gaps = 1/127 (0%)

Query: 69  DPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGP 128
              K +   E    V + D+ G  +   ++ E+V+  L++P  ++A+G K P+G+LL GP
Sbjct: 133 GKSKAKLYLEDQVKVTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGP 191

Query: 129 PGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDEL 188
           PGTGKTL+A+AVA E G  FF I+G + +    G   S +R  FE+A KN+P IIFIDE+
Sbjct: 192 PGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEI 251

Query: 189 DAIAPKR 195
           DA+  +R
Sbjct: 252 DAVGRQR 258

Length = 596

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

 Score =  105 bits (262), Expect = 2e-26
 Identities = 50/111 (45%), Positives = 73/111 (65%), Gaps = 1/111 (0%)

Query: 85  YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET 144
           + D+ GC +   ++ E+VE  LR PS F+ +G K P+G+L+ GPPGTGKTL+A+A+A E 
Sbjct: 151 FADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 209

Query: 145 GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
              FF I+G + +    G   S +R  FE+A K +P IIFIDE+DA+  +R
Sbjct: 210 KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 260

Length = 644

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

 Score = 81.4 bits (201), Expect = 6e-20
 Identities = 37/89 (41%), Positives = 56/89 (62%), Gaps = 6/89 (6%)

Query: 111 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESE-- 165
           L +A+ + PP+ +LLYGPPGTGKT +ARA+ANE    GA F  +N  +++  L       
Sbjct: 10  LREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFG 69

Query: 166 -SNLRKAFEEADKNSPSIIFIDELDAIAP 193
              +R  FE A+K  P ++FIDE+D+++ 
Sbjct: 70  HFLVRLLFELAEKAKPGVLFIDEIDSLSR 98

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

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

 Score = 66.6 bits (162), Expect = 3e-14
 Identities = 30/94 (31%), Positives = 44/94 (46%), Gaps = 17/94 (18%)

Query: 119 PPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMS--------------KLA 161
           P   IL+ GPPG+GKT +ARA+A E    G     I+G +I+               K +
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           G  E  LR A   A K  P ++ +DE+ ++    
Sbjct: 61  GSGELRLRLALALARKLKPDVLILDEITSLLDAE 94

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

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

 Score = 65.9 bits (162), Expect = 7e-13
 Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 11/81 (13%)

Query: 111 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 170
           L + I       ++L+GPPGTGKT +AR +A  T A F  ++        +G  +  LR+
Sbjct: 27  LRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAV-----TSGVKD--LRE 79

Query: 171 AFEEADKNSPS----IIFIDE 187
             EEA +   +    I+FIDE
Sbjct: 80  VIEEARQRRSAGRRTILFIDE 100

Length = 413

>gnl|CDD|215011 smart01072, CDC48_2, Cell division protein 48 (CDC48) domain 2

 Score = 57.6 bits (140), Expect = 9e-12
 Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 2/61 (3%)

Query: 13 FEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIK 72
          F  Y+K   L   RPV K D  +V    +A+ F +V T+P+   IV  DT I     P++
Sbjct: 6  FAEYVKRKLLG--RPVTKGDTIVVPFLGKALPFVVVSTEPSGPVIVTDDTEIEILEKPVE 63

Query: 73 R 73
           
Sbjct: 64 E 64

This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases is a substrate 185-residue recognition domain. Length = 64

>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional

 Score = 61.2 bits (149), Expect = 2e-11
 Identities = 40/107 (37%), Positives = 59/107 (55%), Gaps = 9/107 (8%)

Query: 86  DDIGGCRKQLAQIKEMVELPLRHPSLFKA---IGVKPPRGILLYGPPGTGKTLIARAVAN 142
            DIGG    L  +K+   L  R  S  K     G+  PRG+LL G  GTGK+L A+A+AN
Sbjct: 228 SDIGG----LDNLKDW--LKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIAN 281

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELD 189
           +       ++  ++   + GESES +R+    A+  SP I++IDE+D
Sbjct: 282 DWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEID 328

Length = 489

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

 Score = 59.6 bits (145), Expect = 1e-10
 Identities = 29/81 (35%), Positives = 44/81 (54%), Gaps = 11/81 (13%)

Query: 111 LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 170
           L +A+       ++L+GPPGTGKT +AR +A  T A F  ++   + S +      +LR+
Sbjct: 39  LRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSA--VTSGVK-----DLRE 91

Query: 171 AFEEADKNSPS----IIFIDE 187
             EEA KN       I+F+DE
Sbjct: 92  IIEEARKNRLLGRRTILFLDE 112

Length = 436

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

 Score = 53.9 bits (130), Expect = 9e-09
 Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 12/69 (17%)

Query: 124 LLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADK-----N 178
           +LYGPPG GKT +AR +AN T A F  +N     + LAG  +  LR   + A +      
Sbjct: 56  ILYGPPGVGKTTLARIIANHTRAHFSSLN-----AVLAGVKD--LRAEVDRAKERLERHG 108

Query: 179 SPSIIFIDE 187
             +I+FIDE
Sbjct: 109 KRTILFIDE 117

Length = 725

>gnl|CDD|202475 pfam02933, CDC48_2, Cell division protein 48 (CDC48), domain 2

 Score = 47.2 bits (113), Expect = 7e-08
 Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 2/58 (3%)

Query: 13 FEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDP 70
             Y K  F    +PV K    +     + +   +V T+P+   IV  DT I     P
Sbjct: 6  ELAYFKRQFEG--QPVSKGQTIVFDFLGKLLPLVVVSTEPSGPVIVTEDTEIEIGEKP 61

This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases pfam00004 is a substrate 185-residue recognition domain. Length = 61

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

 Score = 50.6 bits (122), Expect = 1e-07
 Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 12/73 (16%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM--SKLAGESESNLRKAFEEADKNSP 180
           +LL+GPPG GKT +A  +ANE G    + +GP +     LA      +    EE D    
Sbjct: 55  VLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLA-----AILTNLEEGD---- 105

Query: 181 SIIFIDELDAIAP 193
            ++FIDE+  ++P
Sbjct: 106 -VLFIDEIHRLSP 117

Length = 332

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

 Score = 49.2 bits (118), Expect = 2e-07
 Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 12/76 (15%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM--SKLAGESESNLRKAFEEADKNSP 180
           +LLYGPPG GKT +A  +ANE G    + +GP +     LA      +    EE D    
Sbjct: 33  LLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAA-----ILTNLEEGD---- 83

Query: 181 SIIFIDELDAIAPKRE 196
            ++FIDE+  ++P  E
Sbjct: 84  -VLFIDEIHRLSPAVE 98

All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions [DNA metabolism, DNA replication, recombination, and repair]. Length = 305

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

 Score = 47.8 bits (115), Expect = 9e-07
 Identities = 29/73 (39%), Positives = 41/73 (56%), Gaps = 12/73 (16%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESNLRKAFEEADKNSP 180
           +LLYGPPG GKT +A  +ANE G    + +GP +     LA    +NL    EE D    
Sbjct: 54  VLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAA-ILTNL----EEGD---- 104

Query: 181 SIIFIDELDAIAP 193
            ++FIDE+  ++P
Sbjct: 105 -VLFIDEIHRLSP 116

Length = 328

>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional

 Score = 47.3 bits (113), Expect = 1e-06
 Identities = 27/59 (45%), Positives = 35/59 (59%), Gaps = 5/59 (8%)

Query: 98  IKEMVELPLRHPSLFKAIGVKPPR--GILLYGP-PGTGKTLIARAVANETGAFFFLING 153
           I E + LP      FK+I VK  R   +LL+ P PGTGKT +A+A+ NE GA    +NG
Sbjct: 20  IDECI-LPAADKETFKSI-VKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNG 76

Length = 316

>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]

 Score = 45.9 bits (109), Expect = 3e-06
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 13/77 (16%)

Query: 120 PRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMSKLA-----GESESNLRKA 171
              ++L GPPG GKT +A A+ NE    G     I  P+++SKL      G  E  L + 
Sbjct: 105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE 164

Query: 172 FEEADKNSPSIIFIDEL 188
            ++ D     ++ ID++
Sbjct: 165 LKKVD-----LLIIDDI 176

Length = 254

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

 Score = 46.1 bits (110), Expect = 3e-06
 Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 14/84 (16%)

Query: 118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLI--NGP-----EIMSKLAGESESNLRK 170
           KP + +LLYGPPG GKT +A A+AN+ G  + +I  N       +++ ++AGE+ +    
Sbjct: 37  KPKKALLLYGPPGVGKTSLAHALANDYG--WEVIELNASDQRTADVIERVAGEA-ATSGS 93

Query: 171 AFEEADKNSPSIIFIDELDAIAPK 194
            F    K    +I +DE+D I   
Sbjct: 94  LFGARRK----LILLDEVDGIHGN 113

Length = 482

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

 Score = 46.2 bits (110), Expect = 4e-06
 Identities = 26/56 (46%), Positives = 34/56 (60%), Gaps = 5/56 (8%)

Query: 121 RGILLYGPPGTGKTLIARAVANETGA--FFFLINGPEIMSKLAGESES---NLRKA 171
           RGIL+ GPPGTGKT +A  +A E G    F  I+G EI S    ++E+    LR+A
Sbjct: 66  RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVKKTEALTQALRRA 121

Length = 450

>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA

 Score = 45.6 bits (108), Expect = 6e-06
 Identities = 35/155 (22%), Positives = 56/155 (36%), Gaps = 16/155 (10%)

Query: 49  DTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRH 108
           D   AP      D         +  E E E +  +G + +   ++Q+A +K    + L  
Sbjct: 245 DPSSAPSRAEFVDPAAAERKAKLLAEAEAELAEQIGLERV---KRQVAALKSSTAMALAR 301

Query: 109 PSLFKAIGVKPP---RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM----SKLA 161
                  G+        +L  GPPGTGKT IAR VA        ++  P +     + L 
Sbjct: 302 ----AERGLPVAQTSNHMLFAGPPGTGKTTIARVVAKIY-CGLGVLRKPLVREVSRADLI 356

Query: 162 GESESNLRKAFEEA-DKNSPSIIFIDELDAIAPKR 195
           G+          E  D     ++F+DE   +    
Sbjct: 357 GQYIGESEAKTNEIIDSALGGVLFLDEAYTLVETG 391

This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc [Protein fate, Protein and peptide secretion and trafficking]. Length = 557

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

 Score = 45.4 bits (108), Expect = 7e-06
 Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 5/56 (8%)

Query: 121 RGILLYGPPGTGKTLIARAVANETGAF--FFLINGPEIMSKLAGESES---NLRKA 171
           R +L+ GPPGTGKT +A A++ E G    F  I+G E+ S    ++E+     RKA
Sbjct: 51  RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEVYSLEMKKTEALTQAFRKA 106

This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases. Length = 395

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

 Score = 44.3 bits (105), Expect = 1e-05
 Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 10/84 (11%)

Query: 121 RGILLYGPPGTGKTLIARAVANETGAFFFLING-PEIM-SKLAGESESNLRKAFEEADK- 177
             +LL GPPG GKTL+ARA+A   G  F  I   P+++ S L G              + 
Sbjct: 44  GHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRF 103

Query: 178 -------NSPSIIFIDELDAIAPK 194
                      I+ +DE++   P+
Sbjct: 104 VPGPLFAAVRVILLLDEINRAPPE 127

Length = 329

>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily)

 Score = 42.2 bits (100), Expect = 3e-05
 Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 13/84 (15%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAF---FFLINGPEIM-----SKLAGESESNLRKA--- 171
            L  GP G GKT +A+A+A            I+  E M     S+L G     +      
Sbjct: 6   FLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHSVSRLIGAPPGYVGYEEGG 65

Query: 172 --FEEADKNSPSIIFIDELDAIAP 193
              E   +   SI+ IDE++   P
Sbjct: 66  QLTEAVRRKPYSIVLIDEIEKAHP 89

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 168

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

 Score = 42.4 bits (101), Expect = 5e-05
 Identities = 25/67 (37%), Positives = 34/67 (50%), Gaps = 12/67 (17%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESNLRKAFEEADKNSP 180
           +LLYGPPG GKT +A  +ANE G    + +GP +     LA      +    E  D    
Sbjct: 53  VLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAA-----ILTNLEPGD---- 103

Query: 181 SIIFIDE 187
            ++FIDE
Sbjct: 104 -VLFIDE 109

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

>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation protein

 Score = 42.2 bits (100), Expect = 7e-05
 Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 6/47 (12%)

Query: 97  QIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE 143
           QI+E+ +      +L   +    P  + +YG  GTGKT + + V  E
Sbjct: 23  QIEELAK------ALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKE 63

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 365

>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit (clpX)

 Score = 41.7 bits (98), Expect = 1e-04
 Identities = 30/80 (37%), Positives = 42/80 (52%), Gaps = 6/80 (7%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM-SKLAGESESN-LRKAFEEAD---- 176
           ILL GP G+GKTL+A+ +A      F + +   +  +   GE   N L K  + AD    
Sbjct: 119 ILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 178

Query: 177 KNSPSIIFIDELDAIAPKRE 196
           K    II+IDE+D I+ K E
Sbjct: 179 KAQKGIIYIDEIDKISRKSE 198

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction [Protein fate, Protein folding and stabilization, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 413

>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 13/23 (56%), Positives = 17/23 (73%)

Query: 121 RGILLYGPPGTGKTLIARAVANE 143
            G+LL+G  GTGKT +A  +ANE
Sbjct: 115 VGLLLWGSVGTGKTYLAACIANE 137

Length = 268

>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

 Score = 40.7 bits (96), Expect = 2e-04
 Identities = 26/86 (30%), Positives = 37/86 (43%), Gaps = 24/86 (27%)

Query: 124 LLYGPPGTGKTLIARAVANETGAFFFLING--PEIMS----------------KLAGESE 165
           +L G PG GKT I   +A        ++NG  PE +                 K  GE E
Sbjct: 195 VLVGEPGVGKTAIVEGLAQR------IVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFE 248

Query: 166 SNLRKAFEEADKNSPSIIFIDELDAI 191
             L+   +E +K+   I+FIDE+  I
Sbjct: 249 ERLKAVLKEVEKSKNVILFIDEIHTI 274

Length = 786

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

 Score = 38.4 bits (90), Expect = 4e-04
 Identities = 17/94 (18%), Positives = 37/94 (39%), Gaps = 16/94 (17%)

Query: 117 VKPPRGILLYGPPGTGKTLIARAVANET-GAFFFLINGP------EIMSKLAGE------ 163
            +     +L G  G+GKT + R +A +        +  P      +++ K+         
Sbjct: 1   RRGAGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLS 60

Query: 164 --SESNLRKAFEEADKNSPS-IIFIDELDAIAPK 194
             + + L +A  +A K     ++ IDE   ++ +
Sbjct: 61  GGTTAELLEAILDALKRRGRPLLIIDEAQHLSLE 94

Length = 124

>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily)

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 22/85 (25%), Positives = 33/85 (38%), Gaps = 18/85 (21%)

Query: 122 GILLYGPPGTGKTLIARAVANET-GAFFFLINGP------------EIMSKLAGESESNL 168
           G+LL GPPGTGK+ +A  +A        F +                I    A   +  L
Sbjct: 1   GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASWVDGPL 60

Query: 169 RKAFEEADKNSPSIIFIDELDAIAP 193
            +A  E +     I  +DE++   P
Sbjct: 61  VRAAREGE-----IAVLDEINRANP 80

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 135

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

 Score = 38.7 bits (90), Expect = 5e-04
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 11/54 (20%)

Query: 91  CR-KQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE 143
            R ++L ++ +            +      P  +LL GP GTGKT + R +   
Sbjct: 4   GREEELERLLD----------ALRRARSGGPPSVLLTGPSGTGKTSLLRELLEG 47

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

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 38.9 bits (91), Expect = 8e-04
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 22/100 (22%)

Query: 120 PRGILLYGPPGTGKTLIARAVANE-----TGAFFFLING----------PEIMSKLAGES 164
           P  I++YGP GTGKT   + V  E            IN            +I++KL    
Sbjct: 42  PSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVP 101

Query: 165 ESNLR--KAFEEADKN-----SPSIIFIDELDAIAPKREK 197
            +     +  +    N        I+ +DE+DA+  K  +
Sbjct: 102 LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGE 141

Length = 366

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

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 13/37 (35%), Positives = 19/37 (51%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK 159
           I LYGPPG GK+ +A+ +A        L     + S+
Sbjct: 1   IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDSVYSR 37

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

>gnl|CDD|216270 pfam01057, Parvo_NS1, Parvovirus non-structural protein NS1

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)

Query: 117 VKPPRG-ILLYGPPGTGKTLIARAVAN 142
               R  +  YGP  TGKT +A+A+A+
Sbjct: 109 QGGKRNTVWFYGPASTGKTNLAQAIAH 135

This family also contains the NS2 protein. Parvoviruses encode two non-structural proteins, NS1 and NS2. The mRNA for NS2 contains the coding sequence for the first 87 amino acids of NS1, then by an alternative splicing mechanism mRNA from a different reading frame, encoding the last 78 amino acids, makes up the full length of the NS2 mRNA. NS1, is the major non-structural protein. It is essential for DNA replication. It is an 83-kDa nuclear phosphoprotein. It has DNA helicase and ATPase activity. Length = 271

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

 Score = 36.5 bits (84), Expect = 0.002
 Identities = 11/27 (40%), Positives = 18/27 (66%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFF 149
           IL+ GPPG+GK+ +A+ +A + G    
Sbjct: 2   ILITGPPGSGKSTLAKKLAEKLGIPVI 28

Length = 114

>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX; Provisional

 Score = 37.4 bits (88), Expect = 0.003
 Identities = 30/87 (34%), Positives = 44/87 (50%), Gaps = 20/87 (22%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM--------SKLAGES-ESNLRKAFE 173
           ILL GP G+GKTL+A+ +A        +++ P  +        +   GE  E+ L K  +
Sbjct: 111 ILLIGPTGSGKTLLAQTLAR-------ILDVPFAIADATTLTEAGYVGEDVENILLKLLQ 163

Query: 174 EAD----KNSPSIIFIDELDAIAPKRE 196
            AD    K    I++IDE+D IA K E
Sbjct: 164 AADYDVEKAQRGIVYIDEIDKIARKSE 190

Length = 412

>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 31/87 (35%), Positives = 43/87 (49%), Gaps = 20/87 (22%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--------LAGESESN-LRKAFE 173
           ILL GP G+GKTL+A+ +A        ++N P  ++           GE   N L K  +
Sbjct: 100 ILLIGPTGSGKTLLAQTLAK-------ILNVPFAIADATTLTEAGYVGEDVENILLKLLQ 152

Query: 174 EADKNSP----SIIFIDELDAIAPKRE 196
            AD +       II+IDE+D IA K E
Sbjct: 153 AADYDVERAERGIIYIDEIDKIARKSE 179

Length = 408

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	197
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.97
KOG0733|consensus	802		99.96
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.95
KOG0730|consensus	693		99.95
KOG0736|consensus	953		99.95
KOG0733|consensus	802		99.94
KOG0727|consensus	408		99.93
KOG0739|consensus	439		99.93
KOG0738|consensus	491		99.92
KOG0652|consensus	424		99.92
KOG0728|consensus	404		99.91
KOG0726|consensus	440		99.91
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.91
KOG0729|consensus	435		99.91
KOG0735|consensus	952		99.91
KOG0734|consensus	752		99.91
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.89
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.89
KOG0731|consensus	774		99.88
KOG0730|consensus	693		99.88
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.88
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.87
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.87
KOG0737|consensus	386		99.86
KOG0651|consensus	388		99.85
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.85
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.85
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.85
CHL00195	489	ycf46 Ycf46; Provisional	99.83
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.82
CHL00176	638	ftsH cell division protein; Validated	99.81
KOG0740|consensus	428		99.81
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.81
KOG0732|consensus	1080		99.77
KOG0741|consensus	744		99.77
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.68
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.67
PF00004	132	AAA: ATPase family associated with various cellula	99.67
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.66
CHL00206	2281	ycf2 Ycf2; Provisional	99.64
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.64
CHL00181	287	cbbX CbbX; Provisional	99.63
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.6
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.59
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.57
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.56
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.54
KOG0744|consensus	423		99.52
PRK12422	445	chromosomal replication initiation protein; Provis	99.5
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.5
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.47
KOG0743|consensus	457		99.46
KOG0736|consensus	953		99.44
CHL00095	821	clpC Clp protease ATP binding subunit	99.43
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.42
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.42
PRK04195	482	replication factor C large subunit; Provisional	99.42
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.42
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.41
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.41
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.39
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.38
PRK10865	857	protein disaggregation chaperone; Provisional	99.37
PRK13342	413	recombination factor protein RarA; Reviewed	99.37
PLN03025	319	replication factor C subunit; Provisional	99.36
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.34
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.33
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.32
KOG2028|consensus	554		99.32
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.31
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.3
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.3
PHA02544	316	44 clamp loader, small subunit; Provisional	99.3
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.29
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.29
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.29
PRK12402	337	replication factor C small subunit 2; Reviewed	99.28
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.28
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.27
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.27
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.27
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.26
PRK12377	248	putative replication protein; Provisional	99.26
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.26
PRK13341	725	recombination factor protein RarA/unknown domain f	99.26
KOG0989|consensus	346		99.25
PRK08727	233	hypothetical protein; Validated	99.25
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.24
PRK08084	235	DNA replication initiation factor; Provisional	99.24
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.24
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.24
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.23
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.23
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.23
smart00382	148	AAA ATPases associated with a variety of cellular	99.21
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.21
COG1484	254	DnaC DNA replication protein [DNA replication, rec	99.21
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.2
PRK07952	244	DNA replication protein DnaC; Validated	99.2
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.2
PRK06893	229	DNA replication initiation factor; Validated	99.19
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.19
PRK08181	269	transposase; Validated	99.18
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.18
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.18
PRK05642	234	DNA replication initiation factor; Validated	99.18
KOG0742|consensus	630		99.18
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.18
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.18
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.17
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.17
KOG0735|consensus	952		99.16
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.15
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.15
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.15
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.14
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.13
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.13
KOG0991|consensus	333		99.13
PRK08939	306	primosomal protein DnaI; Reviewed	99.13
COG2204	464	AtoC Response regulator containing CheY-like recei	99.12
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.12
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.11
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.11
KOG2004|consensus	906		99.11
PRK06835	329	DNA replication protein DnaC; Validated	99.1
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.1
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.09
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.09
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.09
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	99.09
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.08
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.08
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.08
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.07
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.07
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.07
PRK06526	254	transposase; Provisional	99.07
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.07
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.07
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.06
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.06
PRK08116	268	hypothetical protein; Validated	99.06
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.06
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.06
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.05
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.05
PHA02244	383	ATPase-like protein	99.04
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.04
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.04
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.04
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.02
PRK06620	214	hypothetical protein; Validated	99.01
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.01
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.01
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.01
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.01
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.0
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.0
PRK06921	266	hypothetical protein; Provisional	98.99
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.99
PRK09183	259	transposase/IS protein; Provisional	98.99
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.99
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.98
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.98
KOG0745|consensus	564		98.98
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.98
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.97
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.97
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.96
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.94
PRK10865	857	protein disaggregation chaperone; Provisional	98.93
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	98.92
KOG1969|consensus	877		98.92
CHL00095	821	clpC Clp protease ATP binding subunit	98.91
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.89
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.87
PRK13531	498	regulatory ATPase RavA; Provisional	98.87
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	98.85
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.83
PF13173	128	AAA_14: AAA domain	98.82
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	98.82
KOG0741|consensus	744		98.8
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	98.78
PRK09087	226	hypothetical protein; Validated	98.78
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.76
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	98.76
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.76
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.76
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.75
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.74
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.71
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.71
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.7
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.69
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.68
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.65
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.64
COG0714	329	MoxR-like ATPases [General function prediction onl	98.62
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.61
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.58
PHA00729	226	NTP-binding motif containing protein	98.58
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.58
KOG1051|consensus	898		98.53
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.53
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.53
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.52
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.51
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.47
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.44
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.43
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.43
TIGR02237	209	recomb_radB DNA repair and recombination protein R	98.4
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	98.4
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.37
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	98.37
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.36
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.35
PRK15115	444	response regulator GlrR; Provisional	98.35
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	98.34
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.34
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	98.34
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.34
PRK08118	167	topology modulation protein; Reviewed	98.33
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	98.33
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.32
PRK07261	171	topology modulation protein; Provisional	98.32
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.32
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	98.31
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	98.31
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.31
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.3
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	98.27
PF07726	131	AAA_3: ATPase family associated with various cellu	98.26
PRK11823	446	DNA repair protein RadA; Provisional	98.25
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	98.25
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	98.25
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	98.24
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.24
TIGR02533	486	type_II_gspE general secretory pathway protein E.	98.24
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	98.23
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.22
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.22
PRK13833	323	conjugal transfer protein TrbB; Provisional	98.21
cd00983	325	recA RecA is a bacterial enzyme which has roles in	98.21
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.2
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	98.2
PRK04296	190	thymidine kinase; Provisional	98.19
PRK10436	462	hypothetical protein; Provisional	98.18
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	98.18
KOG2170|consensus	344		98.17
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	98.17
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.17
PRK08533	230	flagellar accessory protein FlaH; Reviewed	98.16
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	98.16
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	98.16
KOG1970|consensus	634		98.16
KOG0990|consensus	360		98.15
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	98.15
PRK15455	644	PrkA family serine protein kinase; Provisional	98.15
smart00350	509	MCM minichromosome maintenance proteins.	98.14
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.14
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.14
PRK00131	175	aroK shikimate kinase; Reviewed	98.13
KOG1942|consensus	456		98.12
PHA02624	647	large T antigen; Provisional	98.12
KOG2227|consensus	529		98.12
PRK06067	234	flagellar accessory protein FlaH; Validated	98.12
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.1
PRK13764	602	ATPase; Provisional	98.1
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	98.09
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.09
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.08
PF05729	166	NACHT: NACHT domain	98.08
cd01128	249	rho_factor Transcription termination factor rho is	98.08
PRK13851	344	type IV secretion system protein VirB11; Provision	98.07
PRK06762	166	hypothetical protein; Provisional	98.07
KOG1514|consensus	767		98.07
KOG3347|consensus	176		98.06
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.05
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	98.05
PRK09862	506	putative ATP-dependent protease; Provisional	98.04
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.03
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.03
PRK09376	416	rho transcription termination factor Rho; Provisio	98.02
PRK09354	349	recA recombinase A; Provisional	98.01
PRK03839	180	putative kinase; Provisional	98.01
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.01
PRK13947	171	shikimate kinase; Provisional	97.99
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.99
PRK10536	262	hypothetical protein; Provisional	97.99
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.99
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.98
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.97
PRK00625	173	shikimate kinase; Provisional	97.96
PRK06217	183	hypothetical protein; Validated	97.95
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.95
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.95
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.95
PHA02774	613	E1; Provisional	97.94
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.94
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.93
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.91
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.91
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.9
PRK14532	188	adenylate kinase; Provisional	97.9
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.89
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.88
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.88
PLN03210	1153	Resistant to P. syringae 6; Provisional	97.88
PRK13949	169	shikimate kinase; Provisional	97.87
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.87
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	97.86
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.86
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.86
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.86
PRK14974	336	cell division protein FtsY; Provisional	97.85
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	97.85
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.85
PRK13765	637	ATP-dependent protease Lon; Provisional	97.85
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.84
PRK14530	215	adenylate kinase; Provisional	97.84
PRK14531	183	adenylate kinase; Provisional	97.84
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.82
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.82
PRK04132	846	replication factor C small subunit; Provisional	97.82
PRK13948	182	shikimate kinase; Provisional	97.82
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.81
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.8
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.8
PRK06547	172	hypothetical protein; Provisional	97.79
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.79
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.79
PLN02674	244	adenylate kinase	97.79
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.79
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.78
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.78
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.78
TIGR00767	415	rho transcription termination factor Rho. Members	97.77
PRK04328	249	hypothetical protein; Provisional	97.77
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	97.76
PRK05057	172	aroK shikimate kinase I; Reviewed	97.76
PTZ00088	229	adenylate kinase 1; Provisional	97.76
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.75
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.75
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.74
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.74
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.73
PRK03731	171	aroL shikimate kinase II; Reviewed	97.73
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.73
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.72
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.72
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.72
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.72
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.72
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.72
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.71
PRK13946	184	shikimate kinase; Provisional	97.71
TIGR03819	340	heli_sec_ATPase helicase/secretion neighborhood AT	97.71
PLN02200	234	adenylate kinase family protein	97.7
PF13245	76	AAA_19: Part of AAA domain	97.7
PRK14528	186	adenylate kinase; Provisional	97.7
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.7
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.69
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.69
PF13479	213	AAA_24: AAA domain	97.69
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.68
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.68
COG4962	355	CpaF Flp pilus assembly protein, ATPase CpaF [Intr	97.68
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.67
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.67
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.67
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.67
PRK02496	184	adk adenylate kinase; Provisional	97.67
PRK06696	223	uridine kinase; Validated	97.66
PRK14527	191	adenylate kinase; Provisional	97.66
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.66
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.64
PRK00279	215	adk adenylate kinase; Reviewed	97.63
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.63
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.63
COG1485	367	Predicted ATPase [General function prediction only	97.62
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	97.62
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.62
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.61
PHA02530	300	pseT polynucleotide kinase; Provisional	97.61
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.61
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.61
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.61
PRK10416	318	signal recognition particle-docking protein FtsY;	97.6
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.59
PRK04040	188	adenylate kinase; Provisional	97.59
PRK08233	182	hypothetical protein; Provisional	97.59
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.58
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.58
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	97.58
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.58
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.57
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.57
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.55
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.55
PF14516	331	AAA_35: AAA-like domain	97.55
PRK08099	399	bifunctional DNA-binding transcriptional repressor	97.54
COG5008	375	PilU Tfp pilus assembly protein, ATPase PilU [Cell	97.54
PRK05541	176	adenylylsulfate kinase; Provisional	97.54
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.54
PRK14526	211	adenylate kinase; Provisional	97.53
PRK05973	237	replicative DNA helicase; Provisional	97.53
PRK04182	180	cytidylate kinase; Provisional	97.53
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.52
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.51
KOG2680|consensus	454		97.51
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	97.51
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	97.5
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.5
PRK09519	790	recA DNA recombination protein RecA; Reviewed	97.49
PRK12608	380	transcription termination factor Rho; Provisional	97.48
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.47
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.47
COG1855	604	ATPase (PilT family) [General function prediction	97.47
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.47
PRK01184	184	hypothetical protein; Provisional	97.46
PRK14529	223	adenylate kinase; Provisional	97.45
KOG2035|consensus	351		97.44
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.44
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.43
COG0630	312	VirB11 Type IV secretory pathway, VirB11 component	97.43
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.42
PRK10867	433	signal recognition particle protein; Provisional	97.42
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.41
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.41
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.41
PRK00889	175	adenylylsulfate kinase; Provisional	97.4
KOG1051|consensus	898		97.4
cd03246	173	ABCC_Protease_Secretion This family represents the	97.39
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.38
PLN02199	303	shikimate kinase	97.38
PRK14730	195	coaE dephospho-CoA kinase; Provisional	97.38
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.38
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	97.38
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.36
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.36
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.34
PRK05480	209	uridine/cytidine kinase; Provisional	97.34
TIGR00959	428	ffh signal recognition particle protein. This mode	97.34
PLN02459	261	probable adenylate kinase	97.33
PRK12339	197	2-phosphoglycerate kinase; Provisional	97.33
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	97.33
PRK12338	319	hypothetical protein; Provisional	97.32
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.32
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.31
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	97.31
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.31
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	97.31
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	97.3
PLN02165	334	adenylate isopentenyltransferase	97.3
PRK05917	290	DNA polymerase III subunit delta'; Validated	97.29
PTZ00293	211	thymidine kinase; Provisional	97.29
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.29
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	97.29
KOG2543|consensus	438		97.28
PTZ00202	550	tuzin; Provisional	97.28
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	97.28
TIGR00376	637	DNA helicase, putative. The gene product may repre	97.27
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.26
COG1127	263	Ttg2A ABC-type transport system involved in resist	97.26
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.26
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.26
PF00154	322	RecA: recA bacterial DNA recombination protein; In	97.25
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	97.25
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.25
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.24
PRK09825	176	idnK D-gluconate kinase; Provisional	97.24
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	97.24
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	97.23
PRK00300	205	gmk guanylate kinase; Provisional	97.23
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	97.23
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.22
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.21
PRK09302	509	circadian clock protein KaiC; Reviewed	97.2
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.2
PRK14737	186	gmk guanylate kinase; Provisional	97.2
PRK10646	153	ADP-binding protein; Provisional	97.19
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.19
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.18
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	97.18
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.18
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.17
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.17
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.16
PRK13808	333	adenylate kinase; Provisional	97.16
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	97.16
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	97.16
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.15
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.15
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.14
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.14
PRK06761	282	hypothetical protein; Provisional	97.14
KOG0058|consensus	716		97.14
PRK07667	193	uridine kinase; Provisional	97.14

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

Probab=99.97  E-value=5.8e-31  Score=211.35  Aligned_cols=124  Identities=52%  Similarity=0.899  Sum_probs=118.4

Q ss_pred             chhHHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208          73 REEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus        73 ~~~~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..+..+..|.++|+||||++++++++++.++.|+.+|+.|+.+|+.+|+|+|||||||||||.||+|+|++.++.|+.+.
T Consensus       138 ~~M~v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvv  217 (406)
T COG1222         138 SVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVV  217 (406)
T ss_pred             heeeeccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEec
Confidence            34455667899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         153 GPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      ++++..+|+|+....++++|+.|+..+||||||||||++..+|-
T Consensus       218 gSElVqKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~  261 (406)
T COG1222         218 GSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRF  261 (406)
T ss_pred             cHHHHHHHhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccc
Confidence            99999999999999999999999999999999999999999883

>KOG0733|consensus

Probab=99.96  E-value=2.8e-29  Score=212.57  Aligned_cols=119  Identities=45%  Similarity=0.857  Sum_probs=115.7

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      .-|.++|+|||+++++..++..++.+|.++|+.|+++|+..+.|||||||||||||.||+|+|++.+..|+.|.++++++
T Consensus       504 tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlN  583 (802)
T KOG0733|consen  504 TVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLN  583 (802)
T ss_pred             ecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHH
Confidence            35789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccCC
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK  197 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~~  197 (197)
                      +|+|+++..++.+|.+|+...|||||+||+|.|.++|+.
T Consensus       584 kYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~  622 (802)
T KOG0733|consen  584 KYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSD  622 (802)
T ss_pred             HHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCC
Confidence            999999999999999999999999999999999999863

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

Probab=99.95  E-value=1.1e-27  Score=185.60  Aligned_cols=178  Identities=31%  Similarity=0.560  Sum_probs=151.3

Q ss_pred             hhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCCCccccc
Q psy6208          10 SNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIG   89 (197)
Q Consensus        10 ~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   89 (197)
                      ..+||.|.+++|...  .+..|+..-....-+...|+|+.+.|.+..++...+.+.... +.  ....+..+.++++|++
T Consensus        50 ~~~F~~YArdQW~Ge--~v~eg~ylFD~~~~pdyAfkvI~~~P~~~~i~~st~i~vl~~-~~--~~~~e~~~~it~ddVi  124 (368)
T COG1223          50 PEVFNIYARDQWLGE--VVREGDYLFDTRMFPDYAFKVIRVVPSGGGIITSTTIFVLET-PR--EEDREIISDITLDDVI  124 (368)
T ss_pred             HHHHHHHHHHhhcce--eeecCceEeecccccccceeEEEEeCCCCceecceEEEEecC-cc--hhhhhhhccccHhhhh
Confidence            468999999999864  788899988888888889999999998888776666655542 22  2223445689999999


Q ss_pred             CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHH
Q psy6208          90 GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLR  169 (197)
Q Consensus        90 g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~  169 (197)
                      |++.+++..+-.+ .++..|+.|..+   .|+++|+|||||||||++|+|+|++.+.+++.+++.++.++++|.....++
T Consensus       125 GqEeAK~kcrli~-~yLenPe~Fg~W---APknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGdgar~Ih  200 (368)
T COG1223         125 GQEEAKRKCRLIM-EYLENPERFGDW---APKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIH  200 (368)
T ss_pred             chHHHHHHHHHHH-HHhhChHHhccc---CcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhhHHHHHH
Confidence            9999999875544 457888887764   488999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         170 KAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       170 ~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +++++|+..+|||+||||+|.++-+|.
T Consensus       201 ely~rA~~~aPcivFiDE~DAiaLdRr  227 (368)
T COG1223         201 ELYERARKAAPCIVFIDELDAIALDRR  227 (368)
T ss_pred             HHHHHHHhcCCeEEEehhhhhhhhhhh
Confidence            999999999999999999999987763

>KOG0730|consensus

Probab=99.95  E-value=2.3e-28  Score=208.82  Aligned_cols=117  Identities=49%  Similarity=0.911  Sum_probs=114.5

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|+||||+++.+++|++.+.+|+.+++.|.++|+.++++||+|||||||||++|+++|++.+.+|+.+.+++++++
T Consensus       428 ~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk  507 (693)
T KOG0730|consen  428 MPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSK  507 (693)
T ss_pred             CCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |+|+++..++.+|+.|+..+|||||+||||.++.+|+
T Consensus       508 ~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~  544 (693)
T KOG0730|consen  508 YVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRG  544 (693)
T ss_pred             hcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccC
Confidence            9999999999999999999999999999999999984

>KOG0736|consensus

Probab=99.95  E-value=6.2e-28  Score=208.67  Aligned_cols=119  Identities=46%  Similarity=0.875  Sum_probs=113.3

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+..|.++|+||||+++++.+|.+.+..|+.++++|.. |..+..|||||||||||||.+|+|+|.++...|+.|.++++
T Consensus       663 APKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPEL  741 (953)
T KOG0736|consen  663 APKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPEL  741 (953)
T ss_pred             CCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHH
Confidence            44578999999999999999999999999999999875 56778899999999999999999999999999999999999


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      .+.|+|++|.+++++|++|+..+|||||+||+|+|+|+|+
T Consensus       742 LNMYVGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG  781 (953)
T KOG0736|consen  742 LNMYVGQSEENVREVFERARSAAPCVIFFDELDSLAPNRG  781 (953)
T ss_pred             HHHHhcchHHHHHHHHHHhhccCCeEEEeccccccCccCC
Confidence            9999999999999999999999999999999999999996

>KOG0733|consensus

Probab=99.94  E-value=1.1e-26  Score=197.06  Aligned_cols=114  Identities=52%  Similarity=0.956  Sum_probs=111.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      .++|.||||.+..+.++.+.+.. +.+|+.|..+|+.+++|+|||||||||||+||+|+|.+++.+|+.++++++.+.+.
T Consensus       186 nv~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvS  264 (802)
T KOG0733|consen  186 NVSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVS  264 (802)
T ss_pred             CcchhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccC
Confidence            67899999999999999999988 99999999999999999999999999999999999999999999999999999999


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |++++.++++|+.|....|||+||||||.+.|+|+
T Consensus       265 GESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe  299 (802)
T KOG0733|consen  265 GESEKKIRELFDQAKSNAPCIVFIDEIDAITPKRE  299 (802)
T ss_pred             cccHHHHHHHHHHHhccCCeEEEeecccccccchh
Confidence            99999999999999999999999999999999996

>KOG0727|consensus

Probab=99.93  E-value=3.3e-25  Score=171.44  Aligned_cols=120  Identities=54%  Similarity=0.895  Sum_probs=115.1

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      .+...|.+++.|+||++-+++++++.++.|+.+.++|+.+|+.+++|+|+|||||||||+|++|+|+.....|+.+.+++
T Consensus       145 ~~~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgse  224 (408)
T KOG0727|consen  145 GPDEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSE  224 (408)
T ss_pred             CCCCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHH
Confidence            34456789999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         156 IMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +..+|.|+....++.+|+.|+.+.|+||||||+|.++.+|
T Consensus       225 fvqkylgegprmvrdvfrlakenapsiifideidaiatkr  264 (408)
T KOG0727|consen  225 FVQKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKR  264 (408)
T ss_pred             HHHHHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhh
Confidence            9999999999999999999999999999999999999887

>KOG0739|consensus

Probab=99.93  E-value=1.2e-25  Score=177.19  Aligned_cols=116  Identities=46%  Similarity=0.779  Sum_probs=110.4

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .|.+.|+|+.|++.+++.|++++..|.+.|.+|..-. .+-++|||||||||||+.||+|+|.+.+..|+.++.++++++
T Consensus       127 KPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR-~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSK  205 (439)
T KOG0739|consen  127 KPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKR-KPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK  205 (439)
T ss_pred             CCCCchhhhccchhHHHHHHhheeecccchhhhcCCC-CcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHH
Confidence            5789999999999999999999999999999998643 567899999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |.|++++.++.+|+.|+.+.|+||||||||.|+++|+
T Consensus       206 WmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~  242 (439)
T KOG0739|consen  206 WMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRS  242 (439)
T ss_pred             HhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCC
Confidence            9999999999999999999999999999999999986

>KOG0738|consensus

Probab=99.92  E-value=1.9e-25  Score=181.12  Aligned_cols=117  Identities=44%  Similarity=0.735  Sum_probs=112.3

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      .++.+.|+||.|+.++++-|++++..|+..|++|+.+. .+-+++|++||||||||+||+|+|.+.+..|+.|+.+.+.+
T Consensus       205 ~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~Gir-rPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltS  283 (491)
T KOG0738|consen  205 RNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIR-RPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTS  283 (491)
T ss_pred             cCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcc-cccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhh
Confidence            46789999999999999999999999999999999875 67889999999999999999999999999999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +|.|++++.++-+|+.|+.++|++|||||||.|+.+|+
T Consensus       284 KwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG  321 (491)
T KOG0738|consen  284 KWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRG  321 (491)
T ss_pred             hhccchHHHHHHHHHHHHHhCCceeehhhHHHHHhcCC
Confidence            99999999999999999999999999999999999985

>KOG0652|consensus

Probab=99.92  E-value=2e-24  Score=167.79  Aligned_cols=166  Identities=39%  Similarity=0.678  Sum_probs=139.1

Q ss_pred             cCCEEEEecCcceEEEEEEE-e------cCCCeEEEcCceEEEEcCCCCc-----chhHHhhcCCCCcccccCcHHHHHH
Q psy6208          30 KDDLFIVRGGMRAVEFKIVD-T------DPAPYCIVAADTVIHCEGDPIK-----REEEEEASNAVGYDDIGGCRKQLAQ   97 (197)
Q Consensus        30 ~~~~~~~~~~~~~~~~~v~~-~------~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~i~g~~~~~~~   97 (197)
                      .|....+..+.+..+|-.+- +      .|...+.+...+.+.+..-|..     ........|.-.++||||++.++++
T Consensus       103 kgkcaViktStRqt~fLPvvGLvd~~~LkPgDLVgvnKDsyliletLP~eyDsrVkaMevDekPtE~YsDiGGldkQIqE  182 (424)
T KOG0652|consen  103 KGKCAVIKTSTRQTYFLPVVGLVDPDKLKPGDLVGVNKDSYLILETLPSEYDSRVKAMEVDEKPTEQYSDIGGLDKQIQE  182 (424)
T ss_pred             cceeEEEecccceeeeeeeecccChhhCCCcceeeecCCceeehhcCChhhhhhcceeeeccCCcccccccccHHHHHHH
Confidence            46666777777777765432 2      4666666666666555443321     1122234567789999999999999


Q ss_pred             HHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhc
Q psy6208          98 IKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADK  177 (197)
Q Consensus        98 l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~  177 (197)
                      +.+++..++.+++.|..+|+.+|.|+|+|||||||||.+|+|.|...+..|+.+.++.+...++|...+.++..|..|..
T Consensus       183 LvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMfIGdGAkLVRDAFaLAKE  262 (424)
T KOG0652|consen  183 LVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFIGDGAKLVRDAFALAKE  262 (424)
T ss_pred             HHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhhhcchHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEEcccCccCccc
Q psy6208         178 NSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~~r  195 (197)
                      ..|+||||||+|.+..+|
T Consensus       263 kaP~IIFIDElDAIGtKR  280 (424)
T KOG0652|consen  263 KAPTIIFIDELDAIGTKR  280 (424)
T ss_pred             cCCeEEEEechhhhcccc
Confidence            999999999999999887

>KOG0728|consensus

Probab=99.91  E-value=1.7e-24  Score=167.30  Aligned_cols=120  Identities=48%  Similarity=0.866  Sum_probs=114.4

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+.-|.-+++-+||++.+++++++.++.|.++|++|+.+|+..|.|+|||||||+|||.||+++|+...+.|+.++++++
T Consensus       138 VeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgsel  217 (404)
T KOG0728|consen  138 VEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSEL  217 (404)
T ss_pred             hhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHH
Confidence            44566778888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      ..+|+|+....++++|-.|+..+|+|||+||||++...|-
T Consensus       218 vqk~igegsrmvrelfvmarehapsiifmdeidsigs~r~  257 (404)
T KOG0728|consen  218 VQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRV  257 (404)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcCCceEeeecccccccccc
Confidence            9999999999999999999999999999999999998873

>KOG0726|consensus

Probab=99.91  E-value=7.1e-25  Score=172.42  Aligned_cols=127  Identities=48%  Similarity=0.862  Sum_probs=118.2

Q ss_pred             CCCcchhHHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208          69 DPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      +|......-+..|.-++.||||+++++++|++.++.|+.+|++|+.+|+.++.++++||+||||||.||+|+|+.....|
T Consensus       168 dpmv~vmK~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATF  247 (440)
T KOG0726|consen  168 DPMVSVMKVEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATF  247 (440)
T ss_pred             CccceeeecccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhh
Confidence            34434444556678899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         149 FLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       149 ~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+..+++..+|.|...+.++++|+.|...+|+|+||||||.+..+|
T Consensus       248 lRvvGseLiQkylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKR  294 (440)
T KOG0726|consen  248 LRVVGSELIQKYLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKR  294 (440)
T ss_pred             hhhhhHHHHHHHhccchHHHHHHHHHHHhcCCceEEeehhhhhcccc
Confidence            99999999999999999999999999999999999999999999887

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.91  E-value=1.9e-23  Score=187.87  Aligned_cols=182  Identities=53%  Similarity=0.909  Sum_probs=157.5

Q ss_pred             hHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCCCcccccCc
Q psy6208          12 LFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGC   91 (197)
Q Consensus        12 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~g~   91 (197)
                      .+..++..++.+  .++..|+.+.+........|.|+...|.+.+.+...+.+.+...+..... ....+.++|+||+|+
T Consensus       107 ~~~~~~~~~~~~--~~~~~g~~~~~~~~~~~~~~~v~~~~p~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~~di~G~  183 (733)
T TIGR01243       107 DFVDYVKEFLLG--KPISKGETVIVPVLEGALPFVVVSTQPAGFVYVTEATEVEIREKPVREEI-ERKVPKVTYEDIGGL  183 (733)
T ss_pred             chHHHHHHHHcC--CCCCCCCEEEecccCcceeEEEEecCCCCcEEECCCceEEecCCcccccc-ccCCCCCCHHHhcCH
Confidence            345677777775  58889999888766677889999988888888888887777654433221 123467999999999


Q ss_pred             HHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHH
Q psy6208          92 RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA  171 (197)
Q Consensus        92 ~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  171 (197)
                      +.+++++.+++..++.+++.++.+++.++.++||+||||||||++++++|++++.+++.++++++.+.+.+..+..++.+
T Consensus       184 ~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g~~~~~l~~l  263 (733)
T TIGR01243       184 KEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREI  263 (733)
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcccccHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCeEEEEcccCccCcccC
Q psy6208         172 FEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       172 ~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |+.+....|++|||||+|.++++|+
T Consensus       264 f~~a~~~~p~il~iDEid~l~~~r~  288 (733)
T TIGR01243       264 FKEAEENAPSIIFIDEIDAIAPKRE  288 (733)
T ss_pred             HHHHHhcCCcEEEeehhhhhccccc
Confidence            9999998999999999999998764

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.

>KOG0729|consensus

Probab=99.91  E-value=2.2e-24  Score=168.01  Aligned_cols=119  Identities=50%  Similarity=0.899  Sum_probs=114.6

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+..+.+++.|++|..++++.+++.++.|+.+|+.|-.+|+.++.++|+|||||||||.+|+|+|+..+..|+.+-.+++
T Consensus       168 veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigsel  247 (435)
T KOG0729|consen  168 VEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSEL  247 (435)
T ss_pred             eecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHH
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ..+|+|+....++++|+.|+..+.|+||+||||.+.+.|
T Consensus       248 vqkyvgegarmvrelf~martkkaciiffdeidaiggar  286 (435)
T KOG0729|consen  248 VQKYVGEGARMVRELFEMARTKKACIIFFDEIDAIGGAR  286 (435)
T ss_pred             HHHHhhhhHHHHHHHHHHhcccceEEEEeeccccccCcc
Confidence            999999999999999999999999999999999999877

>KOG0735|consensus

Probab=99.91  E-value=3.7e-24  Score=184.18  Aligned_cols=115  Identities=43%  Similarity=0.802  Sum_probs=112.6

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      .+.|+||+|+.++++.+.+.+.+|.++|..|...+++.+.|||||||||||||+||.++|...+..|+.+.++++.++|+
T Consensus       663 gi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyI  742 (952)
T KOG0735|consen  663 GIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYI  742 (952)
T ss_pred             CCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHh
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |.++.+++.+|.+|+..+|||||+||+|+++|+|+
T Consensus       743 GaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRG  777 (952)
T KOG0735|consen  743 GASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRG  777 (952)
T ss_pred             cccHHHHHHHHHHhhccCCeEEEeccccccCcccC
Confidence            99999999999999999999999999999999996

>KOG0734|consensus

Probab=99.91  E-value=6.6e-24  Score=177.96  Aligned_cols=120  Identities=43%  Similarity=0.766  Sum_probs=113.1

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      .++...+++|+|+.|.++++.++.+.+.. ++.|..|.++|-+-|+||||.||||||||.||+|+|.+.+.||++..+++
T Consensus       294 ~p~~~~nv~F~dVkG~DEAK~ELeEiVef-LkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSE  372 (752)
T KOG0734|consen  294 DPEQMKNVTFEDVKGVDEAKQELEEIVEF-LKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSE  372 (752)
T ss_pred             ChhhhcccccccccChHHHHHHHHHHHHH-hcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccc
Confidence            34455688999999999999999998876 89999999999999999999999999999999999999999999999999


Q ss_pred             hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         156 IMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +-..++|...+.++.+|..|+..+||||||||||.+..+|.
T Consensus       373 FdEm~VGvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~  413 (752)
T KOG0734|consen  373 FDEMFVGVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRN  413 (752)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhcCCeEEEEechhhhcccCC
Confidence            99999999999999999999999999999999999999984

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

Probab=99.89  E-value=4.4e-23  Score=172.91  Aligned_cols=117  Identities=53%  Similarity=0.888  Sum_probs=111.7

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ..+.++|+||+|++.+++++++.+..++.+++.|..+|+.++.++||+||||||||++|+++|++++.+++.+.++++..
T Consensus       138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~  217 (398)
T PTZ00454        138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ  217 (398)
T ss_pred             CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHH
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.++.+..++.+|..+....|+||||||+|.++++|
T Consensus       218 k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r  254 (398)
T PTZ00454        218 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR  254 (398)
T ss_pred             HhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhcccc
Confidence            9999999999999999999999999999999998765

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.89  E-value=9.5e-23  Score=171.14  Aligned_cols=117  Identities=55%  Similarity=0.969  Sum_probs=111.2

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ..+.++|+||+|++++++++.+.+..++.+++.|+.+|+.++.++||+||||||||++|+++|++++.+++.++++++..
T Consensus       124 ~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~  203 (389)
T PRK03992        124 ESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQ  203 (389)
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhH
Confidence            35678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.++.+..++.+|+.+....|+||||||+|.++++|
T Consensus       204 ~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r  240 (389)
T PRK03992        204 KFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKR  240 (389)
T ss_pred             hhccchHHHHHHHHHHHHhcCCeEEEEechhhhhccc
Confidence            9999999999999999998899999999999998765

>KOG0731|consensus

Probab=99.88  E-value=1.3e-22  Score=177.93  Aligned_cols=115  Identities=43%  Similarity=0.815  Sum_probs=110.5

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      ...++|.|+.|.++++.+|.+++.. +++|+.|.++|+..|+|+||+||||||||.||+|+|.+.+.||+.++++++...
T Consensus       305 ~t~V~FkDVAG~deAK~El~E~V~f-LKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~  383 (774)
T KOG0731|consen  305 NTGVKFKDVAGVDEAKEELMEFVKF-LKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEM  383 (774)
T ss_pred             CCCCccccccCcHHHHHHHHHHHHH-hcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHH
Confidence            4458999999999999999999876 899999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+.....++.+|..++...||++|+||||.+..+|
T Consensus       384 ~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r  419 (774)
T KOG0731|consen  384 FVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKR  419 (774)
T ss_pred             hcccchHHHHHHHHHhhccCCeEEEecccccccccc
Confidence            999889999999999999999999999999999988

>KOG0730|consensus

Probab=99.88  E-value=1e-22  Score=174.33  Aligned_cols=182  Identities=64%  Similarity=1.090  Sum_probs=159.0

Q ss_pred             CcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCCCcc
Q psy6208           7 GEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYD   86 (197)
Q Consensus         7 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (197)
                      ....+.++.+...++.+.++++..+++.   .....+.+++....+.+  .+...+...+.+++....... . +.++ +
T Consensus       113 ~i~~~~~d~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~--~v~~~t~~~~~~~~~~~~~~~-~-~~~~-~  184 (693)
T KOG0730|consen  113 GIAGELFDVLERPFLLEALRPLVKGDTF---AGLNPAEFKVLELDPSP--QVTPDTELSYLGEPAKREEEE-L-PEVG-D  184 (693)
T ss_pred             cchhhhhhhhhhhhhhhhhCccccccch---hhhhhhhhhccccccch--hcCccchhhhcCCCccccccc-c-cccc-c
Confidence            3456678889999999999998888887   45566777777666555  556666677777776654444 3 5677 8


Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHH
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES  166 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~  166 (197)
                      +++|...++.++++.+..++..+..+..+|+++++++|+|||||+|||.+++++|++.++.++.+++++++..+.|+++.
T Consensus       185 ~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte~  264 (693)
T KOG0730|consen  185 DIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETES  264 (693)
T ss_pred             ccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCC-CeEEEEcccCccCcccC
Q psy6208         167 NLRKAFEEADKNS-PSIIFIDELDAIAPKRE  196 (197)
Q Consensus       167 ~~~~~~~~a~~~~-~~vl~lDeid~l~~~r~  196 (197)
                      .++..|+.+...+ |+++||||+|.++|+|.
T Consensus       265 ~LR~~f~~a~k~~~psii~IdEld~l~p~r~  295 (693)
T KOG0730|consen  265 NLRKAFAEALKFQVPSIIFIDELDALCPKRE  295 (693)
T ss_pred             HHHHHHHHHhccCCCeeEeHHhHhhhCCccc
Confidence            9999999999988 99999999999999885

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

Probab=99.88  E-value=2.7e-22  Score=173.40  Aligned_cols=117  Identities=52%  Similarity=0.931  Sum_probs=112.8

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++++|++..+..+++.+.+++.+++.+...+..++.++||+||||||||++|+++|++++.+|+.+..+++.++
T Consensus       236 ~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk  315 (494)
T COG0464         236 DEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSK  315 (494)
T ss_pred             CCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhcc
Confidence            45789999999999999999999999999999998888999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |+|++++.++.+|..|+..+||||||||+|.+.+.|.
T Consensus       316 ~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~  352 (494)
T COG0464         316 WVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRG  352 (494)
T ss_pred             ccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCC
Confidence            9999999999999999999999999999999999885

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

Probab=99.87  E-value=2.7e-22  Score=169.39  Aligned_cols=118  Identities=53%  Similarity=0.957  Sum_probs=111.5

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      +..+..+|+||+|++.+++++.+++..++.+++.|..+|+.++.++||+||||||||++|+++|++++.+++.+.++++.
T Consensus       175 ~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~  254 (438)
T PTZ00361        175 DKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELI  254 (438)
T ss_pred             ccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhh
Confidence            44567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ..+.++....++.+|..+....|+||||||+|.+..+|
T Consensus       255 ~k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR  292 (438)
T PTZ00361        255 QKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKR  292 (438)
T ss_pred             hhhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccC
Confidence            99999998899999999999999999999999998765

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.87  E-value=7.1e-22  Score=177.76  Aligned_cols=117  Identities=52%  Similarity=0.983  Sum_probs=112.2

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++++|++..++++.+.+.+++.+++.++.++..++.++|||||||||||++|+++|++++.+++.++++++.+.
T Consensus       447 ~~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~  526 (733)
T TIGR01243       447 VPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSK  526 (733)
T ss_pred             ccccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhc
Confidence            35679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |+|+++..++.+|+.++...|+||||||+|.|+++|+
T Consensus       527 ~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~  563 (733)
T TIGR01243       527 WVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARG  563 (733)
T ss_pred             ccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCC
Confidence            9999999999999999999999999999999998764

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.

>KOG0737|consensus

Probab=99.86  E-value=2.6e-22  Score=162.17  Aligned_cols=116  Identities=47%  Similarity=0.800  Sum_probs=108.6

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhC-CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~-~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      .-.++|+||+|++..++++++.+..|+.+|+.|..-+ ..++.||||+||||||||.+|+|+|++.+..|+.+..+.+.+
T Consensus        86 ~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~  165 (386)
T KOG0737|consen   86 EIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTS  165 (386)
T ss_pred             hceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccch
Confidence            3468999999999999999999999999999996433 467899999999999999999999999999999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +|+|+.++.++.+|..|.+-.|++|||||+|++...|
T Consensus       166 KWfgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R  202 (386)
T KOG0737|consen  166 KWFGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQR  202 (386)
T ss_pred             hhHHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhc
Confidence            9999999999999999999999999999999998876

>KOG0651|consensus

Probab=99.85  E-value=2e-21  Score=153.91  Aligned_cols=117  Identities=44%  Similarity=0.845  Sum_probs=112.7

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ....++|++++|...++.++.+-++.++..+.++..+|+.+|.+++||||||+|||.+|++++..+++.++.+.++++.+
T Consensus       125 ~~~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~  204 (388)
T KOG0651|consen  125 DPRNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVD  204 (388)
T ss_pred             CccccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhh
Confidence            34568999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.|++...+++.|..|+...||+||+||||...++|
T Consensus       205 kyiGEsaRlIRemf~yA~~~~pciifmdeiDAigGRr  241 (388)
T KOG0651|consen  205 KYIGESARLIRDMFRYAREVIPCIIFMDEIDAIGGRR  241 (388)
T ss_pred             hhcccHHHHHHHHHHHHhhhCceEEeehhhhhhccEE
Confidence            9999999999999999999999999999999998876

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.85  E-value=2.7e-21  Score=165.61  Aligned_cols=118  Identities=48%  Similarity=0.883  Sum_probs=105.4

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------E
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------F  148 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------~  148 (197)
                      ..+.++|+||+|++.+++++++.+..++.+++.|+..|+.+++++|||||||||||++++++|++++.+          +
T Consensus       175 ~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~f  254 (512)
T TIGR03689       175 EVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYF  254 (512)
T ss_pred             cCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeE
Confidence            346889999999999999999999999999999999999999999999999999999999999998543          5


Q ss_pred             EEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCcccC
Q psy6208         149 FLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       149 ~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+..+++.+.+.++.+..++.+|..+..    +.|+||||||+|.++++|.
T Consensus       255 l~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~  306 (512)
T TIGR03689       255 LNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRG  306 (512)
T ss_pred             EeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccC
Confidence            56667888899999999999999988765    3699999999999988763

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.85  E-value=4.8e-21  Score=159.79  Aligned_cols=117  Identities=56%  Similarity=0.981  Sum_probs=109.6

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ..+.++|+|++|++++++++.+++..++.+++.++.+|+.++.+++|+||||||||++|+++|++++.+++.+.+.++..
T Consensus       115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~  194 (364)
T TIGR01242       115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVR  194 (364)
T ss_pred             cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHH
Confidence            45688999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.++....++.+|+.+....|+||||||+|.+..+|
T Consensus       195 ~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~  231 (364)
T TIGR01242       195 KYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKR  231 (364)
T ss_pred             HhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhcccc
Confidence            8888888889999999988889999999999997654

Many proteins may score above the trusted cutoff because an internal

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.85  E-value=5.7e-21  Score=165.13  Aligned_cols=116  Identities=45%  Similarity=0.822  Sum_probs=108.0

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|+|++|.+..+.++.+.+.. +..++.+..+|...+.++||+||||||||++++++|.+.+.+++.++++++...
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~~~~~-l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~  127 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM  127 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHH
Confidence            4578999999999999999998876 788889999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+.....++.+|+.+....|+||||||+|.+.++|+
T Consensus       128 ~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~  164 (495)
T TIGR01241       128 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRG  164 (495)
T ss_pred             HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccc
Confidence            9998999999999999999999999999999988764

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.83  E-value=4.5e-20  Score=158.03  Aligned_cols=112  Identities=31%  Similarity=0.451  Sum_probs=98.9

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  160 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~  160 (197)
                      +..+|++++|++..++.+.+....+   .......|+..++++||+||||||||++|+++|++++.+++.+++..+.+.+
T Consensus       223 ~~~~~~dvgGl~~lK~~l~~~~~~~---~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~  299 (489)
T CHL00195        223 VNEKISDIGGLDNLKDWLKKRSTSF---SKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGI  299 (489)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHh---hHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccc
Confidence            4578999999999999888755432   2334567888999999999999999999999999999999999999999999


Q ss_pred             cCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 AGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 ~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .|+++..++.+|+.+...+||||||||||.+++++
T Consensus       300 vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~  334 (489)
T CHL00195        300 VGESESRMRQMIRIAEALSPCILWIDEIDKAFSNS  334 (489)
T ss_pred             cChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccc
Confidence            99999999999999999999999999999987753

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

Probab=99.82  E-value=3.8e-20  Score=159.60  Aligned_cols=116  Identities=44%  Similarity=0.825  Sum_probs=110.5

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      ...++|.|+.|.+++++++.+.+.. ++.|..|..+|...|.++++.||||||||.||+|+|.+.+.||+.++.+++...
T Consensus       144 ~~~v~F~DVAG~dEakeel~EiVdf-Lk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVem  222 (596)
T COG0465         144 QVKVTFADVAGVDEAKEELSELVDF-LKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM  222 (596)
T ss_pred             ccCcChhhhcCcHHHHHHHHHHHHH-HhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhh
Confidence            3468999999999999999998876 889999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      ++|-....++.+|+.|++.+|||+||||+|.+..+|.
T Consensus       223 fVGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg  259 (596)
T COG0465         223 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRG  259 (596)
T ss_pred             hcCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccC
Confidence            9999999999999999999999999999999998884

>CHL00176 ftsH cell division protein; Validated

Probab=99.81  E-value=1e-19  Score=160.19  Aligned_cols=114  Identities=42%  Similarity=0.804  Sum_probs=104.9

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  160 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~  160 (197)
                      ..++|+|++|.++.++++.+.+.. +..+..+..++...+.++||+||||||||++|+++|.+.+.+++.++++++...+
T Consensus       178 ~~~~f~dv~G~~~~k~~l~eiv~~-lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~  256 (638)
T CHL00176        178 TGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMF  256 (638)
T ss_pred             CCCCHHhccChHHHHHHHHHHHHH-HhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHh
Confidence            457999999999999999888765 7888889999999999999999999999999999999999999999999998888


Q ss_pred             cCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 AGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 ~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.....++.+|+.+....||||||||+|.+..+|
T Consensus       257 ~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r  291 (638)
T CHL00176        257 VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQR  291 (638)
T ss_pred             hhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcc
Confidence            88778889999999999999999999999998665

>KOG0740|consensus

Probab=99.81  E-value=7.9e-20  Score=152.04  Aligned_cols=118  Identities=47%  Similarity=0.812  Sum_probs=110.7

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      ...+.+.|+|+.|++.+++.+.+++.+++..+..|..+. .+..++|+.||||+|||+|++|+|.+++..|+.++++.+.
T Consensus       145 ~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLt  223 (428)
T KOG0740|consen  145 DTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLT  223 (428)
T ss_pred             ccCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhh
Confidence            345679999999999999999999999999999998875 5677999999999999999999999999999999999999


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      ++|+|+.++.++.+|.-|+..+|+|+||||+|.++.+|.
T Consensus       224 sK~~Ge~eK~vralf~vAr~~qPsvifidEidslls~Rs  262 (428)
T KOG0740|consen  224 SKYVGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKRS  262 (428)
T ss_pred             hhccChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhcC
Confidence            999999999999999999999999999999999998873

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

Probab=99.81  E-value=1.4e-19  Score=147.83  Aligned_cols=113  Identities=24%  Similarity=0.351  Sum_probs=88.7

Q ss_pred             CCCcccc-cCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc
Q psy6208          82 AVGYDDI-GGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  160 (197)
Q Consensus        82 ~~~~~~i-~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~  160 (197)
                      ..+|+++ +|+--...-+.+.+....+  .+...+++..+.+++||||||||||++|+++|++++.+++.+++.++.+.+
T Consensus       111 ~~~f~~~~g~~~~~p~f~dk~~~hi~k--n~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~  188 (413)
T PLN00020        111 TRSFDNLVGGYYIAPAFMDKVAVHIAK--NFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESEN  188 (413)
T ss_pred             hcchhhhcCccccCHHHHHHHHHHHHh--hhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCc
Confidence            3455665 4544433333333322111  112235678999999999999999999999999999999999999999999


Q ss_pred             cCccHHHHHHHHHHHhc-----CCCeEEEEcccCccCcccC
Q psy6208         161 AGESESNLRKAFEEADK-----NSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       161 ~~~~~~~~~~~~~~a~~-----~~~~vl~lDeid~l~~~r~  196 (197)
                      .|++++.++++|+.|..     ++||||||||||.++++|+
T Consensus       189 vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~  229 (413)
T PLN00020        189 AGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFG  229 (413)
T ss_pred             CCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCC
Confidence            99999999999998864     5799999999999999874

>KOG0732|consensus

Probab=99.77  E-value=9.7e-19  Score=157.46  Aligned_cols=116  Identities=51%  Similarity=0.897  Sum_probs=108.9

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEech
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGP  154 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~  154 (197)
                      ...++|+++||++..+.++++.+..|+.+|+.|..+++.+++++|++||||||||..|+++|...     ...|+.-..+
T Consensus       259 ~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkga  338 (1080)
T KOG0732|consen  259 DSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGA  338 (1080)
T ss_pred             hcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCc
Confidence            34789999999999999999999999999999999999999999999999999999999999887     3456667788


Q ss_pred             hhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         155 EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +..++|+|+.+..++-+|+.|++..|+|+|+||||-|+|.|
T Consensus       339 D~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvr  379 (1080)
T KOG0732|consen  339 DCLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVR  379 (1080)
T ss_pred             hhhccccCcHHHHHHHHHHHHhccCceEEeccccccccccc
Confidence            99999999999999999999999999999999999999988

>KOG0741|consensus

Probab=99.77  E-value=1.1e-17  Score=140.70  Aligned_cols=120  Identities=41%  Similarity=0.707  Sum_probs=102.7

Q ss_pred             HhhcCCCCccc--ccCcHHHHHHH-HHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC-eEEEEe
Q psy6208          77 EEASNAVGYDD--IGGCRKQLAQI-KEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-FFFLIN  152 (197)
Q Consensus        77 ~~~~~~~~~~~--i~g~~~~~~~l-~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~-~~~~v~  152 (197)
                      .-.+|.+.|++  |||++.....+ +++...-..-|+..+.+|+...+|||||||||||||.+||.|...++. .--.+|
T Consensus       210 ~ii~Pdf~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVN  289 (744)
T KOG0741|consen  210 SIINPDFNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVN  289 (744)
T ss_pred             cccCCCCChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccC
Confidence            34567888887  78999988887 455566667788999999999999999999999999999999999965 455689


Q ss_pred             chhhhhhccCccHHHHHHHHHHHhc--------CCCeEEEEcccCccCcccC
Q psy6208         153 GPEIMSKLAGESESNLRKAFEEADK--------NSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~a~~--------~~~~vl~lDeid~l~~~r~  196 (197)
                      ++++.++|+|+++.+++.+|..|..        ..-.||++||||.+|.+|.
T Consensus       290 GPeIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRG  341 (744)
T KOG0741|consen  290 GPEILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRG  341 (744)
T ss_pred             cHHHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcC
Confidence            9999999999999999999988743        2246999999999999885

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

Probab=99.68  E-value=1.3e-16  Score=122.61  Aligned_cols=102  Identities=28%  Similarity=0.492  Sum_probs=66.8

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      ..-.+-++++++|++..+..+.-++......        -....+++||||||+|||+||+.+|++++.++..++++.+.
T Consensus        16 ~~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r--------~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~   87 (233)
T PF05496_consen   16 ERLRPKSLDEFIGQEHLKGNLKILIRAAKKR--------GEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIE   87 (233)
T ss_dssp             HHTS-SSCCCS-S-HHHHHHHHHHHHHHHCT--------TS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--
T ss_pred             HhcCCCCHHHccCcHHHHhhhHHHHHHHHhc--------CCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhh
Confidence            3445679999999999999998877653221        12345799999999999999999999999999988875441


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                            ....+..++....  ..+||||||||+|....
T Consensus        88 ------k~~dl~~il~~l~--~~~ILFIDEIHRlnk~~  117 (233)
T PF05496_consen   88 ------KAGDLAAILTNLK--EGDILFIDEIHRLNKAQ  117 (233)
T ss_dssp             ------SCHHHHHHHHT----TT-EEEECTCCC--HHH
T ss_pred             ------hHHHHHHHHHhcC--CCcEEEEechhhccHHH
Confidence                  1233444444433  35799999999998654

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.67  E-value=3e-16  Score=139.33  Aligned_cols=114  Identities=44%  Similarity=0.827  Sum_probs=102.9

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      ...|+++.|.+..++++.+.+.. +..+..+..++...+.+++|+||||||||+++++++.+++.+++.++++++...+.
T Consensus       148 ~~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~  226 (644)
T PRK10733        148 KTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV  226 (644)
T ss_pred             hCcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhh
Confidence            56789999999999999998876 55667777777788889999999999999999999999999999999999998888


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.....++.+|..+....|+||||||+|.+..+|+
T Consensus       227 g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~  261 (644)
T PRK10733        227 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG  261 (644)
T ss_pred             cccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccC
Confidence            88888999999999998999999999999987663

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

Probab=99.67  E-value=2.5e-16  Score=112.49  Aligned_cols=73  Identities=51%  Similarity=0.857  Sum_probs=68.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCC-CeEEEEcccCccCccc
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNS-PSIIFIDELDAIAPKR  195 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~-~~vl~lDeid~l~~~r  195 (197)
                      |||+||||||||++++.+|+.++.+++.+++.++.+.+.+.....+...|..+.... |+||+|||+|.+.++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~   74 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS   74 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccc
Confidence            689999999999999999999999999999999998888889999999999998877 9999999999998875

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 ....

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.66  E-value=4.8e-16  Score=124.19  Aligned_cols=105  Identities=24%  Similarity=0.345  Sum_probs=84.0

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCC---CCCceEEECCCCCcHHHHHHHHHHHh-------CCeEEEEech
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVK---PPRGILLYGPPGTGKTLIARAVANET-------GAFFFLINGP  154 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~---~~~~ill~G~~GtGKT~la~ala~~~-------~~~~~~v~~~  154 (197)
                      +++++|++.+++++++.+.++... ......|..   ...+++|+||||||||++|+++|+.+       ...++.++++
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~-~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~   83 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQIN-EKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA   83 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHH-HHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH
Confidence            468999999999999988776433 222233433   34568999999999999999999874       3478889999


Q ss_pred             hhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         155 EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ++.+.++++....+.++|+.+.   .+||||||+|.|..
T Consensus        84 ~l~~~~~g~~~~~~~~~~~~a~---~~VL~IDE~~~L~~  119 (261)
T TIGR02881        84 DLVGEYIGHTAQKTREVIKKAL---GGVLFIDEAYSLAR  119 (261)
T ss_pred             HhhhhhccchHHHHHHHHHhcc---CCEEEEechhhhcc
Confidence            9999999998888888888764   46999999999975

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.64  E-value=5.7e-16  Score=145.72  Aligned_cols=87  Identities=22%  Similarity=0.360  Sum_probs=73.7

Q ss_pred             hhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc----------cC----------------
Q psy6208         109 PSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL----------AG----------------  162 (197)
Q Consensus       109 ~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~----------~~----------------  162 (197)
                      .....++|+.+++||||+||||||||.||+|+|.+++.|++.++++++...+          .+                
T Consensus      1619 kP~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~ 1698 (2281)
T CHL00206       1619 KPFSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLD 1698 (2281)
T ss_pred             cCHHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccc
Confidence            3455778899999999999999999999999999999999999999988543          11                


Q ss_pred             ---------------ccH--HHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         163 ---------------ESE--SNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       163 ---------------~~~--~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                                     ..+  ..++.+|+.|++.+||||+|||||.++.+.
T Consensus      1699 ~e~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~d 1748 (2281)
T CHL00206       1699 TELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNE 1748 (2281)
T ss_pred             hhhhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCc
Confidence                           111  237889999999999999999999998763

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.64  E-value=1.5e-15  Score=122.72  Aligned_cols=104  Identities=21%  Similarity=0.354  Sum_probs=84.9

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCC---CCceEEECCCCCcHHHHHHHHHHHhC-------CeEEEEechhh
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKP---PRGILLYGPPGTGKTLIARAVANETG-------AFFFLINGPEI  156 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~---~~~ill~G~~GtGKT~la~ala~~~~-------~~~~~v~~~~~  156 (197)
                      +++|++++++++.+++.+ ...+......|...   ..+++|+||||||||++|++++..+.       .++++++++++
T Consensus        23 ~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l  101 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDL  101 (284)
T ss_pred             hccCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHH
Confidence            689999999999998877 44556666666553   44799999999999999999987762       37999999999


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ...+.|+....+..+|+.+.   .++|||||++.|.+.
T Consensus       102 ~~~~~g~~~~~~~~~~~~a~---~gvL~iDEi~~L~~~  136 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKRAM---GGVLFIDEAYYLYRP  136 (284)
T ss_pred             hHhhcccchHHHHHHHHHcc---CcEEEEechhhhccC
Confidence            88888888777888888764   369999999998543

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.

>CHL00181 cbbX CbbX; Provisional

Probab=99.63  E-value=1.7e-15  Score=122.36  Aligned_cols=105  Identities=21%  Similarity=0.359  Sum_probs=83.4

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCC---CCceEEECCCCCcHHHHHHHHHHHh-------CCeEEEEechh
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKP---PRGILLYGPPGTGKTLIARAVANET-------GAFFFLINGPE  155 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~---~~~ill~G~~GtGKT~la~ala~~~-------~~~~~~v~~~~  155 (197)
                      ++++|++.+++++.+++.+. .........|...   +.+++|+||||||||++|+++|+.+       ..+++++++.+
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~-~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALL-LIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHH-HHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            37999999999999988763 3345555666543   3358999999999999999998875       23689999999


Q ss_pred             hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         156 IMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +.+.+.|+.......+++.+.   .+||||||++.|...
T Consensus       102 l~~~~~g~~~~~~~~~l~~a~---ggVLfIDE~~~l~~~  137 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKAM---GGVLFIDEAYYLYKP  137 (287)
T ss_pred             HHHHHhccchHHHHHHHHHcc---CCEEEEEccchhccC
Confidence            999998888777777777764   469999999998543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.60  E-value=8.7e-16  Score=131.53  Aligned_cols=180  Identities=19%  Similarity=0.251  Sum_probs=108.0

Q ss_pred             ccCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeE-EEcC---ceE-EEEcCCCC-cchhH
Q psy6208           3 LVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYC-IVAA---DTV-IHCEGDPI-KREEE   76 (197)
Q Consensus         3 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~-~~~~---~~~-~~~~~~~~-~~~~~   76 (197)
                      ...+.....++|.|...|+.++|.......+..+.+....+.|.+.. .+.... ....   ... ......+. .....
T Consensus        34 ~~~~~l~l~vPn~F~~~wi~~~y~~~I~~al~~~~g~~~~I~~~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (450)
T PRK00149         34 LEDNTLTLYVPNRFVKDWIEKNYLDLIEEALQELTGENPKVEFVRPA-APSAEAPAAPAAAPPSSAAPAAAAEEAEPLFG  112 (450)
T ss_pred             eeCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHcCCCceEEEEECC-Cccccccccccccccccccccccccccccccc
Confidence            34577888999999999999999887776666555566666665422 111000 0000   000 00000000 00112


Q ss_pred             HhhcCCCCcccc-cCcHH--HHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeE
Q psy6208          77 EEASNAVGYDDI-GGCRK--QLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFF  148 (197)
Q Consensus        77 ~~~~~~~~~~~i-~g~~~--~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~  148 (197)
                      ..+++.++|+++ .|.+.  +...+.++...+          + ....+++||||+|+|||||++++++++     +..+
T Consensus       113 ~~l~~~~tfd~fv~g~~n~~a~~~~~~~~~~~----------~-~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v  181 (450)
T PRK00149        113 SPLNPKYTFDNFVVGKSNRLAHAAALAVAENP----------G-KAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKV  181 (450)
T ss_pred             cCCCCCCcccccccCCCcHHHHHHHHHHHhCc----------C-ccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeE
Confidence            345678899994 34333  444444443322          1 223569999999999999999999987     5679


Q ss_pred             EEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         149 FLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       149 ~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +++++.++...+...........|....+ .+++|+|||+|.+.+++
T Consensus       182 ~yi~~~~~~~~~~~~~~~~~~~~~~~~~~-~~dlLiiDDi~~l~~~~  227 (450)
T PRK00149        182 VYVTSEKFTNDFVNALRNNTMEEFKEKYR-SVDVLLIDDIQFLAGKE  227 (450)
T ss_pred             EEEEHHHHHHHHHHHHHcCcHHHHHHHHh-cCCEEEEehhhhhcCCH
Confidence            99999888766543322222223333333 47899999999997753

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.59  E-value=1.4e-15  Score=128.63  Aligned_cols=178  Identities=18%  Similarity=0.234  Sum_probs=104.1

Q ss_pred             cCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCC
Q psy6208           4 VPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAV   83 (197)
Q Consensus         4 ~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (197)
                      ..+.....++|.|...|+.++|.......+..+.+....+.|.+....+...... ..........+........+++.+
T Consensus        29 ~~~~l~l~~Pn~F~~~wi~~~y~~~i~~~l~~~~g~~~~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~  107 (405)
T TIGR00362        29 EGGTLIISVPNEFAKDWIEKNYLDLIEELLQELFGEEIEIEFVVGDPEESLEPTS-AKPEPKPPEASAEPTNNSPLNPKY  107 (405)
T ss_pred             eCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCcccccccc-cccccCcccccccccccCCCCCCC
Confidence            4566788889999999999998877776666565666666665432111100000 000000000000001123456788


Q ss_pred             Cccc-ccCcHHH--HHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEechh
Q psy6208          84 GYDD-IGGCRKQ--LAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPE  155 (197)
Q Consensus        84 ~~~~-i~g~~~~--~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~~  155 (197)
                      +|++ ++|.+..  ...+.++...+           .....+++||||+|+|||||++++++++     +..++++++.+
T Consensus       108 tfd~fi~g~~n~~a~~~~~~~~~~~-----------~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~  176 (405)
T TIGR00362       108 TFDNFVVGKSNRLAHAAALAVAENP-----------GKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEK  176 (405)
T ss_pred             cccccccCCcHHHHHHHHHHHHhCc-----------CccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHH
Confidence            9999 4454443  22333333221           1224569999999999999999999887     57899999988


Q ss_pred             hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         156 IMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +...+...........|....+ .+++|+|||+|.+.++
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~-~~dlLiiDDi~~l~~~  214 (405)
T TIGR00362       177 FTNDFVNALRNNKMEEFKEKYR-SVDLLLIDDIQFLAGK  214 (405)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHH-hCCEEEEehhhhhcCC
Confidence            7665432221111112322222 3689999999998775

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).

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.57  E-value=2.7e-15  Score=127.93  Aligned_cols=171  Identities=14%  Similarity=0.232  Sum_probs=101.8

Q ss_pred             cCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCC
Q psy6208           4 VPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAV   83 (197)
Q Consensus         4 ~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (197)
                      ..+.....++|.|...|+.++|.......+..+.+....+.|.+....+....   .....     ..........++.+
T Consensus        31 ~~~~~~l~~p~~f~~~~i~~~~~~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~---~~~~~-----~~~~~~~~~l~~~~  102 (440)
T PRK14088         31 EGNKVVFSVGNLFIKEWLEKKYGSVLSKAVKEVLGKDATFEITYEAFEPHSSY---SEPLV-----KKRAVLLTPLNPDY  102 (440)
T ss_pred             eCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhCCCceEEEEeCCCCccccc---cCCcc-----cccccccCCCCCCC
Confidence            45667888999999999999987776655544444444444433111111000   00000     00001123456789


Q ss_pred             Cccccc-CcHHH--HHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEechh
Q psy6208          84 GYDDIG-GCRKQ--LAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPE  155 (197)
Q Consensus        84 ~~~~i~-g~~~~--~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~~  155 (197)
                      +|++++ |.+..  ...+.+....+            ....+++||||+|+|||||++++++++     +..++++++.+
T Consensus       103 tFdnFv~g~~n~~a~~~~~~~~~~~------------~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~  170 (440)
T PRK14088        103 TFENFVVGPGNSFAYHAALEVAKNP------------GRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK  170 (440)
T ss_pred             cccccccCCchHHHHHHHHHHHhCc------------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHH
Confidence            999964 54332  22233322211            123469999999999999999999986     46889999988


Q ss_pred             hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         156 IMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +...+.......-...|....+..+++|+|||++.+.++
T Consensus       171 f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~  209 (440)
T PRK14088        171 FLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGK  209 (440)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCc
Confidence            876654322211112344434445899999999988754

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

Probab=99.56  E-value=8.7e-15  Score=115.28  Aligned_cols=99  Identities=27%  Similarity=0.522  Sum_probs=78.9

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      ..+..|++.+|+++.++++.-++.......        ...-++||+||||.|||+||+.+|++++..+...+++.+   
T Consensus        20 lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~--------e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~l---   88 (332)
T COG2255          20 LRPKTLDEFIGQEKVKEQLQIFIKAAKKRG--------EALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPAL---   88 (332)
T ss_pred             cCcccHHHhcChHHHHHHHHHHHHHHHhcC--------CCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccc---
Confidence            346789999999999999999987653332        344579999999999999999999999999888887766   


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                         +....+..++.....  .+||||||||+|.+.
T Consensus        89 ---eK~gDlaaiLt~Le~--~DVLFIDEIHrl~~~  118 (332)
T COG2255          89 ---EKPGDLAAILTNLEE--GDVLFIDEIHRLSPA  118 (332)
T ss_pred             ---cChhhHHHHHhcCCc--CCeEEEehhhhcChh
Confidence               334455666665443  479999999999875

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

Probab=99.54  E-value=2e-14  Score=117.92  Aligned_cols=97  Identities=31%  Similarity=0.521  Sum_probs=75.9

Q ss_pred             cCCCCcccccCcHHHHHH---HHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQ---IKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~---l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      -.+-++++++|++..+..   |.+++..             ..-.+++||||||||||++|+.||...+..|..+++..-
T Consensus        18 mRP~~lde~vGQ~HLlg~~~~lrr~v~~-------------~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~   84 (436)
T COG2256          18 LRPKSLDEVVGQEHLLGEGKPLRRAVEA-------------GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTS   84 (436)
T ss_pred             hCCCCHHHhcChHhhhCCCchHHHHHhc-------------CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccc
Confidence            346788999999887743   4444442             456689999999999999999999999999999986432


Q ss_pred             hhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCcccC
Q psy6208         157 MSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~r~  196 (197)
                             .-+.++.+++.++.    ++..||||||||+|...+|
T Consensus        85 -------gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQ  121 (436)
T COG2256          85 -------GVKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQ  121 (436)
T ss_pred             -------cHHHHHHHHHHHHHHHhcCCceEEEEehhhhcChhhh
Confidence                   45677888887743    3458999999999987654

>KOG0744|consensus

Probab=99.52  E-value=1.1e-14  Score=116.51  Aligned_cols=112  Identities=25%  Similarity=0.313  Sum_probs=83.2

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhh-CCCCCCceEEECCCCCcHHHHHHHHHHHhC---------CeEEEEec
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAI-GVKPPRGILLYGPPGTGKTLIARAVANETG---------AFFFLING  153 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~-~~~~~~~ill~G~~GtGKT~la~ala~~~~---------~~~~~v~~  153 (197)
                      -|++++--...++.+..++...+...+.--.- -+..++-||++||||||||+|++|+|+.+.         ...+.+++
T Consensus       140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins  219 (423)
T KOG0744|consen  140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS  219 (423)
T ss_pred             hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence            36667777778888888776543322211100 023455689999999999999999999882         35789999


Q ss_pred             hhhhhhccCccHHHHHHHHHHHhc-----CCCeEEEEcccCccCccc
Q psy6208         154 PEIMSKLAGESESNLRKAFEEADK-----NSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~a~~-----~~~~vl~lDeid~l~~~r  195 (197)
                      ..++++|++++.+.+..+|+....     +.--.++|||+++|+..|
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR  266 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAAR  266 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHH
Confidence            999999999999999988887643     223468899999998776

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.50  E-value=2.2e-14  Score=122.21  Aligned_cols=180  Identities=17%  Similarity=0.237  Sum_probs=104.6

Q ss_pred             ccCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCC
Q psy6208           3 LVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNA   82 (197)
Q Consensus         3 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (197)
                      +..+.....++|.|..+|+.++|.......+..+.+....+.|.+.. .+.+..  ....... ............+++.
T Consensus        32 ~~~~~~~l~~p~~f~~~~i~~~~~~~i~~~~~~~~~~~~~i~~~~~~-~~~~~~--~~~~~~~-~~~~~~~~~~~~l~~~  107 (445)
T PRK12422         32 FDACNLYLEAKDSFQVTWFEEHIRHKVKASLVNNNGKPIRVHVTSLD-KSTPFK--KEKQIQQ-EKTAYFTMKYGELDPL  107 (445)
T ss_pred             eeCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhCCCceEEEEECC-CCCccc--cccccCc-ccccccccccCCCCcc
Confidence            34567788899999999999998777665555444444456664421 111100  0000000 0000000011345778


Q ss_pred             CCccccc-CcHHHH--HHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208          83 VGYDDIG-GCRKQL--AQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus        83 ~~~~~i~-g~~~~~--~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      ++|++++ |.+...  ..+.++...+...       .-....+++||||+|+|||||++++++++   +.+++++++.++
T Consensus       108 ~tFdnFv~g~~N~~a~~~a~~~a~~~~~~-------~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f  180 (445)
T PRK12422        108 MTFANFLVTPENDLPHRILQEFTKVSEQG-------KGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELF  180 (445)
T ss_pred             ccccceeeCCcHHHHHHHHHHHHhccccc-------cCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHH
Confidence            9999964 544332  3333333221000       00123579999999999999999999876   688999998877


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ...+...........|....+ .+++|+|||++.+.++
T Consensus       181 ~~~~~~~l~~~~~~~f~~~~~-~~dvLiIDDiq~l~~k  217 (445)
T PRK12422        181 TEHLVSAIRSGEMQRFRQFYR-NVDALFIEDIEVFSGK  217 (445)
T ss_pred             HHHHHHHHhcchHHHHHHHcc-cCCEEEEcchhhhcCC
Confidence            655432222111223444433 4789999999998764

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

Probab=99.50  E-value=1.2e-13  Score=124.50  Aligned_cols=101  Identities=27%  Similarity=0.412  Sum_probs=86.3

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLI  151 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v  151 (197)
                      +-.+++++|.+..++++.+.+..             ....+++|+||||||||++++++|+.+          +..++.+
T Consensus       178 ~~~l~~~igr~~ei~~~~~~L~~-------------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~  244 (731)
T TIGR02639       178 NGKIDPLIGREDELERTIQVLCR-------------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSL  244 (731)
T ss_pred             cCCCCcccCcHHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEe
Confidence            45778999999999988877654             346689999999999999999999987          6788999


Q ss_pred             echhhh--hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         152 NGPEIM--SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       152 ~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ++..+.  ..+.|+.+..++.+++.+....++||||||+|.|.+.+
T Consensus       245 ~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g  290 (731)
T TIGR02639       245 DMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAG  290 (731)
T ss_pred             cHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccC
Confidence            988887  46778889999999999877778999999999998653

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

Probab=99.47  E-value=6.7e-14  Score=116.72  Aligned_cols=158  Identities=17%  Similarity=0.250  Sum_probs=103.5

Q ss_pred             ccCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCC
Q psy6208           3 LVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNA   82 (197)
Q Consensus         3 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (197)
                      ...+.....++|.|.+.|++++ ..+....+....+ .  +.+.+.                  ...+........+++.
T Consensus        26 ~~~~~~~i~~pn~f~~~~~~~~-~~~i~~~~~~~~~-~--~~~~~~------------------~~~~~q~~~~~~l~~~   83 (408)
T COG0593          26 VEESVLVLYAPNEFVRNWLNSK-LDLIKELLQELDG-I--IKVEVR------------------ASAPAQLPLPSGLNPK   83 (408)
T ss_pred             cccceEEEEeCcHHHHHHHHhh-HHHHHHHHHHhcC-C--cceeec------------------cccccccCccccCCCC
Confidence            3444667788999999999998 6555554444433 2  222211                  0000000111345778


Q ss_pred             CCccccc-CcHH-HHHHH-HHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEech
Q psy6208          83 VGYDDIG-GCRK-QLAQI-KEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGP  154 (197)
Q Consensus        83 ~~~~~i~-g~~~-~~~~l-~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~  154 (197)
                      ++|++++ |.+. ....+ ..+...+           ....+.++|||++|+|||||++|+++..     +..+++++.+
T Consensus        84 ytFdnFv~g~~N~~A~aa~~~va~~~-----------g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se  152 (408)
T COG0593          84 YTFDNFVVGPSNRLAYAAAKAVAENP-----------GGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSE  152 (408)
T ss_pred             CchhheeeCCchHHHHHHHHHHHhcc-----------CCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHH
Confidence            9999953 3332 22222 2222222           1245679999999999999999999887     4579999999


Q ss_pred             hhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         155 EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+...++.+....-..-|+..+  ..++++|||++.+.++.
T Consensus       153 ~f~~~~v~a~~~~~~~~Fk~~y--~~dlllIDDiq~l~gk~  191 (408)
T COG0593         153 DFTNDFVKALRDNEMEKFKEKY--SLDLLLIDDIQFLAGKE  191 (408)
T ss_pred             HHHHHHHHHHHhhhHHHHHHhh--ccCeeeechHhHhcCCh
Confidence            9988877666666666777777  57899999999999874

>KOG0743|consensus

Probab=99.46  E-value=3.6e-13  Score=112.13  Aligned_cols=106  Identities=25%  Similarity=0.396  Sum_probs=89.0

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      +-+|+.++=..+.+++|.+-+..+.+...+|++.|....+|.|||||||||||+++.|+|+.++..++-++.++...   
T Consensus       197 pstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~---  273 (457)
T KOG0743|consen  197 PSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKL---  273 (457)
T ss_pred             CCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccC---
Confidence            35778888889999999999999999999999999999999999999999999999999999999998887765522   


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                         ...++.++....  ..+||+|+|||+-...|
T Consensus       274 ---n~dLr~LL~~t~--~kSIivIEDIDcs~~l~  302 (457)
T KOG0743|consen  274 ---DSDLRHLLLATP--NKSILLIEDIDCSFDLR  302 (457)
T ss_pred             ---cHHHHHHHHhCC--CCcEEEEeecccccccc
Confidence               223677766543  35799999999876543

>KOG0736|consensus

Probab=99.44  E-value=6.7e-12  Score=110.09  Aligned_cols=182  Identities=25%  Similarity=0.377  Sum_probs=125.6

Q ss_pred             hhhHHHHhHHHhhhcCcccccCCEEEEec------------------CcceEEEEEEEecCCC---eEEEcCceEEEEcC
Q psy6208          10 SNLFEVYLKPYFLEAYRPVHKDDLFIVRG------------------GMRAVEFKIVDTDPAP---YCIVAADTVIHCEG   68 (197)
Q Consensus        10 ~~~~~~f~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~~~~v~~~~~~~---~~~~~~~~~~~~~~   68 (197)
                      .+.....+..||. ..+.+..|+++.+.-                  .-..+.++|+..+|..   ..+....|.+...+
T Consensus       303 ~~~~~~~l~~~f~-t~ril~~gdvf~i~~~~~~~~~~~~~~l~l~~~~d~~v~~~v~~~ep~~~~~~~i~~~~T~lv~~~  381 (953)
T KOG0736|consen  303 AGNIDVVLKKHFK-TPRILQSGDVFCIPINSQMANLNGYPELPLWRETDFLVYKKVIEAEPGNESAYIIDTNHTSLVLVG  381 (953)
T ss_pred             hhHHHHHHHHHhC-cceeeecCCEEEEeehhhhcccccchhhHhhhhccceeEEEEeecCCCccceEEEcCCCceEEEcc
Confidence            6777788888988 478999999998854                  2335677888876643   22233334443333


Q ss_pred             CCCcchh--HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          69 DPIKREE--EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        69 ~~~~~~~--~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ....+..  -.....-.++-..-+.+..+.++...+.... .+.   ..+......+||+|+||||||++++++|.+++.
T Consensus       382 ~~ss~~~~lps~~~~l~n~~~~~~~~~~~~~l~~vl~p~~-~~s---~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~  457 (953)
T KOG0736|consen  382 ATSSRVPLLPSSLSTLWNSLSPPGLEAKVLELVAVLSPQK-QPS---GALLTLNPSVLLHGPPGSGKTTVVRAVASELGL  457 (953)
T ss_pred             ccccCCcCCChhhHHHhccCCCccchHHHHHHHHHhCccc-Ccc---hhccccceEEEEeCCCCCChHHHHHHHHHHhCC
Confidence            3222200  0111112233334455555555555443321 111   111234556999999999999999999999999


Q ss_pred             eEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         147 FFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       147 ~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +++.++|.++.....+..+..+...|.+++...|+|||+-++|.|..+++
T Consensus       458 h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~id~d  507 (953)
T KOG0736|consen  458 HLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLGIDQD  507 (953)
T ss_pred             ceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceeeecCC
Confidence            99999999999999999999999999999999999999999999986654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.43  E-value=7.3e-13  Score=120.87  Aligned_cols=101  Identities=25%  Similarity=0.437  Sum_probs=85.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLI  151 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v  151 (197)
                      .-.++.++|.++.++++.+.+..             ...++++|+||||+|||++++++|...          +.+++.+
T Consensus       175 ~~~~~~~igr~~ei~~~~~~L~r-------------~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l  241 (821)
T CHL00095        175 DGNLDPVIGREKEIERVIQILGR-------------RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITL  241 (821)
T ss_pred             cCCCCCCCCcHHHHHHHHHHHcc-------------cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEe
Confidence            34678899999999999998764             356689999999999999999999876          4688899


Q ss_pred             echhhh--hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         152 NGPEIM--SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       152 ~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +...+.  ..+.|+.+..++.+++.+....+.||||||+|.|.+.+
T Consensus       242 ~~~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g  287 (821)
T CHL00095        242 DIGLLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAG  287 (821)
T ss_pred             eHHHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCC
Confidence            988776  45678888899999998877778999999999998754

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.42  E-value=3.3e-13  Score=115.37  Aligned_cols=175  Identities=13%  Similarity=0.178  Sum_probs=96.8

Q ss_pred             ccCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCC
Q psy6208           3 LVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNA   82 (197)
Q Consensus         3 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (197)
                      +..+.....++|.|...|+.+ |.......+..+.+....+.|.+.. .+...... ... ......+........++ .
T Consensus        37 ~~~~~l~l~~p~~f~~~~~~~-~~~~i~~~~~~~~~~~~~i~~~~~~-~~~~~~~~-~~~-~~~~~~~~~~~~~~~l~-~  111 (450)
T PRK14087         37 KSNSEYVVVVKSQFGLLAIKQ-FRETIVNEIKSILKSPVNISFTYEQ-EYEKQLEK-EEL-IKKDHSDIILKKNKKIN-E  111 (450)
T ss_pred             eeCCEEEEEeCCHHHHHHHHH-HHHHHHHHHHHHhCCCceEEEEeCC-Cccccccc-ccc-ccccccccccccccCcc-c
Confidence            355677888999999999966 7665554444443444455554311 11100000 000 00000000000012233 5


Q ss_pred             CCccccc-CcHH--HHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEech
Q psy6208          83 VGYDDIG-GCRK--QLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGP  154 (197)
Q Consensus        83 ~~~~~i~-g~~~--~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~  154 (197)
                      ++|++++ |.+.  +...+..+...+          + ....+++|||++|+|||||++++++++     +..++++++.
T Consensus       112 ~tFdnFv~g~~n~~A~~aa~~~a~~~----------~-~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~  180 (450)
T PRK14087        112 NTFENFVIGSSNEQAFIAVQTVSKNP----------G-ISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGD  180 (450)
T ss_pred             cchhcccCCCcHHHHHHHHHHHHhCc----------C-cccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence            7899854 4433  233333332211          1 123579999999999999999999864     5789999999


Q ss_pred             hhhhhccCccHH--HHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         155 EIMSKLAGESES--NLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       155 ~~~~~~~~~~~~--~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ++...+......  .....|....+ .+++|+|||++.+..+
T Consensus       181 ~f~~~~~~~l~~~~~~~~~~~~~~~-~~dvLiIDDiq~l~~k  221 (450)
T PRK14087        181 EFARKAVDILQKTHKEIEQFKNEIC-QNDVLIIDDVQFLSYK  221 (450)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHhc-cCCEEEEeccccccCC
Confidence            887766533222  11112222222 4789999999999865

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.42  E-value=5.9e-13  Score=109.74  Aligned_cols=99  Identities=28%  Similarity=0.503  Sum_probs=73.3

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      ..+.+|++++|+++.++++..++......        -.+..+++|+||||+|||++|+++|++++..+..++++.+.  
T Consensus        19 ~rP~~~~~~vG~~~~~~~l~~~l~~~~~~--------~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~--   88 (328)
T PRK00080         19 LRPKSLDEFIGQEKVKENLKIFIEAAKKR--------GEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALE--   88 (328)
T ss_pred             cCcCCHHHhcCcHHHHHHHHHHHHHHHhc--------CCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEeccccc--
Confidence            34568999999999999998888643111        13456899999999999999999999999888777655331  


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                          ....+..++...  ..+++|||||+|.+.+.
T Consensus        89 ----~~~~l~~~l~~l--~~~~vl~IDEi~~l~~~  117 (328)
T PRK00080         89 ----KPGDLAAILTNL--EEGDVLFIDEIHRLSPV  117 (328)
T ss_pred             ----ChHHHHHHHHhc--ccCCEEEEecHhhcchH
Confidence                122344444443  34689999999998754

>PRK04195 replication factor C large subunit; Provisional

Probab=99.42  E-value=1.2e-12  Score=113.05  Aligned_cols=102  Identities=32%  Similarity=0.504  Sum_probs=76.7

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      +...+-++++++|++..++++..++......         .++.++||+||||+|||++|+++|++++..++.+++++..
T Consensus         6 eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~g---------~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r   76 (482)
T PRK04195          6 EKYRPKTLSDVVGNEKAKEQLREWIESWLKG---------KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQR   76 (482)
T ss_pred             hhcCCCCHHHhcCCHHHHHHHHHHHHHHhcC---------CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccc
Confidence            4466788999999999999999998754211         2367899999999999999999999999999999987642


Q ss_pred             hhccCccHHHHHHHHHHHhc------CCCeEEEEcccCccCcc
Q psy6208         158 SKLAGESESNLRKAFEEADK------NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~------~~~~vl~lDeid~l~~~  194 (197)
                      .      ...+......+..      ..+.+|+|||+|.|..+
T Consensus        77 ~------~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~  113 (482)
T PRK04195         77 T------ADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGN  113 (482)
T ss_pred             c------HHHHHHHHHHhhccCcccCCCCeEEEEecCcccccc
Confidence            1      1222222222211      24679999999999763

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

Probab=99.42  E-value=8e-13  Score=111.52  Aligned_cols=108  Identities=27%  Similarity=0.326  Sum_probs=75.5

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhh---hCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-hccC
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKA---IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-KLAG  162 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~---~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-~~~~  162 (197)
                      .|+|++.+++.+...+..+.........   -......++||+||||||||++|+++|..++.+++.+++..+.. .|.|
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG  151 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVG  151 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCccc
Confidence            3899999999997777543222111000   00124578999999999999999999999999999999987753 4555


Q ss_pred             ccH-HHHHHHHHHH----hcCCCeEEEEcccCccCcc
Q psy6208         163 ESE-SNLRKAFEEA----DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       163 ~~~-~~~~~~~~~a----~~~~~~vl~lDeid~l~~~  194 (197)
                      ... ..+..++..+    ....++||||||||.++++
T Consensus       152 ~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~  188 (412)
T PRK05342        152 EDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARK  188 (412)
T ss_pred             chHHHHHHHHHHhccccHHHcCCcEEEEechhhhccc
Confidence            533 3334443321    2345789999999999875

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

Probab=99.41  E-value=9e-13  Score=102.70  Aligned_cols=103  Identities=26%  Similarity=0.444  Sum_probs=66.7

Q ss_pred             cCCCCccccc-C--cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEE
Q psy6208          80 SNAVGYDDIG-G--CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLI  151 (197)
Q Consensus        80 ~~~~~~~~i~-g--~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v  151 (197)
                      ++.++|++++ |  +..+...+......+           -.....++||||+|+|||||++|++++.     +..++++
T Consensus         2 n~~~tFdnfv~g~~N~~a~~~~~~ia~~~-----------~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~   70 (219)
T PF00308_consen    2 NPKYTFDNFVVGESNELAYAAAKAIAENP-----------GERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL   70 (219)
T ss_dssp             -TT-SCCCS--TTTTHHHHHHHHHHHHST-----------TTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE
T ss_pred             CCCCccccCCcCCcHHHHHHHHHHHHhcC-----------CCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceee
Confidence            5789999963 4  334444444443332           1223469999999999999999998874     6789999


Q ss_pred             echhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         152 NGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ++.++...+...........|....+ ..++|+|||++.+..+
T Consensus        71 ~~~~f~~~~~~~~~~~~~~~~~~~~~-~~DlL~iDDi~~l~~~  112 (219)
T PF00308_consen   71 SAEEFIREFADALRDGEIEEFKDRLR-SADLLIIDDIQFLAGK  112 (219)
T ss_dssp             EHHHHHHHHHHHHHTTSHHHHHHHHC-TSSEEEEETGGGGTTH
T ss_pred             cHHHHHHHHHHHHHcccchhhhhhhh-cCCEEEEecchhhcCc
Confidence            99888766543322221222333333 4689999999999875

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.41  E-value=8.9e-13  Score=107.45  Aligned_cols=95  Identities=28%  Similarity=0.501  Sum_probs=68.5

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCc
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE  163 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~  163 (197)
                      +|++++|+++.++++..++......        -..+.+++|+||||+|||++|+++|++++..+..+.++...      
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~--------~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~------   67 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMR--------QEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALE------   67 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhc------
Confidence            6889999999999999888643211        13356799999999999999999999998877666544321      


Q ss_pred             cHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         164 SESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       164 ~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ....+...+...  ..+++|||||+|.+.++
T Consensus        68 ~~~~l~~~l~~~--~~~~vl~iDEi~~l~~~   96 (305)
T TIGR00635        68 KPGDLAAILTNL--EEGDVLFIDEIHRLSPA   96 (305)
T ss_pred             CchhHHHHHHhc--ccCCEEEEehHhhhCHH
Confidence            112233333332  34679999999998764

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.

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.39  E-value=2.6e-13  Score=115.32  Aligned_cols=102  Identities=29%  Similarity=0.433  Sum_probs=81.8

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      ....++|++|+|.+..+.++.+.+...           +..+.+|||.|++||||..+|++||+.+   +.||+.+||..
T Consensus       238 ~~a~y~f~~Iig~S~~m~~~~~~akr~-----------A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaA  306 (560)
T COG3829         238 LKAKYTFDDIIGESPAMLRVLELAKRI-----------AKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAA  306 (560)
T ss_pred             cccccchhhhccCCHHHHHHHHHHHhh-----------cCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEeccc
Confidence            445789999999999999999888764           5678899999999999999999999988   56999999987


Q ss_pred             hhhh-----c--------cCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         156 IMSK-----L--------AGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       156 ~~~~-----~--------~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +...     +        .|+......+.|+.|..+   .||||||..|+..
T Consensus       307 iPe~LlESELFGye~GAFTGA~~~GK~GlfE~A~gG---TLFLDEIgempl~  355 (560)
T COG3829         307 IPETLLESELFGYEKGAFTGASKGGKPGLFELANGG---TLFLDEIGEMPLP  355 (560)
T ss_pred             CCHHHHHHHHhCcCCccccccccCCCCcceeeccCC---eEEehhhccCCHH
Confidence            7533     2        233333355677777666   5999999998753

>TIGR00763 lon ATP-dependent protease La

Probab=99.38  E-value=1.6e-12  Score=117.99  Aligned_cols=100  Identities=22%  Similarity=0.356  Sum_probs=75.3

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh---------
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM---------  157 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~---------  157 (197)
                      ++.|++.+++.+.+++.......       ......++|+||||||||++|+++|+.++.+++.+++..+.         
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~-------~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~  393 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRG-------KMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHR  393 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhc-------CCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCC
Confidence            58899999999998876432111       12344699999999999999999999999999988764332         


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ..+.+.....+.+.|..+....| ||||||||.+.+.
T Consensus       394 ~~~~g~~~g~i~~~l~~~~~~~~-villDEidk~~~~  429 (775)
T TIGR00763       394 RTYVGAMPGRIIQGLKKAKTKNP-LFLLDEIDKIGSS  429 (775)
T ss_pred             CceeCCCCchHHHHHHHhCcCCC-EEEEechhhcCCc
Confidence            23455555666677777765544 8999999999874

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.37  E-value=3.1e-12  Score=116.99  Aligned_cols=101  Identities=24%  Similarity=0.408  Sum_probs=82.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLI  151 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v  151 (197)
                      +-.++.++|.+..++++.+.+..             ....+++|+||||+|||++++++|...          +.+++.+
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l  240 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL  240 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHhc-------------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEE
Confidence            45678899999998888877754             345689999999999999999999987          6788888


Q ss_pred             echhhh--hhccCccHHHHHHHHHHHhc-CCCeEEEEcccCccCccc
Q psy6208         152 NGPEIM--SKLAGESESNLRKAFEEADK-NSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       152 ~~~~~~--~~~~~~~~~~~~~~~~~a~~-~~~~vl~lDeid~l~~~r  195 (197)
                      +...+.  ..+.|+.+..++.+|+.... ..++||||||+|.|.+.+
T Consensus       241 ~l~~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~  287 (857)
T PRK10865        241 DMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAG  287 (857)
T ss_pred             ehhhhhhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCC
Confidence            887765  34667788889999987543 568999999999998653

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.37  E-value=1.6e-12  Score=110.29  Aligned_cols=95  Identities=32%  Similarity=0.516  Sum_probs=71.8

Q ss_pred             cCCCCcccccCcHHHHHH---HHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQ---IKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~---l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      ..+-++++++|++..+..   +.+++..             ....+++|+||||||||++|+++++..+..++.+++...
T Consensus         6 ~RP~~l~d~vGq~~~v~~~~~L~~~i~~-------------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~   72 (413)
T PRK13342          6 MRPKTLDEVVGQEHLLGPGKPLRRMIEA-------------GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS   72 (413)
T ss_pred             hCCCCHHHhcCcHHHhCcchHHHHHHHc-------------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc
Confidence            446789999999998766   7777653             334579999999999999999999999999999887532


Q ss_pred             hhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCcc
Q psy6208         157 MSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~  194 (197)
                             ....++.+++.+.    .+...+|||||+|.+...
T Consensus        73 -------~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~~  107 (413)
T PRK13342         73 -------GVKDLREVIEEARQRRSAGRRTILFIDEIHRFNKA  107 (413)
T ss_pred             -------cHHHHHHHHHHHHHhhhcCCceEEEEechhhhCHH
Confidence                   2233444444442    235689999999998653

>PLN03025 replication factor C subunit; Provisional

Probab=99.36  E-value=3.1e-12  Score=105.10  Aligned_cols=98  Identities=23%  Similarity=0.327  Sum_probs=68.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC-----CeEEEEe
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG-----AFFFLIN  152 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~-----~~~~~v~  152 (197)
                      +...+-+++++.|++.++..|+.++..             ...++++|+||||+|||++|+++|+++.     ..++.++
T Consensus         5 ~kyrP~~l~~~~g~~~~~~~L~~~~~~-------------~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln   71 (319)
T PLN03025          5 EKYRPTKLDDIVGNEDAVSRLQVIARD-------------GNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELN   71 (319)
T ss_pred             hhcCCCCHHHhcCcHHHHHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeec
Confidence            456678999999999999999887653             2334699999999999999999999872     2355566


Q ss_pred             chhhhhhccCccHHHHHHHHHHH---h----cCCCeEEEEcccCccCcc
Q psy6208         153 GPEIMSKLAGESESNLRKAFEEA---D----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~a---~----~~~~~vl~lDeid~l~~~  194 (197)
                      +++..+      ...++...+..   .    .+.+.+++|||+|.|...
T Consensus        72 ~sd~~~------~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~  114 (319)
T PLN03025         72 ASDDRG------IDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSG  114 (319)
T ss_pred             cccccc------HHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCHH
Confidence            543311      11222222211   1    134679999999999764

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=99.34  E-value=5.6e-12  Score=94.27  Aligned_cols=94  Identities=26%  Similarity=0.481  Sum_probs=66.3

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh-----
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-----  159 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~-----  159 (197)
                      |+|.+..++++.+.+...           +..+.+|||+|++||||+.+|++|++..   +.+|+.++|+.+..+     
T Consensus         1 liG~s~~m~~~~~~~~~~-----------a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~   69 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRA-----------ASSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESE   69 (168)
T ss_dssp             SS--SHHHHHHHHHHHHH-----------TTSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHH-----------hCCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhh
Confidence            568888888888888765           3556789999999999999999999976   469999999876433     


Q ss_pred             ccCccH-------HHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESE-------SNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~-------~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ++|...       .....+++.|..+   +||||||+.|++.-
T Consensus        70 LFG~~~~~~~~~~~~~~G~l~~A~~G---tL~Ld~I~~L~~~~  109 (168)
T PF00158_consen   70 LFGHEKGAFTGARSDKKGLLEQANGG---TLFLDEIEDLPPEL  109 (168)
T ss_dssp             HHEBCSSSSTTTSSEBEHHHHHTTTS---EEEEETGGGS-HHH
T ss_pred             hhccccccccccccccCCceeeccce---EEeecchhhhHHHH
Confidence            222211       1123567777665   79999999998753

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

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

Probab=99.33  E-value=6.5e-12  Score=105.74  Aligned_cols=108  Identities=31%  Similarity=0.420  Sum_probs=74.3

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhH--hh--hCC-CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-hc
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLF--KA--IGV-KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-KL  160 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~--~~--~~~-~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-~~  160 (197)
                      .++|++.+++.+...+..........  ..  .++ ....++||+||||+|||++|+++|..++.++..+++..+.. .|
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy  157 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY  157 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence            37999999999987774332221110  00  000 12467999999999999999999999999999999887642 45


Q ss_pred             cCcc-HHHHHHHHHHH----hcCCCeEEEEcccCccCcc
Q psy6208         161 AGES-ESNLRKAFEEA----DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       161 ~~~~-~~~~~~~~~~a----~~~~~~vl~lDeid~l~~~  194 (197)
                      .|.. +..+..++..+    ....+++|||||+|.+.++
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~  196 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRK  196 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchh
Confidence            6653 33344444322    2235679999999999875

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

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.32  E-value=6.7e-12  Score=109.58  Aligned_cols=107  Identities=18%  Similarity=0.343  Sum_probs=72.2

Q ss_pred             HhhcCCCCccccc-CcHHH--HHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeE
Q psy6208          77 EEASNAVGYDDIG-GCRKQ--LAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFF  148 (197)
Q Consensus        77 ~~~~~~~~~~~i~-g~~~~--~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~  148 (197)
                      ..+++.++|++++ |.+..  ...+...+..+          + ...+.++|||++|+|||||++++++++     +..+
T Consensus       279 a~L~~~~TFDnFvvG~sN~~A~aaa~avae~~----------~-~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V  347 (617)
T PRK14086        279 ARLNPKYTFDTFVIGASNRFAHAAAVAVAEAP----------A-KAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRV  347 (617)
T ss_pred             CCCCCCCCHhhhcCCCccHHHHHHHHHHHhCc----------c-ccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeE
Confidence            3466788999964 44332  22333333221          1 123459999999999999999999976     5689


Q ss_pred             EEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         149 FLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       149 ~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +++++.++...+...........|..... .+++|+||||+.+..+.
T Consensus       348 ~Yitaeef~~el~~al~~~~~~~f~~~y~-~~DLLlIDDIq~l~gke  393 (617)
T PRK14086        348 RYVSSEEFTNEFINSIRDGKGDSFRRRYR-EMDILLVDDIQFLEDKE  393 (617)
T ss_pred             EEeeHHHHHHHHHHHHHhccHHHHHHHhh-cCCEEEEehhccccCCH
Confidence            99999988877654433333334554444 47999999999998754

>KOG2028|consensus

Probab=99.32  E-value=3.5e-12  Score=103.93  Aligned_cols=96  Identities=28%  Similarity=0.558  Sum_probs=67.2

Q ss_pred             CCCCcccccCcHHHHHH---HHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe---EEEEech
Q psy6208          81 NAVGYDDIGGCRKQLAQ---IKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF---FFLINGP  154 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~---l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~---~~~v~~~  154 (197)
                      .+-+++|.+|++....+   |+.+++.             ..-+.++||||||||||+||+.|+.....+   |+.+++.
T Consensus       133 RPktL~dyvGQ~hlv~q~gllrs~ieq-------------~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt  199 (554)
T KOG2028|consen  133 RPKTLDDYVGQSHLVGQDGLLRSLIEQ-------------NRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSAT  199 (554)
T ss_pred             CcchHHHhcchhhhcCcchHHHHHHHc-------------CCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEecc
Confidence            34567777777776655   2233322             345579999999999999999999887443   5555442


Q ss_pred             hhhhhccCccHHHHHHHHHHHhc-----CCCeEEEEcccCccCcccC
Q psy6208         155 EIMSKLAGESESNLRKAFEEADK-----NSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~-----~~~~vl~lDeid~l~~~r~  196 (197)
                      .       ...+.++.+|+.+.+     .+..||||||||++....|
T Consensus       200 ~-------a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQQ  239 (554)
T KOG2028|consen  200 N-------AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQ  239 (554)
T ss_pred             c-------cchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhhh
Confidence            2       244577888887754     4568999999999876654

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

Probab=99.31  E-value=9e-12  Score=112.10  Aligned_cols=100  Identities=25%  Similarity=0.411  Sum_probs=79.5

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEEe
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLIN  152 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v~  152 (197)
                      -.++.++|.+..++++.+.+..             ....+++|+||||||||+++++++...          ++.++.++
T Consensus       183 g~~~~liGR~~ei~~~i~iL~r-------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~  249 (758)
T PRK11034        183 GGIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD  249 (758)
T ss_pred             CCCCcCcCCCHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEecc
Confidence            4567899999999999887764             245678999999999999999999864          45566666


Q ss_pred             chhhh--hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         153 GPEIM--SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       153 ~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ...+.  ..+.|+.+..++.++..+....++||||||+|.|.+.+
T Consensus       250 ~~~llaG~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g  294 (758)
T PRK11034        250 IGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAG  294 (758)
T ss_pred             HHHHhcccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccC
Confidence            55554  34567778888889888877778999999999997654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.30  E-value=1.5e-11  Score=112.77  Aligned_cols=100  Identities=24%  Similarity=0.412  Sum_probs=81.2

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLI  151 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v  151 (197)
                      +-.++.++|.+..++++.+.+..             ....+++|+||||+|||+++++++...          +.+++.+
T Consensus       169 ~~~~~~~igr~~ei~~~~~~l~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l  235 (852)
T TIGR03346       169 EGKLDPVIGRDEEIRRTIQVLSR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL  235 (852)
T ss_pred             CCCCCcCCCcHHHHHHHHHHHhc-------------CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe
Confidence            44678899999998888887654             345688999999999999999999875          6678888


Q ss_pred             echhhh--hhccCccHHHHHHHHHHHhc-CCCeEEEEcccCccCcc
Q psy6208         152 NGPEIM--SKLAGESESNLRKAFEEADK-NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       152 ~~~~~~--~~~~~~~~~~~~~~~~~a~~-~~~~vl~lDeid~l~~~  194 (197)
                      +...+.  ..+.++.+..+..+++.+.. ..+.||||||+|.|.+.
T Consensus       236 ~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~  281 (852)
T TIGR03346       236 DMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGA  281 (852)
T ss_pred             eHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcC
Confidence            877765  45667788888999988754 35899999999999863

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.30  E-value=8.2e-12  Score=106.39  Aligned_cols=104  Identities=18%  Similarity=0.246  Sum_probs=68.8

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE----E---
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFF----L---  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~----~---  150 (197)
                      ....+.+|++++|++.+++.|..++...            ..+..+||+||+|+|||++|+.+|+.+++.-.    .   
T Consensus        10 ~KyRP~~f~dvVGQe~iv~~L~~~i~~~------------ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~   77 (484)
T PRK14956         10 RKYRPQFFRDVIHQDLAIGALQNALKSG------------KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNE   77 (484)
T ss_pred             HHhCCCCHHHHhChHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCC
Confidence            4566789999999999999999988642            23456899999999999999999999865310    0   


Q ss_pred             -Eechhhhhh-------c---cCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         151 -INGPEIMSK-------L---AGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 -v~~~~~~~~-------~---~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                       -+|..+...       +   ....-..++.+.+.+.    .+...|+||||+|.|..
T Consensus        78 C~sC~~i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~  135 (484)
T PRK14956         78 CTSCLEITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTD  135 (484)
T ss_pred             CcHHHHHHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCH
Confidence             011111100       0   0011223444443332    34567999999999875

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.30  E-value=1e-11  Score=101.75  Aligned_cols=101  Identities=26%  Similarity=0.351  Sum_probs=71.9

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+...+.+++++.|++...+.+..++...            ..+..++|+||||+|||+++++++++.+.+++++++.+ 
T Consensus        12 ~~kyrP~~~~~~~~~~~~~~~l~~~~~~~------------~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-   78 (316)
T PHA02544         12 EQKYRPSTIDECILPAADKETFKSIVKKG------------RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-   78 (316)
T ss_pred             eeccCCCcHHHhcCcHHHHHHHHHHHhcC------------CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-
Confidence            34566789999999999999999888631            33455677999999999999999999998999998876 


Q ss_pred             hhhccCccHHHHHHHHHHH-hcCCCeEEEEcccCccC
Q psy6208         157 MSKLAGESESNLRKAFEEA-DKNSPSIIFIDELDAIA  192 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a-~~~~~~vl~lDeid~l~  192 (197)
                      . . .......+....... ....+.+|+|||+|.+.
T Consensus        79 ~-~-~~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~  113 (316)
T PHA02544         79 C-R-IDFVRNRLTRFASTVSLTGGGKVIIIDEFDRLG  113 (316)
T ss_pred             c-c-HHHHHHHHHHHHHhhcccCCCeEEEEECccccc
Confidence            1 1 111111122211111 11357899999999883

>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=99.29  E-value=2.1e-11  Score=87.54  Aligned_cols=90  Identities=43%  Similarity=0.806  Sum_probs=61.0

Q ss_pred             CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccHH
Q psy6208          90 GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESES  166 (197)
Q Consensus        90 g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~~  166 (197)
                      |.+....++...+..             ....+++|+||||+|||++++.+++.+   +.+++++++.+...........
T Consensus         2 ~~~~~~~~i~~~~~~-------------~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~   68 (151)
T cd00009           2 GQEEAIEALREALEL-------------PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELF   68 (151)
T ss_pred             chHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHh
Confidence            445556666555532             245679999999999999999999998   8889999987765443211111


Q ss_pred             H---HHHHHHHHhcCCCeEEEEcccCccC
Q psy6208         167 N---LRKAFEEADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       167 ~---~~~~~~~a~~~~~~vl~lDeid~l~  192 (197)
                      .   ............+.+|++||++.+.
T Consensus        69 ~~~~~~~~~~~~~~~~~~~lilDe~~~~~   97 (151)
T cd00009          69 GHFLVRLLFELAEKAKPGVLFIDEIDSLS   97 (151)
T ss_pred             hhhhHhHHHHhhccCCCeEEEEeChhhhh
Confidence            1   1112233344568899999999873

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.29  E-value=1.7e-11  Score=105.25  Aligned_cols=98  Identities=17%  Similarity=0.268  Sum_probs=68.2

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC-----------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----------  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~-----------  146 (197)
                      ....+.+|++++|++.+.+.+...+...            ..++.+||+||||||||++|+++|+.+++           
T Consensus         6 ~kyRP~~~~divGq~~i~~~L~~~i~~~------------~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~   73 (472)
T PRK14962          6 RKYRPKTFSEVVGQDHVKKLIINALKKN------------SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNE   73 (472)
T ss_pred             HHHCCCCHHHccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcc
Confidence            3456789999999999999888877642            34556899999999999999999998864           


Q ss_pred             -------------eEEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         147 -------------FFFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       147 -------------~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                                   .++.++++.      ...-..++.+.+.+..    +...++||||+|.|..
T Consensus        74 c~~c~~i~~g~~~dv~el~aa~------~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~  131 (472)
T PRK14962         74 CRACRSIDEGTFMDVIELDAAS------NRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTK  131 (472)
T ss_pred             cHHHHHHhcCCCCccEEEeCcc------cCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHH
Confidence                         233333211      1122344444443321    3457999999999864

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.29  E-value=8.7e-12  Score=108.00  Aligned_cols=100  Identities=16%  Similarity=0.263  Sum_probs=72.0

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe---------
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF---------  147 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~---------  147 (197)
                      ...+.+.+|++++|++..++.|.+++...            ..+..+||+||+|+|||++|+++|+.+++.         
T Consensus         7 ~~kyRP~~f~divGq~~v~~~L~~~~~~~------------~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg   74 (509)
T PRK14958          7 ARKWRPRCFQEVIGQAPVVRALSNALDQQ------------YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCN   74 (509)
T ss_pred             HHHHCCCCHHHhcCCHHHHHHHHHHHHhC------------CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCC
Confidence            34567889999999999999999998642            345568999999999999999999998652         


Q ss_pred             ---------------EEEEechhhhhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCcc
Q psy6208         148 ---------------FFLINGPEIMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       148 ---------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~  194 (197)
                                     +++++...      ...-..++.+.+.+.    .+...|+||||+|.|.+.
T Consensus        75 ~C~~C~~i~~g~~~d~~eidaas------~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~  134 (509)
T PRK14958         75 DCENCREIDEGRFPDLFEVDAAS------RTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGH  134 (509)
T ss_pred             CCHHHHHHhcCCCceEEEEcccc------cCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHH
Confidence                           23333221      112234555555432    234579999999998763

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.28  E-value=2.4e-11  Score=100.17  Aligned_cols=68  Identities=28%  Similarity=0.367  Sum_probs=54.7

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC-----CeEEEE
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG-----AFFFLI  151 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~-----~~~~~v  151 (197)
                      .+...+.+|++++|++..++++.+++..             ...++++|+||||||||++|+++++++.     .+++++
T Consensus         6 ~~ky~P~~~~~~~g~~~~~~~L~~~~~~-------------~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i   72 (337)
T PRK12402          6 TEKYRPALLEDILGQDEVVERLSRAVDS-------------PNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEF   72 (337)
T ss_pred             HHhhCCCcHHHhcCCHHHHHHHHHHHhC-------------CCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEe
Confidence            4455678899999999999999888763             2234699999999999999999999873     346788


Q ss_pred             echhhh
Q psy6208         152 NGPEIM  157 (197)
Q Consensus       152 ~~~~~~  157 (197)
                      +++++.
T Consensus        73 ~~~~~~   78 (337)
T PRK12402         73 NVADFF   78 (337)
T ss_pred             chhhhh
Confidence            887654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.28  E-value=2e-11  Score=111.47  Aligned_cols=101  Identities=21%  Similarity=0.336  Sum_probs=80.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLI  151 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v  151 (197)
                      +-.++.++|++..++++.+.+..             ....+++|+||||+|||++++.+|+.+          +.+++.+
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~r-------------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l  249 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILLR-------------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSL  249 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHhc-------------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEe
Confidence            45788999999998888776643             345689999999999999999999876          3456777


Q ss_pred             echhhh--hhccCccHHHHHHHHHHHhc-CCCeEEEEcccCccCccc
Q psy6208         152 NGPEIM--SKLAGESESNLRKAFEEADK-NSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       152 ~~~~~~--~~~~~~~~~~~~~~~~~a~~-~~~~vl~lDeid~l~~~r  195 (197)
                      +...+.  ..+.|+.+..++.+++.+.. ..+.||||||+|.|.+.+
T Consensus       250 ~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g  296 (852)
T TIGR03345       250 DLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAG  296 (852)
T ss_pred             ehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCC
Confidence            776665  35677888899999998764 457899999999998643

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.27  E-value=1e-11  Score=108.74  Aligned_cols=104  Identities=15%  Similarity=0.221  Sum_probs=70.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------  147 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------  147 (197)
                      .++.+.+|++|+|++..++.|.+++..-            ..++.+||+||+|+|||++++.+++.+++.          
T Consensus         8 rKYRPqtFddVIGQe~vv~~L~~al~~g------------RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~   75 (700)
T PRK12323          8 RKWRPRDFTTLVGQEHVVRALTHALEQQ------------RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITA   75 (700)
T ss_pred             HHhCCCcHHHHcCcHHHHHHHHHHHHhC------------CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCC
Confidence            4566789999999999999999998742            345568999999999999999999998761          


Q ss_pred             --EEEE-echhhhh----hc---c---CccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         148 --FFLI-NGPEIMS----KL---A---GESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 --~~~v-~~~~~~~----~~---~---~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                        +-.. +|..+..    .+   .   ...-..++++.+...    .+...|+||||+|.|..
T Consensus        76 ~PCG~C~sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~  138 (700)
T PRK12323         76 QPCGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTN  138 (700)
T ss_pred             CCCcccHHHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCH
Confidence              0000 1111110    00   0   112234555554432    34567999999999875

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.27  E-value=2.9e-11  Score=94.24  Aligned_cols=90  Identities=21%  Similarity=0.375  Sum_probs=65.7

Q ss_pred             CCCccccc--CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208          82 AVGYDDIG--GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus        82 ~~~~~~i~--g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      ..+|+++.  +.+..++++++++..             ..+.+++|+||+|||||++|+++++..   +.++++++|.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~   77 (226)
T TIGR03420        11 DPTFDNFYAGGNAELLAALRQLAAG-------------KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAEL   77 (226)
T ss_pred             chhhcCcCcCCcHHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHH
Confidence            46677764  566778888777542             346789999999999999999999876   568899999887


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ....        ...+....  ...+|+|||+|.+...
T Consensus        78 ~~~~--------~~~~~~~~--~~~lLvIDdi~~l~~~  105 (226)
T TIGR03420        78 AQAD--------PEVLEGLE--QADLVCLDDVEAIAGQ  105 (226)
T ss_pred             HHhH--------HHHHhhcc--cCCEEEEeChhhhcCC
Confidence            5322        22232222  2469999999998764

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.27  E-value=1.7e-11  Score=95.87  Aligned_cols=89  Identities=13%  Similarity=0.290  Sum_probs=62.7

Q ss_pred             cCCCCccccc--CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208          80 SNAVGYDDIG--GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus        80 ~~~~~~~~i~--g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      ..+++|+++.  +.+.++..+.++...            .....+++|+||+|||||||+++++++.   +.+++++++.
T Consensus        12 ~~~~~~d~f~~~~~~~~~~~l~~~~~~------------~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~   79 (227)
T PRK08903         12 PPPPTFDNFVAGENAELVARLRELAAG------------PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA   79 (227)
T ss_pred             CChhhhcccccCCcHHHHHHHHHHHhc------------cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence            3457788854  445566666665442            2346689999999999999999999875   6788899887


Q ss_pred             hhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         155 EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ++...            +.  .....++|+|||+|.+.+.
T Consensus        80 ~~~~~------------~~--~~~~~~~liiDdi~~l~~~  105 (227)
T PRK08903         80 SPLLA------------FD--FDPEAELYAVDDVERLDDA  105 (227)
T ss_pred             HhHHH------------Hh--hcccCCEEEEeChhhcCch
Confidence            65321            11  1123578999999988654

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.26  E-value=1.7e-11  Score=107.48  Aligned_cols=97  Identities=18%  Similarity=0.282  Sum_probs=69.8

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe-----------
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----------  147 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~-----------  147 (197)
                      ...+.+|++++|++...+.|.+++...            ..+..+||+||+|+|||++|+++|+.+++.           
T Consensus         8 KyRPktFddVIGQe~vv~~L~~aI~~g------------rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C   75 (702)
T PRK14960          8 KYRPRNFNELVGQNHVSRALSSALERG------------RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVC   75 (702)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccC
Confidence            456789999999999999999988742            345678999999999999999999998652           


Q ss_pred             -------------EEEEechhhhhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         148 -------------FFLINGPEIMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 -------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                                   ++.++++.      ...-..++.+.+.+.    .++..|+||||+|.|..
T Consensus        76 ~sC~~I~~g~hpDviEIDAAs------~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~  132 (702)
T PRK14960         76 ATCKAVNEGRFIDLIEIDAAS------RTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLST  132 (702)
T ss_pred             HHHHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCH
Confidence                         22222211      012234555554432    24567999999999875

>PRK12377 putative replication protein; Provisional

Probab=99.26  E-value=2.7e-11  Score=95.87  Aligned_cols=72  Identities=25%  Similarity=0.436  Sum_probs=51.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccH--HHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESE--SNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~--~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ..+++|+|||||||||||.|+++.+   +.++++++.+++...+.....  ......++..  ...++|+|||++....
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l--~~~dLLiIDDlg~~~~  177 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQEL--CKVDLLVLDEIGIQRE  177 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCCCC
Confidence            4689999999999999999999987   678899998887765432110  0112233333  3578999999976543

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.26  E-value=1.4e-11  Score=100.25  Aligned_cols=177  Identities=18%  Similarity=0.267  Sum_probs=123.7

Q ss_pred             cCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCc--chhHHhhcC
Q psy6208           4 VPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIK--REEEEEASN   81 (197)
Q Consensus         4 ~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~   81 (197)
                      ++++....+++.|..+-|.++...-..+.-+.+.+.....++..+...++.......+.++.+......  +...-..+.
T Consensus       120 ~~g~~~~~l~~~~nf~~~l~~~~~~~~~~~V~~~gq~~lmeitPv~~~~~~~e~~lagav~~L~~~~r~ge~~~~~~~~~  199 (511)
T COG3283         120 LRGHTAAQLINGFNFLRWLEGEPQRSHNEHVVINGQNFLMEITPVYLQDENDEHVLAGAVVMLRSTNRMGEQLQNVAAQD  199 (511)
T ss_pred             hcCccHHHhcCcCCHHHHHhcCCCcCCCceEEEcchhheeeccceeecCCcchhheeheeeeehhhhhHHHHHhhccccc
Confidence            355666677788877765555555566677777777778888888777766555555555555432211  112223345


Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS  158 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~  158 (197)
                      ...|+.+++.+..++.+.+.....           +.-...+||.|++||||..+|++.+..+   ..+|+.+||..+..
T Consensus       200 ~~~F~~~v~~S~~mk~~v~qA~k~-----------AmlDAPLLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe  268 (511)
T COG3283         200 VSGFEQIVAVSPKMKHVVEQAQKL-----------AMLDAPLLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPE  268 (511)
T ss_pred             ccchHHHhhccHHHHHHHHHHHHh-----------hccCCCeEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCch
Confidence            667888999888888876654432           2335579999999999999999999877   67999999988764


Q ss_pred             h-----ccCccH--HHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         159 K-----LAGESE--SNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       159 ~-----~~~~~~--~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      .     ++|...  ....++|+.|..+   .+|+|||..|++.
T Consensus       269 ~~aEsElFG~apg~~gk~GffE~AngG---TVlLDeIgEmSp~  308 (511)
T COG3283         269 DAAESELFGHAPGDEGKKGFFEQANGG---TVLLDEIGEMSPR  308 (511)
T ss_pred             hHhHHHHhcCCCCCCCccchhhhccCC---eEEeehhhhcCHH
Confidence            3     333322  4556788888776   5999999999875

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

Probab=99.26  E-value=1.8e-11  Score=109.63  Aligned_cols=97  Identities=28%  Similarity=0.463  Sum_probs=68.7

Q ss_pred             hhcCCCCcccccCcHHHHH---HHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208          78 EASNAVGYDDIGGCRKQLA---QIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~---~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      +...+-++++++|++..+.   .+.+.+..             ....+++|+||||||||++|+++++..+.+++.+++.
T Consensus        20 ek~RP~tldd~vGQe~ii~~~~~L~~~i~~-------------~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~   86 (725)
T PRK13341         20 DRLRPRTLEEFVGQDHILGEGRLLRRAIKA-------------DRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAV   86 (725)
T ss_pred             HhcCCCcHHHhcCcHHHhhhhHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhh
Confidence            3455788999999999885   45555542             3345799999999999999999999999888888875


Q ss_pred             hhhhhccCccHHHHHHHHHHH-----hcCCCeEEEEcccCccCcc
Q psy6208         155 EIMSKLAGESESNLRKAFEEA-----DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a-----~~~~~~vl~lDeid~l~~~  194 (197)
                      ...       ...++..++.+     ......+|||||+|.|...
T Consensus        87 ~~~-------i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~  124 (725)
T PRK13341         87 LAG-------VKDLRAEVDRAKERLERHGKRTILFIDEVHRFNKA  124 (725)
T ss_pred             hhh-------hHHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHH
Confidence            321       11222222222     1234679999999998754

>KOG0989|consensus

Probab=99.25  E-value=1.4e-11  Score=98.20  Aligned_cols=103  Identities=24%  Similarity=0.332  Sum_probs=70.0

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC------eEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA------FFF  149 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~------~~~  149 (197)
                      ..+...+-+++++.|++.++..+.+.+..             ....++|||||||||||+.|+++|.+++.      .+.
T Consensus        26 wteKYrPkt~de~~gQe~vV~~L~~a~~~-------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl   92 (346)
T KOG0989|consen   26 WTEKYRPKTFDELAGQEHVVQVLKNALLR-------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVL   92 (346)
T ss_pred             hHHHhCCCcHHhhcchHHHHHHHHHHHhh-------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchh
Confidence            34556678999999999999999998864             23557999999999999999999999865      233


Q ss_pred             EEechhhhhhccCccHHHHHHHHHHHhc---------CC-CeEEEEcccCccCcc
Q psy6208         150 LINGPEIMSKLAGESESNLRKAFEEADK---------NS-PSIIFIDELDAIAPK  194 (197)
Q Consensus       150 ~v~~~~~~~~~~~~~~~~~~~~~~~a~~---------~~-~~vl~lDeid~l~~~  194 (197)
                      ..++++..+..+..  ..+ .-|.....         .. +.|+||||.|.|..+
T Consensus        93 ~lnaSderGisvvr--~Ki-k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsd  144 (346)
T KOG0989|consen   93 ELNASDERGISVVR--EKI-KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSD  144 (346)
T ss_pred             hhcccccccccchh--hhh-cCHHHHhhccccccCCCCCcceEEEEechhhhhHH
Confidence            34444433322211  111 11222211         11 269999999998754

>PRK08727 hypothetical protein; Validated

Probab=99.25  E-value=7.7e-11  Score=92.71  Aligned_cols=93  Identities=27%  Similarity=0.374  Sum_probs=61.5

Q ss_pred             cCCCCcccc-cCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208          80 SNAVGYDDI-GGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus        80 ~~~~~~~~i-~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      .+..+|+++ +|.+.....+......             .....++|+||+|||||||+++++++.   +.++.+++..+
T Consensus        13 ~~~~~f~~f~~~~~n~~~~~~~~~~~-------------~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~   79 (233)
T PRK08727         13 PSDQRFDSYIAAPDGLLAQLQALAAG-------------QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQA   79 (233)
T ss_pred             CCcCChhhccCCcHHHHHHHHHHHhc-------------cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHH
Confidence            446788885 4555544444332211             223469999999999999999998765   66778887655


Q ss_pred             hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         156 IMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +..        .+...++...  ..++|+|||+|.+..++
T Consensus        80 ~~~--------~~~~~~~~l~--~~dlLiIDDi~~l~~~~  109 (233)
T PRK08727         80 AAG--------RLRDALEALE--GRSLVALDGLESIAGQR  109 (233)
T ss_pred             hhh--------hHHHHHHHHh--cCCEEEEeCcccccCCh
Confidence            432        2223444433  35799999999987653

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.24  E-value=2.4e-11  Score=105.88  Aligned_cols=102  Identities=23%  Similarity=0.368  Sum_probs=74.7

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      ....+|++++|.+..++++.+.+...           +....+|+|+|++||||+++|++++...   +.+|+.++|..+
T Consensus       198 ~~~~~f~~~ig~s~~~~~~~~~~~~~-----------A~~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~  266 (520)
T PRK10820        198 NDDSAFSQIVAVSPKMRQVVEQARKL-----------AMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASI  266 (520)
T ss_pred             cccccccceeECCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccC
Confidence            45689999999999999888877643           2456679999999999999999998876   468999999876


Q ss_pred             hhh-----ccCccH-------HHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         157 MSK-----LAGESE-------SNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       157 ~~~-----~~~~~~-------~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ...     ++|...       ....++|+.+.   ..+||||||+.|++.-
T Consensus       267 ~~~~~e~elFG~~~~~~~~~~~~~~g~~e~a~---~GtL~LdeI~~L~~~~  314 (520)
T PRK10820        267 PDDVVESELFGHAPGAYPNALEGKKGFFEQAN---GGSVLLDEIGEMSPRM  314 (520)
T ss_pred             CHHHHHHHhcCCCCCCcCCcccCCCChhhhcC---CCEEEEeChhhCCHHH
Confidence            432     222111       11123455543   3479999999998753

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.24  E-value=6.3e-11  Score=93.33  Aligned_cols=92  Identities=16%  Similarity=0.225  Sum_probs=61.1

Q ss_pred             cCCCCccccc--CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208          80 SNAVGYDDIG--GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus        80 ~~~~~~~~i~--g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      .+..+|+++.  ++..++..+.++...             ....+++|+||+|+|||||+++++++.   +..+.+++..
T Consensus        16 ~~~~~fd~f~~~~n~~a~~~l~~~~~~-------------~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~   82 (235)
T PRK08084         16 PDDETFASFYPGDNDSLLAALQNALRQ-------------EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLD   82 (235)
T ss_pred             CCcCCccccccCccHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHH
Confidence            4567888854  455566666665432             234579999999999999999999875   4567777765


Q ss_pred             hhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         155 EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      .....        ..++.+...  ..++|+|||++.+..+
T Consensus        83 ~~~~~--------~~~~~~~~~--~~dlliiDdi~~~~~~  112 (235)
T PRK08084         83 KRAWF--------VPEVLEGME--QLSLVCIDNIECIAGD  112 (235)
T ss_pred             HHhhh--------hHHHHHHhh--hCCEEEEeChhhhcCC
Confidence            53211        112222222  2468999999998764

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.24  E-value=2.2e-11  Score=107.98  Aligned_cols=104  Identities=15%  Similarity=0.180  Sum_probs=69.9

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE--EE----
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFF--LI----  151 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~--~v----  151 (197)
                      +++.+.+|++|+|++..++.|.+++..-            ..++.+||+||+|+|||++++++++.+++..-  ..    
T Consensus         8 rKYRPqtFdEVIGQe~Vv~~L~~aL~~g------------RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~   75 (830)
T PRK07003          8 RKWRPKDFASLVGQEHVVRALTHALDGG------------RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGV   75 (830)
T ss_pred             HHhCCCcHHHHcCcHHHHHHHHHHHhcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcc
Confidence            4567889999999999999999988642            33556899999999999999999998865210  00    


Q ss_pred             --echhhhh----hc------cCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         152 --NGPEIMS----KL------AGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       152 --~~~~~~~----~~------~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                        +|..+..    .+      ....-..++.+++.+.    .+...|+||||+|.|..
T Consensus        76 C~sCr~I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~  133 (830)
T PRK07003         76 CRACREIDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTN  133 (830)
T ss_pred             cHHHHHHhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCH
Confidence              1111110    00      0112234555555443    23457999999999975

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.24  E-value=8e-11  Score=98.20  Aligned_cols=107  Identities=23%  Similarity=0.373  Sum_probs=74.0

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---------CeE
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---------AFF  148 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---------~~~  148 (197)
                      .+.+.+..+++.|.++++++|..++......         ..+.+++|+||||||||++++++++.+.         ..+
T Consensus         7 ~l~~~~~p~~l~gRe~e~~~l~~~l~~~~~~---------~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~   77 (365)
T TIGR02928         7 LLEPDYVPDRIVHRDEQIEELAKALRPILRG---------SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVT   77 (365)
T ss_pred             hCCCCCCCCCCCCcHHHHHHHHHHHHHHHcC---------CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEE
Confidence            3456777789999999999999988754321         3456799999999999999999987652         578


Q ss_pred             EEEechhhhh----------hcc--C-------c-cHHHHHHHHHHHh-cCCCeEEEEcccCccCc
Q psy6208         149 FLINGPEIMS----------KLA--G-------E-SESNLRKAFEEAD-KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       149 ~~v~~~~~~~----------~~~--~-------~-~~~~~~~~~~~a~-~~~~~vl~lDeid~l~~  193 (197)
                      ++++|....+          .+.  +       . ....+..+++... ...+.||+|||+|.|..
T Consensus        78 v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~  143 (365)
T TIGR02928        78 VYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVG  143 (365)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhcc
Confidence            8889854321          111  0       0 1122333444332 34567999999999973

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.23  E-value=7.7e-11  Score=98.46  Aligned_cols=105  Identities=22%  Similarity=0.252  Sum_probs=69.3

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE------
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFL------  150 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~------  150 (197)
                      .+...+.+|++++|++..++.+.+.+...            ..++.++|+||+|+|||++|+++++.+++....      
T Consensus         7 ~~kyrP~~~~~iiGq~~~~~~l~~~~~~~------------~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~   74 (363)
T PRK14961          7 ARKWRPQYFRDIIGQKHIVTAISNGLSLG------------RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCR   74 (363)
T ss_pred             HHHhCCCchhhccChHHHHHHHHHHHHcC------------CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCC
Confidence            34566789999999999999999888642            335568999999999999999999988642110      


Q ss_pred             --Eechhhhhh-------cc---CccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         151 --INGPEIMSK-------LA---GESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 --v~~~~~~~~-------~~---~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                        .+|.++...       ..   ...-..++.+.+.+..    +...|++|||+|.+..
T Consensus        75 ~c~~c~~~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~  133 (363)
T PRK14961         75 KCIICKEIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSR  133 (363)
T ss_pred             CCHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCH
Confidence              011111110       00   0122345555554332    2356999999999874

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

Probab=99.23  E-value=4.2e-11  Score=104.65  Aligned_cols=100  Identities=23%  Similarity=0.363  Sum_probs=77.9

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh------h---
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI------M---  157 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~------~---  157 (197)
                      |=.|++++++++.+++.-.....       -....-++|.||||+|||+|++.||+.+++.|+.++...+      .   
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~-------~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTK-------KLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhc-------cCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhcccc
Confidence            56899999999999886421111       1233457899999999999999999999999999875333      2   


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ..|+|+....+-+....+....| +++|||||.|..+
T Consensus       397 RTYIGamPGrIiQ~mkka~~~NP-v~LLDEIDKm~ss  432 (782)
T COG0466         397 RTYIGAMPGKIIQGMKKAGVKNP-VFLLDEIDKMGSS  432 (782)
T ss_pred             ccccccCChHHHHHHHHhCCcCC-eEEeechhhccCC
Confidence            34778888888788888877665 8999999999876

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.23  E-value=3.1e-11  Score=108.78  Aligned_cols=105  Identities=16%  Similarity=0.243  Sum_probs=69.6

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE-------E
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFF-------L  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~-------~  150 (197)
                      +.+.+.+|++|+|++.+++.|++++..-            +.+..+||+||+|+|||++|+++|+.+++.-.       .
T Consensus         8 eKyRP~tFddIIGQe~Iv~~LknaI~~~------------rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~   75 (944)
T PRK14949          8 RKWRPATFEQMVGQSHVLHALTNALTQQ------------RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGV   75 (944)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHhC------------CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCC
Confidence            3566789999999999999999888642            33455799999999999999999999866310       0


Q ss_pred             E-echhhhhh-------ccC---ccHHHHHHHHHHHh----cCCCeEEEEcccCccCcc
Q psy6208         151 I-NGPEIMSK-------LAG---ESESNLRKAFEEAD----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v-~~~~~~~~-------~~~---~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~  194 (197)
                      + +|..+...       +-+   ..-..++.+.+.+.    .+...|+||||+|.|...
T Consensus        76 C~sC~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~e  134 (944)
T PRK14949         76 CSSCVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRS  134 (944)
T ss_pred             chHHHHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHH
Confidence            0 11111110       000   11233454444332    345679999999999753

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.21  E-value=6.1e-11  Score=84.31  Aligned_cols=76  Identities=37%  Similarity=0.628  Sum_probs=57.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCe---EEEEechhhhhh--------------ccCccHHHHHHHHHHHhcCCCeE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAF---FFLINGPEIMSK--------------LAGESESNLRKAFEEADKNSPSI  182 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~---~~~v~~~~~~~~--------------~~~~~~~~~~~~~~~a~~~~~~v  182 (197)
                      +..++|+||||||||++++.++..+...   ++++++......              ............++.+....+++
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            4579999999999999999999998664   888887654322              11233445667777787776799


Q ss_pred             EEEcccCccCccc
Q psy6208         183 IFIDELDAIAPKR  195 (197)
Q Consensus       183 l~lDeid~l~~~r  195 (197)
                      |++||++.+....
T Consensus        82 iiiDei~~~~~~~   94 (148)
T smart00382       82 LILDEITSLLDAE   94 (148)
T ss_pred             EEEECCcccCCHH
Confidence            9999999987653

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.21  E-value=9.9e-11  Score=100.54  Aligned_cols=97  Identities=22%  Similarity=0.324  Sum_probs=70.4

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe-----------
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----------  147 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~-----------  147 (197)
                      .+.+.+|++++|++..++.+.+++..-            ..+..+||+||+|+|||++|+.+|+.+++.           
T Consensus         6 KyRP~~f~dliGQe~vv~~L~~a~~~~------------ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C   73 (491)
T PRK14964          6 KYRPSSFKDLVGQDVLVRILRNAFTLN------------KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTC   73 (491)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCcccc
Confidence            456789999999999999998887642            345689999999999999999999876431           


Q ss_pred             -------------EEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         148 -------------FFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 -------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                                   ++++++++      ...-..++.+.+.+..    +...|+||||+|.|..
T Consensus        74 ~~C~~i~~~~~~Dv~eidaas------~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~  130 (491)
T PRK14964         74 HNCISIKNSNHPDVIEIDAAS------NTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSN  130 (491)
T ss_pred             HHHHHHhccCCCCEEEEeccc------CCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCH
Confidence                         23333321      1123456666655532    3457999999999865

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

Probab=99.21  E-value=6.9e-11  Score=94.00  Aligned_cols=76  Identities=28%  Similarity=0.503  Sum_probs=55.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccHH-HHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESES-NLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~~-~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ....+++|+||||+||||||.|+++++   |.++.+++.++++..+...... .....+... -...++|+|||+.....
T Consensus       103 ~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~-l~~~dlLIiDDlG~~~~  181 (254)
T COG1484         103 ERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE-LKKVDLLIIDDIGYEPF  181 (254)
T ss_pred             ccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHH-hhcCCEEEEecccCccC
Confidence            357789999999999999999999987   7899999999998776432221 111112221 12468999999988654


Q ss_pred             c
Q psy6208         194 K  194 (197)
Q Consensus       194 ~  194 (197)
                      .
T Consensus       182 ~  182 (254)
T COG1484         182 S  182 (254)
T ss_pred             C
Confidence            3

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.20  E-value=2e-10  Score=96.83  Aligned_cols=106  Identities=25%  Similarity=0.352  Sum_probs=72.8

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEe
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLIN  152 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~  152 (197)
                      .+.+.+..+.+.|.++.++++...+......         ..+.+++|+||||+|||++++.+++.+     +..+++++
T Consensus        22 ~l~~~~~P~~l~~Re~e~~~l~~~l~~~~~~---------~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in   92 (394)
T PRK00411         22 VLEPDYVPENLPHREEQIEELAFALRPALRG---------SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN   92 (394)
T ss_pred             hCCCCCcCCCCCCHHHHHHHHHHHHHHHhCC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE
Confidence            3455667788999999999999988654321         345679999999999999999999876     46789999


Q ss_pred             chhhh----------hhccC-------cc-HHHHHHHHHHHh-cCCCeEEEEcccCccC
Q psy6208         153 GPEIM----------SKLAG-------ES-ESNLRKAFEEAD-KNSPSIIFIDELDAIA  192 (197)
Q Consensus       153 ~~~~~----------~~~~~-------~~-~~~~~~~~~~a~-~~~~~vl~lDeid~l~  192 (197)
                      |....          ..+.+       .. ...+..+.+... ...+.||+|||+|.+.
T Consensus        93 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~  151 (394)
T PRK00411         93 CQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLF  151 (394)
T ss_pred             CCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhh
Confidence            85432          11111       11 122223333322 2456899999999997

>PRK07952 DNA replication protein DnaC; Validated

Probab=99.20  E-value=1.2e-10  Score=91.95  Aligned_cols=71  Identities=28%  Similarity=0.500  Sum_probs=52.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCc---cHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGE---SESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~---~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      .+++|+|++|||||||+.++++++   +.++++++..++...+...   .......+++...  .+++|+|||++....
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l~--~~dlLvIDDig~~~~  176 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDLS--NVDLLVIDEIGVQTE  176 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHhc--cCCEEEEeCCCCCCC
Confidence            589999999999999999999987   7789999988887644321   1111223344332  478999999988754

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.20  E-value=4.9e-11  Score=105.27  Aligned_cols=105  Identities=19%  Similarity=0.290  Sum_probs=69.5

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE-------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFL-------  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~-------  150 (197)
                      .++.+-+|++|+|++..++.|.+.+..-            ..+..+||+||+|+|||++|+.+|+.+++....       
T Consensus         8 ~KyRP~~f~divGQe~vv~~L~~~l~~~------------rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~   75 (647)
T PRK07994          8 RKWRPQTFAEVVGQEHVLTALANALDLG------------RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGE   75 (647)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCC
Confidence            3466789999999999999999888642            334558999999999999999999998663100       


Q ss_pred             E-echhhhhh-------ccC---ccHHHHHHHHHHHh----cCCCeEEEEcccCccCcc
Q psy6208         151 I-NGPEIMSK-------LAG---ESESNLRKAFEEAD----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v-~~~~~~~~-------~~~---~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~  194 (197)
                      . .|..+...       +.+   ..-..++.+.+.+.    .+...|+||||+|.|...
T Consensus        76 C~~C~~i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~  134 (647)
T PRK07994         76 CDNCREIEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRH  134 (647)
T ss_pred             CHHHHHHHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHH
Confidence            0 01111100       000   12234455444432    345679999999998753

>PRK06893 DNA replication initiation factor; Validated

Probab=99.19  E-value=8.4e-11  Score=92.25  Aligned_cols=66  Identities=17%  Similarity=0.244  Sum_probs=45.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.++||||||||||||++++|++.   +..+.+++......        .....++...  +.++|+|||++.+.+++
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~--------~~~~~~~~~~--~~dlLilDDi~~~~~~~  107 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY--------FSPAVLENLE--QQDLVCLDDLQAVIGNE  107 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh--------hhHHHHhhcc--cCCEEEEeChhhhcCCh
Confidence            3458999999999999999999886   45666666543211        1112233332  46799999999987643

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.19  E-value=2.3e-11  Score=102.58  Aligned_cols=99  Identities=27%  Similarity=0.433  Sum_probs=76.6

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS  158 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~  158 (197)
                      ...+..|+|.+.++.++.+.+...           +....+|||.|++||||..+|++|++.+   +.|++++||+.+..
T Consensus       219 ~~~~~~iIG~S~am~~ll~~i~~V-----------A~Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPe  287 (550)
T COG3604         219 VLEVGGIIGRSPAMRQLLKEIEVV-----------AKSDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPE  287 (550)
T ss_pred             hcccccceecCHHHHHHHHHHHHH-----------hcCCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccch
Confidence            456678999999999999998865           4677899999999999999999999988   56999999987753


Q ss_pred             -----hccCccHHHH-------HHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         159 -----KLAGESESNL-------RKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       159 -----~~~~~~~~~~-------~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                           +++|+....+       .+-|+.|..   ..||||||+.|+.+
T Consensus       288 sLlESELFGHeKGAFTGA~~~r~GrFElAdG---GTLFLDEIGelPL~  332 (550)
T COG3604         288 SLLESELFGHEKGAFTGAINTRRGRFELADG---GTLFLDEIGELPLA  332 (550)
T ss_pred             HHHHHHHhcccccccccchhccCcceeecCC---CeEechhhccCCHH
Confidence                 3344433222       223444444   47999999999864

>PRK08181 transposase; Validated

Probab=99.18  E-value=5.8e-11  Score=95.00  Aligned_cols=75  Identities=25%  Similarity=0.467  Sum_probs=54.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCcc-HHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGES-ESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~-~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ...+++|+||||||||||+.++++++   +..+++++..++...+.... .......++...  .+++|+|||++.+..+
T Consensus       105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~--~~dLLIIDDlg~~~~~  182 (269)
T PRK08181        105 KGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLD--KFDLLILDDLAYVTKD  182 (269)
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHh--cCCEEEEeccccccCC
Confidence            45689999999999999999998765   78899999988877653211 112223333332  4789999999988764


Q ss_pred             c
Q psy6208         195 R  195 (197)
Q Consensus       195 r  195 (197)
                      .
T Consensus       183 ~  183 (269)
T PRK08181        183 Q  183 (269)
T ss_pred             H
Confidence            3

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.18  E-value=1.7e-10  Score=99.74  Aligned_cols=104  Identities=20%  Similarity=0.300  Sum_probs=71.7

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE-------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFL-------  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~-------  150 (197)
                      ....+.+|++++|++..++.+...+..-            ..+..+||+||+|+|||++|+++|+.+++....       
T Consensus        13 ~kyRP~~f~dliGq~~vv~~L~~ai~~~------------ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~   80 (507)
T PRK06645         13 RKYRPSNFAELQGQEVLVKVLSYTILND------------RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIK   80 (507)
T ss_pred             hhhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcC
Confidence            3466789999999999999998877542            345689999999999999999999998653110       


Q ss_pred             -----Eechhhhhh-------c---cCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         151 -----INGPEIMSK-------L---AGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 -----v~~~~~~~~-------~---~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                           -+|..+...       +   .......++.+++.+..    +...|+||||+|.|..
T Consensus        81 ~C~~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~  142 (507)
T PRK06645         81 TCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSK  142 (507)
T ss_pred             CCCCChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCH
Confidence                 011122111       0   01233456666666542    3457999999999865

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.18  E-value=7.9e-11  Score=101.94  Aligned_cols=98  Identities=18%  Similarity=0.307  Sum_probs=68.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------  147 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------  147 (197)
                      ....+.+|++++|++.+++.|.+++...            ..+..+||+||||+|||++|+++++.+.+.          
T Consensus         6 ~KyRP~~~~dvvGq~~v~~~L~~~i~~~------------~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C   73 (504)
T PRK14963          6 QRARPITFDEVVGQEHVKEVLLAALRQG------------RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGEC   73 (504)
T ss_pred             HhhCCCCHHHhcChHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcC
Confidence            3466789999999999999999988752            334557999999999999999999988531          


Q ss_pred             -------------EEEEechhhhhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         148 -------------FFLINGPEIMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 -------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                                   ++.++...      ...-..++.+.+.+.    .+.+.++||||+|.+..
T Consensus        74 ~sc~~i~~~~h~dv~el~~~~------~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~  130 (504)
T PRK14963         74 ESCLAVRRGAHPDVLEIDAAS------NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSK  130 (504)
T ss_pred             hhhHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCCeEEEEECccccCH
Confidence                         22333211      112233444433332    24567999999998854

>PRK05642 DNA replication initiation factor; Validated

Probab=99.18  E-value=1.9e-10  Score=90.49  Aligned_cols=66  Identities=21%  Similarity=0.357  Sum_probs=49.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ..+++|+||+|+|||||+++++++.   +..+++++..++....        ..+.+...  ..++|+|||++.+.++.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~--------~~~~~~~~--~~d~LiiDDi~~~~~~~  113 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRG--------PELLDNLE--QYELVCLDDLDVIAGKA  113 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhh--------HHHHHhhh--hCCEEEEechhhhcCCh
Confidence            3679999999999999999998765   6788999988775421        12223332  24699999999887653

>KOG0742|consensus

Probab=99.18  E-value=5.9e-11  Score=98.09  Aligned_cols=109  Identities=28%  Similarity=0.460  Sum_probs=76.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      .-.+++++-.....+.|.++...--+.     .....+-++|++|||||||||++|+.||..+|..+-.+.+.++. .+-
T Consensus       351 k~pl~~ViL~psLe~Rie~lA~aTaNT-----K~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVA-PlG  424 (630)
T KOG0742|consen  351 KDPLEGVILHPSLEKRIEDLAIATANT-----KKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVA-PLG  424 (630)
T ss_pred             CCCcCCeecCHHHHHHHHHHHHHhccc-----ccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCcc-ccc
Confidence            334677777777777776654432111     11124556899999999999999999999999888777665542 222


Q ss_pred             CccHHHHHHHHHHHhcCCC-eEEEEcccCccCcccC
Q psy6208         162 GESESNLRKAFEEADKNSP-SIIFIDELDAIAPKRE  196 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~-~vl~lDeid~l~~~r~  196 (197)
                      ...-..++.+|+-+..... -+|||||.|.+..+|.
T Consensus       425 ~qaVTkiH~lFDWakkS~rGLllFIDEADAFLceRn  460 (630)
T KOG0742|consen  425 AQAVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERN  460 (630)
T ss_pred             hHHHHHHHHHHHHHhhcccceEEEehhhHHHHHHhc
Confidence            2344678899998876544 4799999999988774

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

Probab=99.18  E-value=4e-11  Score=107.95  Aligned_cols=104  Identities=20%  Similarity=0.365  Sum_probs=70.9

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-----hcc
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-----KLA  161 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-----~~~  161 (197)
                      .++|++.+++.+.+.+........  .  .-.+...+||+||||||||.+|+++|..++.+++.++++++..     .++
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~--~--~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~Li  534 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLG--H--EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLI  534 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhcccc--C--CCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHc
Confidence            479999999999998875321100  0  0123456999999999999999999999999999999987643     233


Q ss_pred             CccHH----HHHHHH-HHHhcCCCeEEEEcccCccCcc
Q psy6208         162 GESES----NLRKAF-EEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       162 ~~~~~----~~~~~~-~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      |....    .....+ +..++...+||+|||+|.+.+.
T Consensus       535 G~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~  572 (758)
T PRK11034        535 GAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPD  572 (758)
T ss_pred             CCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHH
Confidence            32110    011122 3334445689999999998764

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.18  E-value=5.8e-11  Score=104.50  Aligned_cols=105  Identities=16%  Similarity=0.252  Sum_probs=70.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE------E--
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF------F--  149 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~------~--  149 (197)
                      .++.+.+|++++|++..++.|.+++..-            ..+..+||+||+|+|||++|+++|+.+++.-      .  
T Consensus         8 ~KyRP~~f~dviGQe~vv~~L~~~l~~~------------rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~   75 (618)
T PRK14951          8 RKYRPRSFSEMVGQEHVVQALTNALTQQ------------RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA   75 (618)
T ss_pred             HHHCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC
Confidence            4566789999999999999999988752            3455689999999999999999999986521      0  


Q ss_pred             ----E-Eechhhhhh-------cc---CccHHHHHHHHHHHhc----CCCeEEEEcccCccCcc
Q psy6208         150 ----L-INGPEIMSK-------LA---GESESNLRKAFEEADK----NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       150 ----~-v~~~~~~~~-------~~---~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~  194 (197)
                          . -+|..+...       +-   ...-..++.+.+.+..    +...|+||||+|.|...
T Consensus        76 ~pCg~C~~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~  139 (618)
T PRK14951         76 TPCGVCQACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNT  139 (618)
T ss_pred             CCCCccHHHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHH
Confidence                0 012111110       00   1122345555555432    33579999999998753

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.17  E-value=2.2e-11  Score=105.86  Aligned_cols=100  Identities=27%  Similarity=0.384  Sum_probs=74.9

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHH--------h---CCeEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--------T---GAFFFL  150 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~--------~---~~~~~~  150 (197)
                      ..+|++++|.+..++++.+.+...           .....+|||+|++||||+++|++|++.        +   +.+|+.
T Consensus       215 ~~~f~~iiG~S~~m~~~~~~i~~~-----------A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~  283 (538)
T PRK15424        215 RYVLGDLLGQSPQMEQVRQTILLY-----------ARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVA  283 (538)
T ss_pred             ccchhheeeCCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEE
Confidence            357889999999999999988754           355778999999999999999999987        3   569999


Q ss_pred             Eechhhhhh-----ccCccHH--------HHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         151 INGPEIMSK-----LAGESES--------NLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       151 v~~~~~~~~-----~~~~~~~--------~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +||..+...     ++|..+.        ....+|+.+..   .+||||||+.|+..-
T Consensus       284 inCaal~e~lleseLFG~~~gaftga~~~~~~Gl~e~A~g---GTLfLdeI~~Lp~~~  338 (538)
T PRK15424        284 VNCGAIAESLLEAELFGYEEGAFTGSRRGGRAGLFEIAHG---GTLFLDEIGEMPLPL  338 (538)
T ss_pred             eecccCChhhHHHHhcCCccccccCccccccCCchhccCC---CEEEEcChHhCCHHH
Confidence            999876432     2232111        12235555544   479999999998753

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.17  E-value=1.9e-10  Score=101.65  Aligned_cols=104  Identities=20%  Similarity=0.286  Sum_probs=70.6

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE-------E
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFF-------L  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~-------~  150 (197)
                      .++.+.+|++|+|++.+++.|.+++...            +.+..+||+||+|+|||++|+++++.+++.-.       .
T Consensus         8 rKYRP~tFddIIGQe~vv~~L~~ai~~~------------rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~   75 (709)
T PRK08691          8 RKWRPKTFADLVGQEHVVKALQNALDEG------------RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGV   75 (709)
T ss_pred             HHhCCCCHHHHcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcc
Confidence            3466789999999999999999998742            34567999999999999999999998765311       0


Q ss_pred             E-echhhhhh----------ccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         151 I-NGPEIMSK----------LAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 v-~~~~~~~~----------~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                      . .|..+...          ........++.+++.+.    .+...|+||||+|.|..
T Consensus        76 C~sCr~i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~  133 (709)
T PRK08691         76 CQSCTQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSK  133 (709)
T ss_pred             cHHHHHHhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCH
Confidence            0 01111100          00112335566665432    23457999999998864

>KOG0735|consensus

Probab=99.16  E-value=7.4e-11  Score=102.97  Aligned_cols=76  Identities=30%  Similarity=0.386  Sum_probs=67.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ..+++|||+||+|+|||.|+++++++.    -+++.+++|+.+.........+.+..+|..+.+++|+||+|||+|.|..
T Consensus       429 ~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~  508 (952)
T KOG0735|consen  429 FRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSIIVLDDLDCLAS  508 (952)
T ss_pred             cccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEEEEcchhhhhc
Confidence            456789999999999999999999987    4578899999998776666778889999999999999999999999987

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.15  E-value=1.2e-10  Score=101.49  Aligned_cols=104  Identities=18%  Similarity=0.257  Sum_probs=69.7

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE-------E
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFF-------L  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~-------~  150 (197)
                      ..+.+.+|++++|++.+++.+..++...            ..+..+||+||+|+|||++|+.+++.+++...       .
T Consensus         8 ~k~rP~~f~divGq~~v~~~L~~~i~~~------------~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~   75 (527)
T PRK14969          8 RKWRPKSFSELVGQEHVVRALTNALEQQ------------RLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGV   75 (527)
T ss_pred             HHhCCCcHHHhcCcHHHHHHHHHHHHcC------------CCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCC
Confidence            3456789999999999999999988742            34556899999999999999999999865210       0


Q ss_pred             E-echhhhhh-------c---cCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         151 I-NGPEIMSK-------L---AGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 v-~~~~~~~~-------~---~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                      . .|..+...       .   ....-..++.+.+.+..    +...|+||||+|.|..
T Consensus        76 C~~C~~i~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~  133 (527)
T PRK14969         76 CSACLEIDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSK  133 (527)
T ss_pred             CHHHHHHhcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCH
Confidence            0 01111000       0   01123345666555432    3457999999999875

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.15  E-value=3.4e-11  Score=104.65  Aligned_cols=101  Identities=27%  Similarity=0.418  Sum_probs=75.6

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM  157 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~  157 (197)
                      ...+|++++|.+..++++.+.+...           .....+|||+|++||||+++|++|++..   +.+|+.++|..+.
T Consensus       207 ~~~~f~~iiG~S~~m~~~~~~i~~~-----------A~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~  275 (526)
T TIGR02329       207 TRYRLDDLLGASAPMEQVRALVRLY-----------ARSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIA  275 (526)
T ss_pred             cccchhheeeCCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCC
Confidence            3467899999999999999988754           3556789999999999999999999876   5699999998764


Q ss_pred             hh-----ccCccH--------HHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         158 SK-----LAGESE--------SNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       158 ~~-----~~~~~~--------~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ..     ++|..+        .....+|+.+..   ..||||||+.|+..-
T Consensus       276 e~lleseLFG~~~gaftga~~~~~~Gl~e~A~g---GTLfLdeI~~Lp~~~  323 (526)
T TIGR02329       276 ESLLEAELFGYEEGAFTGARRGGRTGLIEAAHR---GTLFLDEIGEMPLPL  323 (526)
T ss_pred             hhHHHHHhcCCcccccccccccccccchhhcCC---ceEEecChHhCCHHH
Confidence            32     222211        112344555543   479999999998753

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

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

Probab=99.15  E-value=3.4e-10  Score=88.40  Aligned_cols=91  Identities=26%  Similarity=0.438  Sum_probs=70.9

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM  157 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~  157 (197)
                      ..+.++++.|.+.+++.+.+....++..         .+..++||||++|||||++++++.++.   |..++.+...++.
T Consensus        22 ~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G---------~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~   92 (249)
T PF05673_consen   22 DPIRLDDLIGIERQKEALIENTEQFLQG---------LPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLG   92 (249)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHcC---------CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhc
Confidence            3688999999999999998888765443         567789999999999999999999876   7788888876663


Q ss_pred             hhccCccHHHHHHHHHHHh-cCCCeEEEEcccC
Q psy6208         158 SKLAGESESNLRKAFEEAD-KNSPSIIFIDELD  189 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~-~~~~~vl~lDeid  189 (197)
                               .+..+++..+ +...-|||+||+.
T Consensus        93 ---------~l~~l~~~l~~~~~kFIlf~DDLs  116 (249)
T PF05673_consen   93 ---------DLPELLDLLRDRPYKFILFCDDLS  116 (249)
T ss_pred             ---------cHHHHHHHHhcCCCCEEEEecCCC
Confidence                     2334444433 3345799999965

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.14  E-value=2.2e-10  Score=99.71  Aligned_cols=57  Identities=21%  Similarity=0.352  Sum_probs=47.9

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ....+.+|++++|++..++.+...+...            ..+..+||+||+|+|||++|+.+|+.+++
T Consensus         8 ~KyRP~~f~diiGq~~~v~~L~~~i~~~------------rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c   64 (546)
T PRK14957          8 RKYRPQSFAEVAGQQHALNSLVHALETQ------------KVHHAYLFTGTRGVGKTTLGRLLAKCLNC   64 (546)
T ss_pred             HHHCcCcHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4466789999999999999999888642            33456899999999999999999998854

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.13  E-value=7.2e-11  Score=103.01  Aligned_cols=66  Identities=33%  Similarity=0.582  Sum_probs=52.9

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CC
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GA  146 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~  146 (197)
                      .+...+.+|++++|++..++.++..+..             ..+.+++|+||||||||++|+++++..          +.
T Consensus        56 ~~~~rp~~f~~iiGqs~~i~~l~~al~~-------------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~  122 (531)
T TIGR02902        56 SEKTRPKSFDEIIGQEEGIKALKAALCG-------------PNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGA  122 (531)
T ss_pred             HHhhCcCCHHHeeCcHHHHHHHHHHHhC-------------CCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCC
Confidence            4456678999999999999999866432             346689999999999999999998752          35


Q ss_pred             eEEEEechh
Q psy6208         147 FFFLINGPE  155 (197)
Q Consensus       147 ~~~~v~~~~  155 (197)
                      +|+.++|..
T Consensus       123 ~fi~id~~~  131 (531)
T TIGR02902       123 AFVEIDATT  131 (531)
T ss_pred             CEEEEcccc
Confidence            788898863

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.13  E-value=3.8e-10  Score=95.36  Aligned_cols=57  Identities=21%  Similarity=0.307  Sum_probs=48.5

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +...+.+|++|+|++.+++.|..++...            ..+..+||+||+|+|||++|+++|+.+.+
T Consensus         8 ~k~RP~~~~eiiGq~~~~~~L~~~~~~~------------~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c   64 (397)
T PRK14955          8 RKYRPKKFADITAQEHITRTIQNSLRMG------------RVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (397)
T ss_pred             HhcCCCcHhhccChHHHHHHHHHHHHhC------------CcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence            3456789999999999999998888642            34556999999999999999999999865

>KOG0991|consensus

Probab=99.13  E-value=7.8e-11  Score=90.95  Aligned_cols=103  Identities=22%  Similarity=0.312  Sum_probs=72.2

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-CC----eEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-GA----FFFL  150 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-~~----~~~~  150 (197)
                      +-+...+..+.||+|+++.+..+.-+...             ..-++++|.||||+|||+.+.++|+++ |.    -++.
T Consensus        17 wVeKYrP~~l~dIVGNe~tv~rl~via~~-------------gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLE   83 (333)
T KOG0991|consen   17 WVEKYRPSVLQDIVGNEDTVERLSVIAKE-------------GNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLE   83 (333)
T ss_pred             HHHhhCchHHHHhhCCHHHHHHHHHHHHc-------------CCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhh
Confidence            45667788899999999999999877653             345689999999999999999999987 32    3566


Q ss_pred             EechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCcc
Q psy6208         151 INGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~  194 (197)
                      +|+++-.+-.  -....+ ..|...+-    ++..|++|||+|++...
T Consensus        84 LNASdeRGID--vVRn~I-K~FAQ~kv~lp~grhKIiILDEADSMT~g  128 (333)
T KOG0991|consen   84 LNASDERGID--VVRNKI-KMFAQKKVTLPPGRHKIIILDEADSMTAG  128 (333)
T ss_pred             ccCccccccH--HHHHHH-HHHHHhhccCCCCceeEEEeeccchhhhH
Confidence            6665432211  112222 23333221    34469999999998653

>PRK08939 primosomal protein DnaI; Reviewed

Probab=99.13  E-value=2.1e-10  Score=93.59  Aligned_cols=73  Identities=25%  Similarity=0.485  Sum_probs=53.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccH-HHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESE-SNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~-~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ...+++|+|++|+|||||+.|+|+++   +.++.++..+++...+..... ......++...  ..++|+|||++.-..
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l~--~~dlLiIDDiG~e~~  231 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAVK--EAPVLMLDDIGAEQM  231 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHhc--CCCEEEEecCCCccc
Confidence            45789999999999999999999988   788899998887765532211 11233333332  478999999986543

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.12  E-value=9.8e-11  Score=99.29  Aligned_cols=98  Identities=23%  Similarity=0.402  Sum_probs=76.0

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK  159 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~  159 (197)
                      ....+++|.+..+.++.+.+...           +....+|||+|++||||..+|++||+.+   +.||+.+||..+...
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kv-----------A~s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~  206 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKV-----------APSDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPEN  206 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHH
Confidence            35668999999999999998765           4667889999999999999999999988   459999999877543


Q ss_pred             -----ccCccHH-------HHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 -----LAGESES-------NLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 -----~~~~~~~-------~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                           ++|+...       ...+.|+.|..+   +||||||..|+..
T Consensus       207 l~ESELFGhekGAFTGA~~~r~G~fE~A~GG---TLfLDEI~~mpl~  250 (464)
T COG2204         207 LLESELFGHEKGAFTGAITRRIGRFEQANGG---TLFLDEIGEMPLE  250 (464)
T ss_pred             HHHHHhhcccccCcCCcccccCcceeEcCCc---eEEeeccccCCHH
Confidence                 3343221       123356666555   7999999998754

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.12  E-value=1.5e-10  Score=97.44  Aligned_cols=103  Identities=20%  Similarity=0.311  Sum_probs=69.8

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE---------------
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF---------------  148 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~---------------  148 (197)
                      .|++|+|++.+++.+++.+......   +..++...++.+||+||+|+|||++|+++|+.+.+.-               
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~---~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~   79 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARAD---VAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTV   79 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhcccc---ccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHH
Confidence            5889999999999999999864321   1112223567899999999999999999999875431               


Q ss_pred             --------EEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCcc
Q psy6208         149 --------FLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       149 --------~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~  194 (197)
                              .++....     ..-.-..++.+++.+..    +...|+||||+|.|.+.
T Consensus        80 ~~~~hpD~~~i~~~~-----~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~  132 (394)
T PRK07940         80 LAGTHPDVRVVAPEG-----LSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTER  132 (394)
T ss_pred             hcCCCCCEEEecccc-----ccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHH
Confidence                    1111100     01123456677666543    34569999999999753

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.11  E-value=2.9e-10  Score=99.77  Aligned_cols=57  Identities=19%  Similarity=0.314  Sum_probs=48.3

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ..+.+.+|++|+|++.+++.|+.++...            ..++.+||+||+|+|||++|+++|+.+++
T Consensus         5 ~kyRP~~f~eivGq~~i~~~L~~~i~~~------------r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   61 (584)
T PRK14952          5 RKYRPATFAEVVGQEHVTEPLSSALDAG------------RINHAYLFSGPRGCGKTSSARILARSLNC   61 (584)
T ss_pred             HHhCCCcHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3466789999999999999999998742            33455899999999999999999998864

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

Probab=99.11  E-value=2.9e-10  Score=103.02  Aligned_cols=101  Identities=21%  Similarity=0.336  Sum_probs=72.0

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh--------
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS--------  158 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~--------  158 (197)
                      +..|++++++.+.+++......       +-.....++|+||||+|||++++.+|..++.+++.++......        
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~-------~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~  395 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRV-------NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHR  395 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhc-------ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccch
Confidence            4889999999998887643211       1123456999999999999999999999999998887654321        


Q ss_pred             -hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 -KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 -~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                       .+.|.....+...+..+.... .|++|||+|.+.++.
T Consensus       396 ~~~~g~~~G~~~~~l~~~~~~~-~villDEidk~~~~~  432 (784)
T PRK10787        396 RTYIGSMPGKLIQKMAKVGVKN-PLFLLDEIDKMSSDM  432 (784)
T ss_pred             hccCCCCCcHHHHHHHhcCCCC-CEEEEEChhhccccc
Confidence             234444445555555544333 489999999998763

>KOG2004|consensus

Probab=99.11  E-value=3.1e-10  Score=99.27  Aligned_cols=100  Identities=24%  Similarity=0.419  Sum_probs=77.6

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh--------
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM--------  157 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~--------  157 (197)
                      +|-.|.+++++.+.+++.--..       .|-..+.-++|+||||+|||+++++||..+|+.|+.++...+.        
T Consensus       411 eDHYgm~dVKeRILEfiAV~kL-------rgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKL-------RGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhh-------cccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhccc
Confidence            4568999999999998863211       1123455688999999999999999999999999998753332        


Q ss_pred             -hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         158 -SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       158 -~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                       ..|+|.....+-+.++......| +++|||||.+..
T Consensus       484 RRTYVGAMPGkiIq~LK~v~t~NP-liLiDEvDKlG~  519 (906)
T KOG2004|consen  484 RRTYVGAMPGKIIQCLKKVKTENP-LILIDEVDKLGS  519 (906)
T ss_pred             ceeeeccCChHHHHHHHhhCCCCc-eEEeehhhhhCC
Confidence             34778887888888888777655 899999999984

>PRK06835 DNA replication protein DnaC; Validated

Probab=99.10  E-value=6.5e-10  Score=91.43  Aligned_cols=72  Identities=24%  Similarity=0.436  Sum_probs=51.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCc---cHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGE---SESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~---~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ..+++|+|++|+|||||+.++|+++   +..+++++..++...+...   ........++...  ..++|+|||++....
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~--~~DLLIIDDlG~e~~  260 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLI--NCDLLIIDDLGTEKI  260 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhc--cCCEEEEeccCCCCC
Confidence            4789999999999999999999987   7899999998887654211   0111111133322  468999999987654

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

Probab=99.10  E-value=4e-10  Score=101.95  Aligned_cols=98  Identities=26%  Similarity=0.424  Sum_probs=69.1

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCC----CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh---
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGV----KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK---  159 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~----~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~---  159 (197)
                      .++|++.+++.+.+.+...        ..|.    .+...++|+||+|||||++|+++|..++.+++.++++++...   
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~--------~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~  526 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRS--------RAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTV  526 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHH--------hcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccH
Confidence            4788888888888877642        1111    223458999999999999999999999999999998876432   


Q ss_pred             --cc-------CccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 --LA-------GESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 --~~-------~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                        +.       |..+.  ..+.+..+....+||+|||+|.+.+.
T Consensus       527 ~~lig~~~gyvg~~~~--~~l~~~~~~~p~~VvllDEieka~~~  568 (731)
T TIGR02639       527 SRLIGAPPGYVGFEQG--GLLTEAVRKHPHCVLLLDEIEKAHPD  568 (731)
T ss_pred             HHHhcCCCCCcccchh--hHHHHHHHhCCCeEEEEechhhcCHH
Confidence              12       21111  12333444556789999999988764

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

Probab=99.09  E-value=2.2e-10  Score=91.93  Aligned_cols=103  Identities=32%  Similarity=0.465  Sum_probs=72.4

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCC--------CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGV--------KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-  158 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~--------~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-  158 (197)
                      ++|++.+++.+.-++...      |.++..        -..++||+.||+|||||.||+.+|+.++.||..-++..+.. 
T Consensus        63 VIGQe~AKKvLsVAVYNH------YKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEA  136 (408)
T COG1219          63 VIGQEQAKKVLSVAVYNH------YKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEA  136 (408)
T ss_pred             eecchhhhceeeeeehhH------HHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhc
Confidence            677777776665444332      222211        13467999999999999999999999999999999888764 


Q ss_pred             hccCcc-HHHHHHHHHHHh----cCCCeEEEEcccCccCcccC
Q psy6208         159 KLAGES-ESNLRKAFEEAD----KNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       159 ~~~~~~-~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~r~  196 (197)
                      .|+|+. ++.+..++..+.    +....|++|||||.++.+.+
T Consensus       137 GYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSe  179 (408)
T COG1219         137 GYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSE  179 (408)
T ss_pred             cccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCC
Confidence            466664 344555554432    23456999999999988753

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.09  E-value=5.1e-10  Score=98.26  Aligned_cols=58  Identities=21%  Similarity=0.287  Sum_probs=48.9

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .....+.+|++|+|++.+++.|.+++..-            .....+||+||+|+|||++|+.+|+.+.+
T Consensus         7 a~KyRP~sf~dIiGQe~v~~~L~~ai~~~------------ri~ha~Lf~GPpG~GKTtiArilAk~L~C   64 (624)
T PRK14959          7 TARYRPQTFAEVAGQETVKAILSRAAQEN------------RVAPAYLFSGTRGVGKTTIARIFAKALNC   64 (624)
T ss_pred             HHHhCCCCHHHhcCCHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence            34566889999999999999999988642            23567999999999999999999999865

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.09  E-value=3.1e-10  Score=94.91  Aligned_cols=105  Identities=19%  Similarity=0.299  Sum_probs=70.6

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+...+.+|++++|++..++.+.+.+...            ..+++++||||+|+|||++++++++.+.+......+..+
T Consensus         8 ~~k~rP~~~~~iig~~~~~~~l~~~i~~~------------~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~   75 (367)
T PRK14970          8 ARKYRPQTFDDVVGQSHITNTLLNAIENN------------HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDF   75 (367)
T ss_pred             HHHHCCCcHHhcCCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCC
Confidence            44567889999999999999999988642            345689999999999999999999987542111000000


Q ss_pred             ------hhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         157 ------MSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       157 ------~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                            .+.........++.+++.+..    +.+.+++|||+|.+..
T Consensus        76 ~~~~~~l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~  122 (367)
T PRK14970         76 SFNIFELDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS  122 (367)
T ss_pred             CcceEEeccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCH
Confidence                  000011123455566655432    3457999999998864

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

Probab=99.09  E-value=8e-11  Score=88.87  Aligned_cols=74  Identities=27%  Similarity=0.545  Sum_probs=50.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCcc-HHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGES-ESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~-~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ....+++|+|++|+||||||.++++++   +.++.+++.++++..+.... .......+....  .+++|+|||+.....
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~--~~dlLilDDlG~~~~  122 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLK--RVDLLILDDLGYEPL  122 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH--TSSCEEEETCTSS--
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccc--cccEecccccceeee
Confidence            456789999999999999999999876   88999999999887654221 111223344433  367999999986543

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.08  E-value=2.3e-10  Score=100.21  Aligned_cols=100  Identities=27%  Similarity=0.393  Sum_probs=72.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS  158 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~  158 (197)
                      ..++++++|.+..++++.+.+...           +....+|+|+|++||||+++|++|+...   +.+|+.++|..+..
T Consensus       192 ~~~~~~liG~s~~~~~~~~~~~~~-----------a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~  260 (534)
T TIGR01817       192 SGKEDGIIGKSPAMRQVVDQARVV-----------ARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSE  260 (534)
T ss_pred             cCccCceEECCHHHHHHHHHHHHH-----------hCcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCH
Confidence            367889999999999999988764           3456789999999999999999999886   56999999987632


Q ss_pred             h-----ccCccHHH-------HHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 K-----LAGESESN-------LRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ~-----~~~~~~~~-------~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .     ++|.....       ..+.++.+   ...+||||||+.|++.-
T Consensus       261 ~~~~~~lfg~~~~~~~~~~~~~~g~~~~a---~~GtL~ldei~~L~~~~  306 (534)
T TIGR01817       261 TLLESELFGHEKGAFTGAIAQRKGRFELA---DGGTLFLDEIGEISPAF  306 (534)
T ss_pred             HHHHHHHcCCCCCccCCCCcCCCCccccc---CCCeEEEechhhCCHHH
Confidence            2     11211100       01112222   24589999999998753

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.08  E-value=4.9e-10  Score=97.95  Aligned_cols=58  Identities=21%  Similarity=0.232  Sum_probs=48.8

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .....+.+|++++|++.+++.+.+++...            ..++.+||+||+|+|||++|+++|+.+.+
T Consensus         7 ~~KyRP~~F~dIIGQe~iv~~L~~aI~~~------------rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C   64 (605)
T PRK05896          7 YRKYRPHNFKQIIGQELIKKILVNAILNN------------KLTHAYIFSGPRGIGKTSIAKIFAKAINC   64 (605)
T ss_pred             HHHhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            44567889999999999999999887542            34567999999999999999999998853

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.08  E-value=4.9e-10  Score=89.63  Aligned_cols=38  Identities=42%  Similarity=0.540  Sum_probs=33.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      ..+.+++|.||||||||++|+++|+.++.+++.++|..
T Consensus        19 ~~g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~   56 (262)
T TIGR02640        19 KSGYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDA   56 (262)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCc
Confidence            34568999999999999999999999999999998753

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).

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.07  E-value=9.4e-10  Score=98.86  Aligned_cols=110  Identities=24%  Similarity=0.301  Sum_probs=74.8

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCe
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAF  147 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~  147 (197)
                      .+.+.+..+.|.+.++++++|..++...+..        ..++..++|+|+||||||++++.+..++          ...
T Consensus       747 vL~~DYVPD~LPhREeEIeeLasfL~paIkg--------sgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~  818 (1164)
T PTZ00112        747 MMQLDVVPKYLPCREKEIKEVHGFLESGIKQ--------SGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFN  818 (1164)
T ss_pred             HcCcccCCCcCCChHHHHHHHHHHHHHHHhc--------CCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCce
Confidence            3456667788999999999999998765432        1223335799999999999999997765          256


Q ss_pred             EEEEechhhhhh----------cc------C-ccHHHHHHHHHHHh--cCCCeEEEEcccCccCccc
Q psy6208         148 FFLINGPEIMSK----------LA------G-ESESNLRKAFEEAD--KNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       148 ~~~v~~~~~~~~----------~~------~-~~~~~~~~~~~~a~--~~~~~vl~lDeid~l~~~r  195 (197)
                      +++++|..+...          +.      + .....+..+|....  .....||+|||||.|..+.
T Consensus       819 vVYINCm~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~  885 (1164)
T PTZ00112        819 VFEINGMNVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKT  885 (1164)
T ss_pred             EEEEeCCccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccH
Confidence            789999543211          10      1 11233445555432  2335799999999998753

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.07  E-value=3.2e-10  Score=93.46  Aligned_cols=94  Identities=26%  Similarity=0.334  Sum_probs=66.4

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc----
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL----  160 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~----  160 (197)
                      ++|.+..++++.+.+...           +....+|||+|++||||+++|++|+...   +.+|+.++|..+....    
T Consensus         1 liG~S~~m~~~~~~~~~~-----------a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~   69 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRL-----------APLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSE   69 (329)
T ss_pred             CCcCCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHH
Confidence            467788888888877654           3556789999999999999999999876   4699999998663221    


Q ss_pred             -cCccHH-------HHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 -AGESES-------NLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 -~~~~~~-------~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                       +|....       ...+.|+.+.   ..+||||||+.|+..-
T Consensus        70 lfG~~~g~~~ga~~~~~G~~~~a~---gGtL~Ldei~~L~~~~  109 (329)
T TIGR02974        70 LFGHEAGAFTGAQKRHQGRFERAD---GGTLFLDELATASLLV  109 (329)
T ss_pred             HhccccccccCcccccCCchhhCC---CCEEEeCChHhCCHHH
Confidence             121110       1112344443   4589999999998753

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.07  E-value=4.6e-10  Score=101.94  Aligned_cols=57  Identities=19%  Similarity=0.299  Sum_probs=48.7

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .++.+.+|++|+|++.+++.|.+++..-            ..++.+||+||+|+|||++|+.|++.+++
T Consensus         7 ~KyRP~~f~eiiGqe~v~~~L~~~i~~~------------ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C   63 (824)
T PRK07764          7 RRYRPATFAEVIGQEHVTEPLSTALDSG------------RINHAYLFSGPRGCGKTSSARILARSLNC   63 (824)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHhC------------CCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence            4567889999999999999999988642            33456899999999999999999999865

>PRK06526 transposase; Provisional

Probab=99.07  E-value=1.5e-10  Score=92.08  Aligned_cols=75  Identities=21%  Similarity=0.413  Sum_probs=52.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCcc-HHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGES-ESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~-~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ....+++|+||||||||||+.+++.+.   |.++.++++.++...+.... .......+...  ..+++|+|||++.+..
T Consensus        96 ~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l--~~~dlLIIDD~g~~~~  173 (254)
T PRK06526         96 TGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKL--GRYPLLIVDEVGYIPF  173 (254)
T ss_pred             hcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHh--ccCCEEEEcccccCCC
Confidence            345689999999999999999998875   77888888887766542111 11122223322  3478999999998765


Q ss_pred             c
Q psy6208         194 K  194 (197)
Q Consensus       194 ~  194 (197)
                      .
T Consensus       174 ~  174 (254)
T PRK06526        174 E  174 (254)
T ss_pred             C
Confidence            4

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

Probab=99.07  E-value=1.7e-10  Score=102.80  Aligned_cols=102  Identities=24%  Similarity=0.362  Sum_probs=72.2

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEechhhhhh---
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGPEIMSK---  159 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~~~~~~---  159 (197)
                      ..++|++.++..+.+.+...-..-.   . .-+|...+||.||+|+|||.||+++|..+.   ..++.++.++++.+   
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~---d-p~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsV  566 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLG---D-PNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSV  566 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCC---C-CCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHH
Confidence            3589999999999999875311100   0 013334578999999999999999999994   78999999998643   


Q ss_pred             ---------ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         160 ---------LAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       160 ---------~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                               |+|..+.  ..+.+..++...+||+||||+.-.|
T Consensus       567 SrLIGaPPGYVGyeeG--G~LTEaVRr~PySViLlDEIEKAHp  607 (786)
T COG0542         567 SRLIGAPPGYVGYEEG--GQLTEAVRRKPYSVILLDEIEKAHP  607 (786)
T ss_pred             HHHhCCCCCCceeccc--cchhHhhhcCCCeEEEechhhhcCH
Confidence                     3333332  1233444555578999999997655

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.07  E-value=2.7e-10  Score=93.87  Aligned_cols=97  Identities=26%  Similarity=0.341  Sum_probs=70.6

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh--
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK--  159 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~--  159 (197)
                      +++++|.+..++++.+.+...           +....+|+|+|++||||+++|++++...   +.+|+.++|..+...  
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~-----------a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~   73 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRL-----------APLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLL   73 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHH
Confidence            567999999999999988765           3556789999999999999999999876   468999999876322  


Q ss_pred             ---ccCccHH-------HHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 ---LAGESES-------NLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ---~~~~~~~-------~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                         ++|....       ...+.++.+.   ..+|||||++.|+..-
T Consensus        74 ~~~lfg~~~~~~~g~~~~~~g~l~~a~---gGtL~l~~i~~L~~~~  116 (326)
T PRK11608         74 DSELFGHEAGAFTGAQKRHPGRFERAD---GGTLFLDELATAPMLV  116 (326)
T ss_pred             HHHHccccccccCCcccccCCchhccC---CCeEEeCChhhCCHHH
Confidence               2221110       0112344433   3589999999998753

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.06  E-value=5.8e-10  Score=102.02  Aligned_cols=103  Identities=26%  Similarity=0.320  Sum_probs=69.8

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh---
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK---  159 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~---  159 (197)
                      ..++|++.+++.+.+.+......-.   . .-++...++|+||+|+|||++|+++|..+   ...++.++++++...   
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~---~-~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~  641 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLE---D-PRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTV  641 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCC---C-CCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhh
Confidence            4589999999999998875311100   0 01222348999999999999999999988   457888998876432   


Q ss_pred             ---------ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 ---------LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ---------~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                               |+|..+..  .+.+..++...+||+||||+.+.+.
T Consensus       642 ~~l~g~~~gyvg~~~~g--~L~~~v~~~p~svvllDEieka~~~  683 (852)
T TIGR03345       642 SRLKGSPPGYVGYGEGG--VLTEAVRRKPYSVVLLDEVEKAHPD  683 (852)
T ss_pred             ccccCCCCCcccccccc--hHHHHHHhCCCcEEEEechhhcCHH
Confidence                     22222211  1233444566799999999987653

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.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.06  E-value=1e-09  Score=96.72  Aligned_cols=98  Identities=20%  Similarity=0.345  Sum_probs=69.1

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------  147 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------  147 (197)
                      ..+.+.+|++|+|++.+++.|.+.+..-            ..++.+||+||+|+|||++|+++++.+++.          
T Consensus         8 ~k~RP~~f~~iiGq~~v~~~L~~~i~~~------------~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~   75 (576)
T PRK14965          8 RKYRPQTFSDLTGQEHVSRTLQNAIDTG------------RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNV   75 (576)
T ss_pred             HHhCCCCHHHccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCc
Confidence            3466789999999999999999988642            345568999999999999999999998542          


Q ss_pred             --------------EEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         148 --------------FFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 --------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                                    ++.+++..      ...-..++.+.+.+..    ....|+||||+|.|..
T Consensus        76 c~~c~~i~~g~~~d~~eid~~s------~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~  133 (576)
T PRK14965         76 CPPCVEITEGRSVDVFEIDGAS------NTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLST  133 (576)
T ss_pred             cHHHHHHhcCCCCCeeeeeccC------ccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCH
Confidence                          12222111      1122345555554432    3356999999999875

>PRK08116 hypothetical protein; Validated

Probab=99.06  E-value=1e-09  Score=87.97  Aligned_cols=70  Identities=27%  Similarity=0.536  Sum_probs=49.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCc----cHHHHHHHHHHHhcCCCeEEEEcccCcc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGE----SESNLRKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~----~~~~~~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                      +.+++|+|++|+||||||.++++++   +.++++++.+++...+...    .......+++...  ..++|+|||++..
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~--~~dlLviDDlg~e  190 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLV--NADLLILDDLGAE  190 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhc--CCCEEEEecccCC
Confidence            4579999999999999999999986   7889999988876654211    1112223333332  3579999999653

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.06  E-value=1.2e-09  Score=95.82  Aligned_cols=104  Identities=18%  Similarity=0.259  Sum_probs=70.1

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE-------EE
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF-------FL  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~-------~~  150 (197)
                      ..+.+.+|++++|++...+.+++.+...            ..++.+||+||+|+|||++|+.+++.+++.-       -.
T Consensus         8 ~k~rP~~f~~viGq~~v~~~L~~~i~~~------------~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~   75 (559)
T PRK05563          8 RKWRPQTFEDVVGQEHITKTLKNAIKQG------------KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNE   75 (559)
T ss_pred             HHhCCCcHHhccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            3456789999999999999999998752            3456689999999999999999999875421       00


Q ss_pred             E-echhhhhh----------ccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         151 I-NGPEIMSK----------LAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 v-~~~~~~~~----------~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                      . +|..+...          ..+..-..++.+.+.+.    .+...|+||||+|.|..
T Consensus        76 C~~C~~i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~  133 (559)
T PRK05563         76 CEICKAITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLST  133 (559)
T ss_pred             cHHHHHHhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH
Confidence            0 11111110          00122344566655543    23457999999999864

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.06  E-value=8.4e-11  Score=98.08  Aligned_cols=101  Identities=26%  Similarity=0.427  Sum_probs=76.8

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEI  156 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~  156 (197)
                      ....+++++|.+...+++.+.+...           .....++||.|++||||+.+|++|+...    +.||+.+||..+
T Consensus        73 ~~~~~~~LIG~~~~~~~~~eqik~~-----------ap~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~  141 (403)
T COG1221          73 KSEALDDLIGESPSLQELREQIKAY-----------APSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAY  141 (403)
T ss_pred             cchhhhhhhccCHHHHHHHHHHHhh-----------CCCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHh
Confidence            3556788999999999998888763           3567789999999999999999998554    568999999887


Q ss_pred             hhhc-----cCc-------cHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         157 MSKL-----AGE-------SESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       157 ~~~~-----~~~-------~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ....     +|.       ......++|+.|..+   +||+|||+.|++.-
T Consensus       142 ~en~~~~eLFG~~kGaftGa~~~k~Glfe~A~GG---tLfLDEI~~LP~~~  189 (403)
T COG1221         142 SENLQEAELFGHEKGAFTGAQGGKAGLFEQANGG---TLFLDEIHRLPPEG  189 (403)
T ss_pred             CcCHHHHHHhccccceeecccCCcCchheecCCC---EEehhhhhhCCHhH
Confidence            5432     221       122334566666655   79999999998864

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.05  E-value=1.8e-09  Score=89.70  Aligned_cols=98  Identities=20%  Similarity=0.355  Sum_probs=68.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------  147 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------  147 (197)
                      +...+.+|++++|++..++.+.+.+...            ..++.+||+||||+|||++++++++.+.+.          
T Consensus         6 ~~~rp~~~~~iig~~~~~~~l~~~~~~~------------~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~   73 (355)
T TIGR02397         6 RKYRPQTFEDVIGQEHIVQTLKNAIKNG------------RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNE   73 (355)
T ss_pred             HHhCCCcHhhccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCC
Confidence            4456789999999999999999888642            345578999999999999999999887432          


Q ss_pred             --------------EEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         148 --------------FFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 --------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                                    ++.++...      ......++.+++.+..    +...+++|||+|.+..
T Consensus        74 c~~c~~~~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~  131 (355)
T TIGR02397        74 CESCKEINSGSSLDVIEIDAAS------NNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSK  131 (355)
T ss_pred             CHHHHHHhcCCCCCEEEeeccc------cCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCH
Confidence                          12222110      1122345556655433    2346999999998854

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.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.05  E-value=9.1e-10  Score=90.02  Aligned_cols=99  Identities=31%  Similarity=0.390  Sum_probs=66.3

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC-----CeEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG-----AFFFL  150 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~-----~~~~~  150 (197)
                      +.+...+.+|+++.|++.+++.+..++..             ...++++|+||+|+|||++++++++++.     ..++.
T Consensus         7 w~~kyrP~~~~~~~g~~~~~~~l~~~i~~-------------~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~   73 (319)
T PRK00440          7 WVEKYRPRTLDEIVGQEEIVERLKSYVKE-------------KNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLE   73 (319)
T ss_pred             cchhhCCCcHHHhcCcHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEE
Confidence            34556678999999999999999988864             2234689999999999999999999872     23444


Q ss_pred             EechhhhhhccCccHHHHHHHHHH-Hh-----cCCCeEEEEcccCccCc
Q psy6208         151 INGPEIMSKLAGESESNLRKAFEE-AD-----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 v~~~~~~~~~~~~~~~~~~~~~~~-a~-----~~~~~vl~lDeid~l~~  193 (197)
                      +++++..      ....+...+.. +.     ...+.+|+|||+|.+..
T Consensus        74 ~~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~  116 (319)
T PRK00440         74 LNASDER------GIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTS  116 (319)
T ss_pred             ecccccc------chHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCH
Confidence            4433211      11111111111 11     12356999999999865

>PHA02244 ATPase-like protein

Probab=99.04  E-value=1.2e-09  Score=90.24  Aligned_cols=76  Identities=30%  Similarity=0.438  Sum_probs=49.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCc--cHHHHH-HHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE--SESNLR-KAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~--~~~~~~-~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ..+.+++|+||||||||++|+++|..++.+++.++...-.....+.  ....+. .-+-.+.+ ...+|+|||++.+.++
T Consensus       117 ~~~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~~-~GgvLiLDEId~a~p~  195 (383)
T PHA02244        117 NANIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAFK-KGGLFFIDEIDASIPE  195 (383)
T ss_pred             hcCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHhh-cCCEEEEeCcCcCCHH
Confidence            4466899999999999999999999999999998742111111110  000111 12222222 3579999999987654

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=1.5e-09  Score=95.85  Aligned_cols=57  Identities=21%  Similarity=0.316  Sum_probs=48.9

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ....+.+|++|+|++.+++.+++.+..-            .-+..+||+||+|+|||++|+.+|+.+.+
T Consensus         8 ~kyRP~~f~eivGQe~i~~~L~~~i~~~------------ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c   64 (620)
T PRK14954          8 RKYRPSKFADITAQEHITHTIQNSLRMD------------RVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (620)
T ss_pred             HHHCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3466789999999999999999987642            34567999999999999999999999866

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

Probab=99.04  E-value=2.2e-09  Score=89.51  Aligned_cols=107  Identities=26%  Similarity=0.449  Sum_probs=75.5

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe-----EEEEech
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGP  154 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~-----~~~v~~~  154 (197)
                      .+.+..+.+.+.+.+++++...+...+..         ..+.+++++|+||||||..++.++.++...     ++++||.
T Consensus        11 ~~~~iP~~l~~Re~ei~~l~~~l~~~~~~---------~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~   81 (366)
T COG1474          11 LEDYIPEELPHREEEINQLASFLAPALRG---------ERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCL   81 (366)
T ss_pred             CCCCCcccccccHHHHHHHHHHHHHHhcC---------CCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeee
Confidence            34555667999999999999998766543         445679999999999999999999988333     8999996


Q ss_pred             hhhhhc---------------cCccHH-HHHHHHHHHh-cCCCeEEEEcccCccCccc
Q psy6208         155 EIMSKL---------------AGESES-NLRKAFEEAD-KNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       155 ~~~~~~---------------~~~~~~-~~~~~~~~a~-~~~~~vl~lDeid~l~~~r  195 (197)
                      ...+.+               .|.... ....+++... ....-||+|||+|.|..+.
T Consensus        82 ~~~t~~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~  139 (366)
T COG1474          82 ELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKD  139 (366)
T ss_pred             eCCCHHHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhcccc
Confidence            654321               122222 2223333322 2456799999999998764

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.04  E-value=3.3e-10  Score=101.90  Aligned_cols=98  Identities=28%  Similarity=0.418  Sum_probs=72.5

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK  159 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~  159 (197)
                      ..|++++|.+..++.+.+.+...           .....+|+|+|++|||||++|++|+...   +.+++.++|..+...
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~-----------a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~  441 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMV-----------AQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAG  441 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChh
Confidence            57789999999999998888754           3456689999999999999999999876   569999999876432


Q ss_pred             -----ccCccH-------HHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 -----LAGESE-------SNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 -----~~~~~~-------~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                           ++|...       ......++.+.   ..+||||||+.|+..
T Consensus       442 ~~~~~lfg~~~~~~~g~~~~~~g~le~a~---~GtL~Ldei~~L~~~  485 (686)
T PRK15429        442 LLESDLFGHERGAFTGASAQRIGRFELAD---KSSLFLDEVGDMPLE  485 (686)
T ss_pred             HhhhhhcCcccccccccccchhhHHHhcC---CCeEEEechhhCCHH
Confidence                 222111       11123344443   458999999999875

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.02  E-value=1.5e-09  Score=96.19  Aligned_cols=104  Identities=21%  Similarity=0.243  Sum_probs=70.9

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE----E--
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFL----I--  151 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~----v--  151 (197)
                      ....+.+|++++|++.+++.|.+++...            .....+||+||+|+|||++|+++|+.+++....    -  
T Consensus         8 ~kyRP~~f~~liGq~~i~~~L~~~l~~~------------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~C   75 (620)
T PRK14948          8 HKYRPQRFDELVGQEAIATTLKNALISN------------RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPC   75 (620)
T ss_pred             HHhCCCcHhhccChHHHHHHHHHHHHcC------------CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCC
Confidence            4456789999999999999999988642            234579999999999999999999998652110    0  


Q ss_pred             -ec---hhhh----------hhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         152 -NG---PEIM----------SKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       152 -~~---~~~~----------~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                       .|   ..+.          .......-..++++.+.+..    +...|+||||+|.|..
T Consensus        76 g~C~~C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~  135 (620)
T PRK14948         76 GKCELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLST  135 (620)
T ss_pred             cccHHHHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCH
Confidence             01   1110          00011233466666665542    3457999999999864

>PRK06620 hypothetical protein; Validated

Probab=99.01  E-value=1.2e-09  Score=84.85  Aligned_cols=84  Identities=21%  Similarity=0.294  Sum_probs=50.7

Q ss_pred             cCCCCccccc-Cc--HHHHHHHHHHHHhcccChhhHhhhCCCC-CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208          80 SNAVGYDDIG-GC--RKQLAQIKEMVELPLRHPSLFKAIGVKP-PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus        80 ~~~~~~~~i~-g~--~~~~~~l~~~v~~~~~~~~~~~~~~~~~-~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      ++.++|++++ |.  ..+...++++...+          +..+ ...++||||+|+|||||++++++..+..+  +....
T Consensus        10 ~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~----------~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~--~~~~~   77 (214)
T PRK06620         10 SSKYHPDEFIVSSSNDQAYNIIKNWQCGF----------GVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYI--IKDIF   77 (214)
T ss_pred             CCCCCchhhEecccHHHHHHHHHHHHHcc----------ccCCCcceEEEECCCCCCHHHHHHHHHhccCCEE--cchhh
Confidence            4578899853 33  23444444443311          1122 25799999999999999999998876533  22111


Q ss_pred             hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCcc
Q psy6208         156 IMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                      .       ..    . +   .+ ..++|+|||||.+
T Consensus        78 ~-------~~----~-~---~~-~~d~lliDdi~~~   97 (214)
T PRK06620         78 F-------NE----E-I---LE-KYNAFIIEDIENW   97 (214)
T ss_pred             h-------ch----h-H---Hh-cCCEEEEeccccc
Confidence            1       00    1 1   11 3478999999965

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.01  E-value=1.3e-09  Score=95.52  Aligned_cols=104  Identities=22%  Similarity=0.279  Sum_probs=69.0

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe-------EEE
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-------FFL  150 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~-------~~~  150 (197)
                      ....+.+|++++|++.+++.+..++..-            ..++.+||+||+|+|||++|+++|+.+++.       +-.
T Consensus         8 ~kyRP~~f~diiGqe~iv~~L~~~i~~~------------~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~   75 (563)
T PRK06647          8 TKRRPRDFNSLEGQDFVVETLKHSIESN------------KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGE   75 (563)
T ss_pred             HHhCCCCHHHccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCcc
Confidence            3456789999999999999999998642            345569999999999999999999998642       111


Q ss_pred             E-echhhhhh-------ccCc---cHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         151 I-NGPEIMSK-------LAGE---SESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 v-~~~~~~~~-------~~~~---~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                      + +|..+...       +-+.   .-..++.+.+.+.    .+...|+||||+|.|..
T Consensus        76 C~~C~~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~  133 (563)
T PRK06647         76 CSSCKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSN  133 (563)
T ss_pred             chHHHHHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCH
Confidence            0 11111110       0111   1234444443322    24567999999999864

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.01  E-value=1.4e-09  Score=91.26  Aligned_cols=89  Identities=27%  Similarity=0.369  Sum_probs=66.9

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhC-CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-hccC-c
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-KLAG-E  163 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~-~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-~~~~-~  163 (197)
                      -|+|++++++.+..++............+. -..+++++|+||||+|||++++++|..++.+++.+++..+.. .|.| .
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~d   92 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   92 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCC
Confidence            489999999999887764322211111111 124578999999999999999999999999999999987764 6777 4


Q ss_pred             cHHHHHHHHHHH
Q psy6208         164 SESNLRKAFEEA  175 (197)
Q Consensus       164 ~~~~~~~~~~~a  175 (197)
                      .+..++.+|+.+
T Consensus        93 vE~i~r~l~e~A  104 (441)
T TIGR00390        93 VESMVRDLTDAA  104 (441)
T ss_pred             HHHHHHHHHHHH
Confidence            667778887776

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

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.01  E-value=2.3e-10  Score=99.53  Aligned_cols=98  Identities=24%  Similarity=0.394  Sum_probs=72.9

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh-
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-  159 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~-  159 (197)
                      .+++++|.+..++++.+.+...           ...+.+|+|+|++||||+++|++++...   +.+++.++|..+... 
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~-----------a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~  253 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVV-----------AASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESL  253 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHH
Confidence            6778999999999999988764           3567789999999999999999999886   569999999877432 


Q ss_pred             ----ccCccHH-------HHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 ----LAGESES-------NLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ----~~~~~~~-------~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                          ++|....       .....|+.+.   ..+|||||||.|++.-
T Consensus       254 ~e~~lfG~~~g~~~ga~~~~~g~~~~a~---gGtL~ldeI~~L~~~~  297 (509)
T PRK05022        254 AESELFGHVKGAFTGAISNRSGKFELAD---GGTLFLDEIGELPLAL  297 (509)
T ss_pred             HHHHhcCccccccCCCcccCCcchhhcC---CCEEEecChhhCCHHH
Confidence                2221111       0112344443   3579999999998753

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

Probab=99.01  E-value=5.2e-10  Score=83.91  Aligned_cols=73  Identities=29%  Similarity=0.413  Sum_probs=48.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCC----eEEEEechhhhhhccCccHHHHHHHHHHH----hcCCCeEEEEcccCc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGA----FFFLINGPEIMSKLAGESESNLRKAFEEA----DKNSPSIIFIDELDA  190 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~----~~~~v~~~~~~~~~~~~~~~~~~~~~~~a----~~~~~~vl~lDeid~  190 (197)
                      +..+++|.||+|+|||.+|++++..+..    +++.++++++....-  ....+..+...+    ......||+|||||.
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~--~~~~~~~l~~~~~~~v~~~~~gVVllDEidK   79 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDD--VESSVSKLLGSPPGYVGAEEGGVVLLDEIDK   79 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHH--CSCHCHHHHHHTTCHHHHHHHTEEEEETGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccch--HHhhhhhhhhcccceeeccchhhhhhHHHhh
Confidence            3457999999999999999999999985    999999988865110  000111111110    001123999999999


Q ss_pred             cCc
Q psy6208         191 IAP  193 (197)
Q Consensus       191 l~~  193 (197)
                      ..+
T Consensus        80 a~~   82 (171)
T PF07724_consen   80 AHP   82 (171)
T ss_dssp             CSH
T ss_pred             ccc
Confidence            887

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

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.00  E-value=6.3e-10  Score=99.36  Aligned_cols=100  Identities=22%  Similarity=0.382  Sum_probs=72.9

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS  158 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~  158 (197)
                      ..+|+++.|.+..++++.+.+...           +....+|+|+|++||||+++|+++++..   +.+|+.++|..+..
T Consensus       321 ~~~~~~l~g~s~~~~~~~~~~~~~-----------a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~  389 (638)
T PRK11388        321 SHTFDHMPQDSPQMRRLIHFGRQA-----------AKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPD  389 (638)
T ss_pred             cccccceEECCHHHHHHHHHHHHH-----------hCcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCCh
Confidence            567999999999999988887754           3456679999999999999999999876   46999999987632


Q ss_pred             -----hccCcc----HHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 -----KLAGES----ESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 -----~~~~~~----~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                           +++|..    .......|+.+   ...+||||||+.|+..-
T Consensus       390 ~~~~~elfg~~~~~~~~~~~g~~~~a---~~GtL~ldei~~l~~~~  432 (638)
T PRK11388        390 EALAEEFLGSDRTDSENGRLSKFELA---HGGTLFLEKVEYLSPEL  432 (638)
T ss_pred             HHHHHHhcCCCCcCccCCCCCceeEC---CCCEEEEcChhhCCHHH
Confidence                 223321    00111123333   34589999999998753

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.00  E-value=1.7e-09  Score=92.62  Aligned_cols=57  Identities=25%  Similarity=0.359  Sum_probs=48.0

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +...+.+|++++|++..++.+.+.+..-            ..+..+||+||+|+|||++|+++|+.+.+
T Consensus         9 ~kyRP~~~~diiGq~~~v~~L~~~i~~~------------~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c   65 (451)
T PRK06305          9 RKYRPQTFSEILGQDAVVAVLKNALRFN------------RAAHAYLFSGIRGTGKTTLARIFAKALNC   65 (451)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            3456789999999999999999988642            33567999999999999999999998744

>PRK06921 hypothetical protein; Provisional

Probab=98.99  E-value=2.1e-09  Score=86.07  Aligned_cols=69  Identities=29%  Similarity=0.391  Sum_probs=48.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                      ...+++|+|++|+|||||+.++++++    +..+++++..++...+.... ......++..  ...++|+|||++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~-~~~~~~~~~~--~~~dlLiIDDl~~  188 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDF-DLLEAKLNRM--KKVEVLFIDDLFK  188 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHH-HHHHHHHHHh--cCCCEEEEecccc
Confidence            35689999999999999999999876    56788888877655432111 1112222222  3478999999944

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.99  E-value=1.5e-09  Score=96.78  Aligned_cols=105  Identities=23%  Similarity=0.334  Sum_probs=71.2

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE---Eec
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFL---ING  153 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~---v~~  153 (197)
                      .....+.+|++++|++.+++.+.+.+..-            ..++.+||+||+|+|||++|+++|+.+.+.-..   -.|
T Consensus         9 ~~KyRP~~f~dIiGQe~~v~~L~~aI~~~------------rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC   76 (725)
T PRK07133          9 YRKYRPKTFDDIVGQDHIVQTLKNIIKSN------------KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPC   76 (725)
T ss_pred             HHHhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCch
Confidence            34567889999999999999999998742            345568999999999999999999988653110   011


Q ss_pred             hhh---hhh------ccC---ccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         154 PEI---MSK------LAG---ESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       154 ~~~---~~~------~~~---~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                      ..-   ...      .-+   .....++.+.+.+..    +...|++|||+|.|..
T Consensus        77 ~~C~~~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~  132 (725)
T PRK07133         77 QECIENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSK  132 (725)
T ss_pred             hHHHHhhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCH
Confidence            100   000      001   123446666655542    4457999999999864

>PRK09183 transposase/IS protein; Provisional

Probab=98.99  E-value=7.9e-10  Score=88.27  Aligned_cols=77  Identities=22%  Similarity=0.433  Sum_probs=53.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCc-cHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGE-SESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~-~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ....+++|+||||+|||||+.+++...   |..+.++++.++...+... ....+...+.... ..+++++|||++.+..
T Consensus       100 ~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~-~~~dlLiiDdlg~~~~  178 (259)
T PRK09183        100 ERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRGV-MAPRLLIIDEIGYLPF  178 (259)
T ss_pred             hcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHh-cCCCEEEEcccccCCC
Confidence            446689999999999999999997664   7788888888776544211 1112333444432 3578999999998765


Q ss_pred             cc
Q psy6208         194 KR  195 (197)
Q Consensus       194 ~r  195 (197)
                      .+
T Consensus       179 ~~  180 (259)
T PRK09183        179 SQ  180 (259)
T ss_pred             Ch
Confidence            43

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.99  E-value=4.1e-09  Score=91.01  Aligned_cols=57  Identities=26%  Similarity=0.377  Sum_probs=47.8

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ....+.+|++++|++..++.+.+.+..-            ..++.+||+||+|+|||++|+.+|..+++
T Consensus         8 ~kyRP~~f~diiGq~~i~~~L~~~i~~~------------~i~hayLf~Gp~G~GKTtlAr~lAk~L~c   64 (486)
T PRK14953          8 RKYRPKFFKEVIGQEIVVRILKNAVKLQ------------RVSHAYIFAGPRGTGKTTIARILAKVLNC   64 (486)
T ss_pred             HhhCCCcHHHccChHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            4456789999999999999999988642            33456889999999999999999998864

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.98  E-value=1.9e-09  Score=95.02  Aligned_cols=105  Identities=19%  Similarity=0.206  Sum_probs=71.8

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE-----
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLI-----  151 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v-----  151 (197)
                      .....+.+|++++|++..++.|.+++..-            ..+..+||+||+|+|||++|+++|+.+++.....     
T Consensus        15 a~KyRP~~f~dliGq~~~v~~L~~~~~~g------------ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~   82 (598)
T PRK09111         15 ARKYRPQTFDDLIGQEAMVRTLTNAFETG------------RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPT   82 (598)
T ss_pred             HhhhCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCc
Confidence            34466789999999999999999988642            4466799999999999999999999986532111     


Q ss_pred             --------echhhhhhc-------c---CccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         152 --------NGPEIMSKL-------A---GESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       152 --------~~~~~~~~~-------~---~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                              +|..+....       .   ...-..++.+.+.+..    ....|+||||+|.|..
T Consensus        83 ~~~cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~  146 (598)
T PRK09111         83 IDLCGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLST  146 (598)
T ss_pred             cccCcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCH
Confidence                    111111100       0   0123455666555432    3457999999999874

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.98  E-value=3.5e-09  Score=93.63  Aligned_cols=57  Identities=19%  Similarity=0.350  Sum_probs=48.0

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +...+.+|++++|++..++.|..++...            ..+..+||+||+|+|||++++++++.+++
T Consensus         8 ~kyRP~~~~eiiGq~~~~~~L~~~i~~~------------~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c   64 (585)
T PRK14950          8 RKWRSQTFAELVGQEHVVQTLRNAIAEG------------RVAHAYLFTGPRGVGKTSTARILAKAVNC   64 (585)
T ss_pred             HHhCCCCHHHhcCCHHHHHHHHHHHHhC------------CCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            4567889999999999999998887642            23456899999999999999999998854

>KOG0745|consensus

Probab=98.98  E-value=1.1e-09  Score=91.10  Aligned_cols=75  Identities=36%  Similarity=0.610  Sum_probs=59.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-hccCcc-HHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-KLAGES-ESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-~~~~~~-~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                      ..+|||.||+|+|||.||+.+|..++.||...+|..+.. .|+|+. +.-+..++..|.    +.+..|+||||+|.+..
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            357999999999999999999999999999999998864 466653 445566665542    23456999999999974


Q ss_pred             c
Q psy6208         194 K  194 (197)
Q Consensus       194 ~  194 (197)
                      +
T Consensus       306 ~  306 (564)
T KOG0745|consen  306 K  306 (564)
T ss_pred             c
Confidence            3

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

Probab=98.98  E-value=1.1e-09  Score=91.80  Aligned_cols=90  Identities=28%  Similarity=0.339  Sum_probs=67.2

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhC-CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-hccC-c
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-KLAG-E  163 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~-~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-~~~~-~  163 (197)
                      .|+|++.+++.+..++............+. -..+.++||+||||+|||++|+++|..++.+++.+++.++.. .|.| .
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d   95 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   95 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCC
Confidence            489999999999888764322111111110 012578999999999999999999999999999999988875 5777 4


Q ss_pred             cHHHHHHHHHHHh
Q psy6208         164 SESNLRKAFEEAD  176 (197)
Q Consensus       164 ~~~~~~~~~~~a~  176 (197)
                      .+..++.+|+.|.
T Consensus        96 ~e~~ir~L~~~A~  108 (443)
T PRK05201         96 VESIIRDLVEIAV  108 (443)
T ss_pred             HHHHHHHHHHHHH
Confidence            5677778877773

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

Probab=98.97  E-value=3.1e-10  Score=86.79  Aligned_cols=45  Identities=33%  Similarity=0.533  Sum_probs=36.5

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      |++|.|++.+++.+.-+...               ..++||.||||||||++|+++...+
T Consensus         2 f~dI~GQe~aKrAL~iAAaG---------------~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAAG---------------GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHHC---------------C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhhcCcHHHHHHHHHHHcC---------------CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            78999999999998776642               4689999999999999999998765

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

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.97  E-value=3.5e-09  Score=93.98  Aligned_cols=64  Identities=31%  Similarity=0.542  Sum_probs=51.3

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEE
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFF  149 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~  149 (197)
                      ..+.+|++++|++..++.+.+.+..             ..+.+++|+||||||||++|+++++..          +.+++
T Consensus       148 ~rp~~~~~iiGqs~~~~~l~~~ia~-------------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv  214 (615)
T TIGR02903       148 LRPRAFSEIVGQERAIKALLAKVAS-------------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFV  214 (615)
T ss_pred             cCcCcHHhceeCcHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeE
Confidence            4467899999999999988766542             335579999999999999999998765          34688


Q ss_pred             EEechhh
Q psy6208         150 LINGPEI  156 (197)
Q Consensus       150 ~v~~~~~  156 (197)
                      .++|..+
T Consensus       215 ~i~~~~l  221 (615)
T TIGR02903       215 EVDGTTL  221 (615)
T ss_pred             EEechhc
Confidence            8988764

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.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.96  E-value=2.9e-10  Score=82.29  Aligned_cols=82  Identities=26%  Similarity=0.511  Sum_probs=58.0

Q ss_pred             cCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC---eEEEEechhhhhhccCccH
Q psy6208          89 GGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA---FFFLINGPEIMSKLAGESE  165 (197)
Q Consensus        89 ~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~---~~~~v~~~~~~~~~~~~~~  165 (197)
                      +|.+..++++++.+...           .....+|+|+|++||||+++|++++...+.   +++.++|..+.        
T Consensus         1 vG~S~~~~~l~~~l~~~-----------a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~--------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERL-----------AKSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP--------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHH-----------HCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC--------
T ss_pred             CCCCHHHHHHHHHHHHH-----------hCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc--------
Confidence            36677788888877654           245678999999999999999999988743   56666776542        


Q ss_pred             HHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         166 SNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       166 ~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                         .+.++.+   ...+|+|+|+|.|++..
T Consensus        62 ---~~~l~~a---~~gtL~l~~i~~L~~~~   85 (138)
T PF14532_consen   62 ---AELLEQA---KGGTLYLKNIDRLSPEA   85 (138)
T ss_dssp             ---HHHHHHC---TTSEEEEECGCCS-HHH
T ss_pred             ---HHHHHHc---CCCEEEECChHHCCHHH
Confidence               3344554   45589999999998754

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

Probab=98.94  E-value=7.6e-09  Score=92.47  Aligned_cols=101  Identities=24%  Similarity=0.413  Sum_probs=84.7

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLI  151 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v  151 (197)
                      .-.+|-++|.++.++++.+.+..             +..++-+|.|+||+|||.++..+|.+.          +..++.+
T Consensus       166 ~gklDPvIGRd~EI~r~iqIL~R-------------R~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sL  232 (786)
T COG0542         166 EGKLDPVIGRDEEIRRTIQILSR-------------RTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSL  232 (786)
T ss_pred             cCCCCCCcChHHHHHHHHHHHhc-------------cCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEe
Confidence            44567899999999999998875             345677889999999999999999875          5677888


Q ss_pred             echhhh--hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         152 NGPEIM--SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       152 ~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +...+.  .+|.|+.+..++.+.+......+.||||||+|.+.+..
T Consensus       233 D~g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG  278 (786)
T COG0542         233 DLGSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAG  278 (786)
T ss_pred             cHHHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCC
Confidence            877765  46789999999999999988778999999999997753

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.93  E-value=3.4e-09  Score=97.19  Aligned_cols=106  Identities=23%  Similarity=0.337  Sum_probs=67.9

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh--
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK--  159 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~--  159 (197)
                      ...++|++.++..+.+.+........   . .-.+...++|+||+|||||++|+++|..+   +.+++.++++++...  
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~---~-~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~  642 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLS---D-PNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHS  642 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhccc---C-CCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhh
Confidence            34689999999999998875311000   0 00122468999999999999999999887   457899998876432  


Q ss_pred             ---ccCccH----HHHHHHHH-HHhcCCCeEEEEcccCccCcc
Q psy6208         160 ---LAGESE----SNLRKAFE-EADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ---~~~~~~----~~~~~~~~-~a~~~~~~vl~lDeid~l~~~  194 (197)
                         ++|...    ..-...+. ..+....++|+|||++.+.+.
T Consensus       643 ~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~  685 (857)
T PRK10865        643 VSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPD  685 (857)
T ss_pred             HHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHH
Confidence               121110    00011222 233344589999999987654

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=98.92  E-value=9.1e-10  Score=89.86  Aligned_cols=75  Identities=23%  Similarity=0.201  Sum_probs=54.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh--ccCccHHH----------HHHHHHHHhcCCCeEEEEc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESN----------LRKAFEEADKNSPSIIFID  186 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~--~~~~~~~~----------~~~~~~~a~~~~~~vl~lD  186 (197)
                      ..++|+|.|+||||||++++++|..++.+++.+++......  +.|...-.          ..+.+..|.+ .+.++++|
T Consensus        63 ~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~-~g~illlD  141 (327)
T TIGR01650        63 YDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQ-HNVALCFD  141 (327)
T ss_pred             cCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHh-CCeEEEec
Confidence            35689999999999999999999999999999998766543  34432100          1122333433 36789999


Q ss_pred             ccCccCcc
Q psy6208         187 ELDAIAPK  194 (197)
Q Consensus       187 eid~l~~~  194 (197)
                      |++...++
T Consensus       142 Ein~a~p~  149 (327)
T TIGR01650       142 EYDAGRPD  149 (327)
T ss_pred             hhhccCHH
Confidence            99988764

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>KOG1969|consensus

Probab=98.92  E-value=3.2e-09  Score=93.19  Aligned_cols=111  Identities=21%  Similarity=0.299  Sum_probs=71.8

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhc--ccChhhHhhh-------------------CCCCCCceEEECCCCCcHHHHHH
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELP--LRHPSLFKAI-------------------GVKPPRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~--~~~~~~~~~~-------------------~~~~~~~ill~G~~GtGKT~la~  138 (197)
                      +.+-.|.|+.|.+.+=+.+..|+...  ..+...+.++                   +-++.+-+||+||||.|||+||+
T Consensus       265 y~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTLAH  344 (877)
T KOG1969|consen  265 YRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTLAH  344 (877)
T ss_pred             cChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhHHHH
Confidence            44556788999998888888887632  1111001111                   11223448999999999999999


Q ss_pred             HHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHH----hcCCCeEEEEcccCccC
Q psy6208         139 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA----DKNSPSIIFIDELDAIA  192 (197)
Q Consensus       139 ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a----~~~~~~vl~lDeid~l~  192 (197)
                      .+|++.|++++.+|+++-.+.-  .....+..+...-    ...+|.+|++||||--.
T Consensus       345 ViAkqaGYsVvEINASDeRt~~--~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~  400 (877)
T KOG1969|consen  345 VIAKQAGYSVVEINASDERTAP--MVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP  400 (877)
T ss_pred             HHHHhcCceEEEecccccccHH--HHHHHHHHHHhhccccccCCCcceEEEecccCCc
Confidence            9999999999999998653221  1122232222211    12569999999999644

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.91  E-value=4.2e-09  Score=96.44  Aligned_cols=103  Identities=22%  Similarity=0.330  Sum_probs=68.8

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh---
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK---  159 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~---  159 (197)
                      +.++|++.+++.+.+.+........   . .-.+...++|+||+|+|||++|+++|+.+   ..+++.++++++...   
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~---~-~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLK---N-PNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTV  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhccc---C-CCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccH
Confidence            4589999999999988864311100   0 01223458999999999999999999987   357888887766321   


Q ss_pred             --c-------cCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 --L-------AGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 --~-------~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                        +       +|..+  ...+.+..+....+||+|||+|.+.+.
T Consensus       585 ~~l~g~~~gyvg~~~--~~~l~~~~~~~p~~VvllDeieka~~~  626 (821)
T CHL00095        585 SKLIGSPPGYVGYNE--GGQLTEAVRKKPYTVVLFDEIEKAHPD  626 (821)
T ss_pred             HHhcCCCCcccCcCc--cchHHHHHHhCCCeEEEECChhhCCHH
Confidence              1       12111  112344445555689999999988764

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.89  E-value=5.3e-09  Score=90.78  Aligned_cols=56  Identities=20%  Similarity=0.201  Sum_probs=47.2

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ....+.+|++++|++..++.+...+..-            ..++.+||+||+|+|||++|+++++.+.
T Consensus         6 ~KyRP~~fdeiiGqe~v~~~L~~~I~~g------------rl~hayLf~Gp~G~GKTt~Ar~LAk~L~   61 (535)
T PRK08451          6 LKYRPKHFDELIGQESVSKTLSLALDNN------------RLAHAYLFSGLRGSGKTSSARIFARALV   61 (535)
T ss_pred             HHHCCCCHHHccCcHHHHHHHHHHHHcC------------CCCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            3466789999999999999999988642            3455679999999999999999999873

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.87  E-value=1.2e-08  Score=93.84  Aligned_cols=103  Identities=23%  Similarity=0.353  Sum_probs=69.5

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc--
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL--  160 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~--  160 (197)
                      ..+.|++.+++.+.+.+......-.   . .-.+...++|+||+|||||++|+++|..+   +.+++.++++++....  
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~---~-~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLS---D-PNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSV  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCC---C-CCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchH
Confidence            4589999999999998875311000   0 01234568999999999999999999987   4689999988764321  


Q ss_pred             ---c-------CccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         161 ---A-------GESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       161 ---~-------~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                         .       |..+.  ..+.+..+....+||+||||+.+.+.
T Consensus       641 ~~l~g~~~g~~g~~~~--g~l~~~v~~~p~~vlllDeieka~~~  682 (852)
T TIGR03346       641 ARLIGAPPGYVGYEEG--GQLTEAVRRKPYSVVLFDEVEKAHPD  682 (852)
T ss_pred             HHhcCCCCCccCcccc--cHHHHHHHcCCCcEEEEeccccCCHH
Confidence               1       11111  12233334455679999999988764

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.87  E-value=5.7e-09  Score=89.12  Aligned_cols=94  Identities=19%  Similarity=0.266  Sum_probs=57.6

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC--eEEEEech-hhhhhccCc
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA--FFFLINGP-EIMSKLAGE  163 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~--~~~~v~~~-~~~~~~~~~  163 (197)
                      .+.|.++.++.+...+               ....++||.||||||||++|++++...+.  +|.++.+. ....+.+|.
T Consensus        21 ~i~gre~vI~lll~aa---------------lag~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~   85 (498)
T PRK13531         21 GLYERSHAIRLCLLAA---------------LSGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGP   85 (498)
T ss_pred             hccCcHHHHHHHHHHH---------------ccCCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCc
Confidence            4677777776666554               34678999999999999999999998743  44444432 122233332


Q ss_pred             c-HHHH--HHHHHHHhcC---CCeEEEEcccCccCccc
Q psy6208         164 S-ESNL--RKAFEEADKN---SPSIIFIDELDAIAPKR  195 (197)
Q Consensus       164 ~-~~~~--~~~~~~a~~~---~~~vl~lDeid~l~~~r  195 (197)
                      . -...  .+.|.....+   ...+||+|||..+.++-
T Consensus        86 l~i~~~~~~g~f~r~~~G~L~~A~lLfLDEI~rasp~~  123 (498)
T PRK13531         86 LSIQALKDEGRYQRLTSGYLPEAEIVFLDEIWKAGPAI  123 (498)
T ss_pred             HHHhhhhhcCchhhhcCCccccccEEeecccccCCHHH
Confidence            1 0000  1223222222   24599999999887753

>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=98.85  E-value=4.1e-09  Score=76.13  Aligned_cols=71  Identities=32%  Similarity=0.497  Sum_probs=44.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh--ccCccHHH------HHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESN------LRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~--~~~~~~~~------~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      +|+|+||||+|||++++.+|+.++.+++.+++......  +.+...-.      ....+..+.. .+.+++|||++...+
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~-~~~il~lDEin~a~~   79 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMR-KGGILVLDEINRAPP   79 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHH-EEEEEEESSCGG--H
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeeccccccccccccccccc-ceeEEEECCcccCCH
Confidence            48999999999999999999999999999987654321  11110000      0000000111 468999999997654

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.83  E-value=3.3e-08  Score=87.70  Aligned_cols=104  Identities=20%  Similarity=0.292  Sum_probs=69.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLI------  151 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v------  151 (197)
                      ....+.+|++|+|++.+++.+..++..-            ..+..+||+||+|+|||++|+.+|+.+.+.....      
T Consensus         9 ~kyRP~~f~~viGq~~~~~~L~~~i~~~------------~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg   76 (614)
T PRK14971          9 RKYRPSTFESVVGQEALTTTLKNAIATN------------KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACN   76 (614)
T ss_pred             HHHCCCCHHHhcCcHHHHHHHHHHHHcC------------CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCC
Confidence            4466789999999999999999998642            3455699999999999999999999875421000      


Q ss_pred             ---echhhhhh-------ccC---ccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         152 ---NGPEIMSK-------LAG---ESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       152 ---~~~~~~~~-------~~~---~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                         +|..+...       +-+   .....++.+.+.+..    +...|++|||+|.|..
T Consensus        77 ~C~sC~~~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~  135 (614)
T PRK14971         77 ECESCVAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQ  135 (614)
T ss_pred             cchHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCH
Confidence               11111100       001   113445555554432    3356999999999865

>PF13173 AAA_14: AAA domain

Probab=98.82  E-value=1.1e-08  Score=73.03  Aligned_cols=70  Identities=29%  Similarity=0.398  Sum_probs=48.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~  192 (197)
                      ..++|+||.|+|||++++.+++...  ..++++++.+..........  +...+.........+|||||++.+.
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~i~iDEiq~~~   74 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD--LLEYFLELIKPGKKYIFIDEIQYLP   74 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh--hHHHHHHhhccCCcEEEEehhhhhc
Confidence            4689999999999999999998875  78888887765432111100  2233333222256799999999875

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.82  E-value=3.7e-08  Score=76.46  Aligned_cols=92  Identities=24%  Similarity=0.380  Sum_probs=69.1

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM  157 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~  157 (197)
                      +.+.+.+|.|.+.+++.+.+....+...         .+..++||||..|||||+|++|+.++.   +...+.|+..++.
T Consensus        55 ~~i~L~~l~Gvd~qk~~L~~NT~~F~~G---------~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~  125 (287)
T COG2607          55 DPIDLADLVGVDRQKEALVRNTEQFAEG---------LPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLA  125 (287)
T ss_pred             CCcCHHHHhCchHHHHHHHHHHHHHHcC---------CcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHh
Confidence            4578899999999999998876654332         456789999999999999999999887   6678899887763


Q ss_pred             hhccCccHHHHHHHHHHHhc-CCCeEEEEcccCc
Q psy6208         158 SKLAGESESNLRKAFEEADK-NSPSIIFIDELDA  190 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~-~~~~vl~lDeid~  190 (197)
                               .+..+++..+. ...-|||+||+-.
T Consensus       126 ---------~Lp~l~~~Lr~~~~kFIlFcDDLSF  150 (287)
T COG2607         126 ---------TLPDLVELLRARPEKFILFCDDLSF  150 (287)
T ss_pred             ---------hHHHHHHHHhcCCceEEEEecCCCC
Confidence                     23334444332 2356899998643

>KOG0741|consensus

Probab=98.80  E-value=1.1e-08  Score=87.10  Aligned_cols=73  Identities=34%  Similarity=0.514  Sum_probs=58.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh-hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM-SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~  192 (197)
                      -..+||+||||+|||.||..+|..++.||+.+-.++-+ +-...+.-..+...|+.|++..-+||++||++.|.
T Consensus       538 lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLi  611 (744)
T KOG0741|consen  538 LVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLL  611 (744)
T ss_pred             ceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhh
Confidence            34589999999999999999999999999987655433 22222233467899999999988999999999874

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=98.78  E-value=4.8e-09  Score=86.75  Aligned_cols=52  Identities=23%  Similarity=0.290  Sum_probs=44.3

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.+.|++|+|+++.+..|...+..+             ...+++|.|++|||||+++++++..+
T Consensus        11 ~~~~pf~~ivGq~~~k~al~~~~~~p-------------~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         11 RPVFPFTAIVGQEEMKLALILNVIDP-------------KIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             CCCCCHHHHhChHHHHHHHHHhccCC-------------CCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            44789999999999999988776653             34589999999999999999998776

>PRK09087 hypothetical protein; Validated

Probab=98.78  E-value=1e-08  Score=80.34  Aligned_cols=57  Identities=32%  Similarity=0.441  Sum_probs=38.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~  192 (197)
                      .+.++|+||+|+|||||++++++..+..  +++...+....           +.....   .+|+|||++.+.
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~~~--~i~~~~~~~~~-----------~~~~~~---~~l~iDDi~~~~  100 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSDAL--LIHPNEIGSDA-----------ANAAAE---GPVLIEDIDAGG  100 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcCCE--EecHHHcchHH-----------HHhhhc---CeEEEECCCCCC
Confidence            4459999999999999999999876544  45443332211           111111   478889998774

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

Probab=98.76  E-value=2.4e-08  Score=71.06  Aligned_cols=72  Identities=24%  Similarity=0.441  Sum_probs=46.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh--------CCeEEEEechhhhh----------hc----cC-ccHHH-HHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET--------GAFFFLINGPEIMS----------KL----AG-ESESN-LRKAFEEA  175 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~--------~~~~~~v~~~~~~~----------~~----~~-~~~~~-~~~~~~~a  175 (197)
                      ...++|+||+|+|||++++.++...        +.++++++++...+          .+    .. ..... ...+.+..
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            4578999999999999999999887        67888888765431          00    11 12222 23333344


Q ss_pred             hcCCCeEEEEcccCcc
Q psy6208         176 DKNSPSIIFIDELDAI  191 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l  191 (197)
                      ......+|+|||+|.|
T Consensus        84 ~~~~~~~lviDe~~~l   99 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHL   99 (131)
T ss_dssp             HHCTEEEEEEETTHHH
T ss_pred             HhcCCeEEEEeChHhc
Confidence            4444469999999987

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

Probab=98.76  E-value=2e-08  Score=87.29  Aligned_cols=91  Identities=69%  Similarity=1.155  Sum_probs=82.5

Q ss_pred             cccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEE
Q psy6208         105 PLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIF  184 (197)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~  184 (197)
                      ++..++.++.++..++.+++++||||+|||.+++++++. +.....+++++....+.+..+..+...|+.+....|++++
T Consensus         3 ~~~~~~~~~~~~~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ii~   81 (494)
T COG0464           3 PLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSIIF   81 (494)
T ss_pred             CccCHHHHHHhCCCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhCCCeEe
Confidence            355677788888999999999999999999999999999 6656888899999999999999999999999999999999


Q ss_pred             EcccCccCcccC
Q psy6208         185 IDELDAIAPKRE  196 (197)
Q Consensus       185 lDeid~l~~~r~  196 (197)
                      +||++.+.+++.
T Consensus        82 ~d~~~~~~~~~~   93 (494)
T COG0464          82 IDEIDALAPKRS   93 (494)
T ss_pred             echhhhcccCcc
Confidence            999999999875

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.76  E-value=4.5e-09  Score=86.58  Aligned_cols=51  Identities=24%  Similarity=0.288  Sum_probs=42.1

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++.|++|.|++.+++.+.-.+..             ....++||.|+||+|||+++++++..+
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            367899999999999887754422             123579999999999999999999987

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=98.76  E-value=2.3e-08  Score=82.35  Aligned_cols=85  Identities=36%  Similarity=0.460  Sum_probs=57.2

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechhhhhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSK  159 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~~~~~  159 (197)
                      ....+.++|+.++.+.+--.+...-..        --.++++||.||||||||.||.++|+++|  .||..++++++.+.
T Consensus        20 ~~~~~GlVGQ~~AReAagiiv~mIk~~--------K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~   91 (398)
T PF06068_consen   20 RYIADGLVGQEKAREAAGIIVDMIKEG--------KIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSS   91 (398)
T ss_dssp             -SEETTEES-HHHHHHHHHHHHHHHTT----------TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BT
T ss_pred             eeccccccChHHHHHHHHHHHHHHhcc--------cccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeec
Confidence            444568999999998876665543111        12467899999999999999999999995  79999999999776


Q ss_pred             ccCccHHHHHHHHHHH
Q psy6208         160 LAGESESNLRKAFEEA  175 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a  175 (197)
                      ....++ .+.+.|+++
T Consensus        92 e~kKTE-~L~qa~Rra  106 (398)
T PF06068_consen   92 EVKKTE-ALTQAFRRA  106 (398)
T ss_dssp             TC-HHH-HHHHHHHCS
T ss_pred             ccCchH-HHHHHHHHh
Confidence            554333 444555443

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.75  E-value=7.9e-09  Score=92.12  Aligned_cols=49  Identities=24%  Similarity=0.252  Sum_probs=39.7

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.|.+|+|++..+..+.-....+             ...+|||.|++|||||++|+++++.+
T Consensus         1 ~pf~~ivGq~~~~~al~~~av~~-------------~~g~vli~G~~GtgKs~lar~l~~~l   49 (633)
T TIGR02442         1 FPFTAIVGQEDLKLALLLNAVDP-------------RIGGVLIRGEKGTAKSTAARGLAALL   49 (633)
T ss_pred             CCcchhcChHHHHHHHHHHhhCC-------------CCCeEEEEcCCCCcHHHHHHHHHHhC
Confidence            35789999999887776555432             23579999999999999999999887

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.74  E-value=2.7e-08  Score=88.04  Aligned_cols=66  Identities=18%  Similarity=0.310  Sum_probs=52.0

Q ss_pred             hHHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208          75 EEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus        75 ~~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      ...+...+.+++++.|++..++++..++.....        +..+...++|+||+|+|||++++.+|..++..+
T Consensus        73 pW~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~--------~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~  138 (637)
T TIGR00602        73 PWVEKYKPETQHELAVHKKKIEEVETWLKAQVL--------ENAPKRILLITGPSGCGKSTTIKILSKELGIQV  138 (637)
T ss_pred             chHHHhCCCCHHHhcCcHHHHHHHHHHHHhccc--------ccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHH
Confidence            355667788999999999999999998865321        123344589999999999999999999887544

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

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

Probab=98.71  E-value=9.3e-09  Score=88.52  Aligned_cols=104  Identities=23%  Similarity=0.341  Sum_probs=73.2

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE--E-----E-
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF--F-----L-  150 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~--~-----~-  150 (197)
                      .+.+..|+++.|++...+.|...+..-            +-..+.+|+||.|+|||++||.+|+.+++.-  .     . 
T Consensus         9 KyRP~~F~evvGQe~v~~~L~nal~~~------------ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C   76 (515)
T COG2812           9 KYRPKTFDDVVGQEHVVKTLSNALENG------------RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKC   76 (515)
T ss_pred             HhCcccHHHhcccHHHHHHHHHHHHhC------------cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhh
Confidence            466789999999999999999998753            4566799999999999999999999986641  1     0 


Q ss_pred             Eechhhhhh-cc---------CccHHHHHHHHHHHh----cCCCeEEEEcccCccCcc
Q psy6208         151 INGPEIMSK-LA---------GESESNLRKAFEEAD----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~~-~~---------~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~  194 (197)
                      ..|.++... +.         ...-..++.+.+...    .+++.|.+|||+|.|...
T Consensus        77 ~~Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~  134 (515)
T COG2812          77 ISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQ  134 (515)
T ss_pred             hhhHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHH
Confidence            012222111 11         112245666666553    345679999999998753

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.71  E-value=4.4e-08  Score=80.30  Aligned_cols=94  Identities=18%  Similarity=0.262  Sum_probs=63.7

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe--------EEEEechh
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF--------FFLINGPE  155 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~--------~~~v~~~~  155 (197)
                      +|+++.|++.+++.+.+.+..-            ..++.+||+||+|+|||++|+++++.+.+.        +..+... 
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~~------------~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~-   68 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIKN------------RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI-   68 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHcC------------CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc-
Confidence            6899999999999999988642            345678999999999999999999987332        2222211 


Q ss_pred             hhhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         156 IMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                       .+..  -.-..++.+.+.+.    .+...|++|||+|.+..
T Consensus        69 -~~~~--i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~  107 (313)
T PRK05564         69 -NKKS--IGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTE  107 (313)
T ss_pred             -cCCC--CCHHHHHHHHHHHhcCcccCCceEEEEechhhcCH
Confidence             0000  12234555544332    24457999999998864

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.70  E-value=6.2e-08  Score=80.09  Aligned_cols=82  Identities=13%  Similarity=0.208  Sum_probs=55.7

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC-------eEEEEec----hh
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-------FFFLING----PE  155 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~-------~~~~v~~----~~  155 (197)
                      ++.|+++++.++.+++......      .+ .....++|+||||+|||++|+++++.++.       +++.+..    +.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g------~~-~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~~~~~sp  124 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQG------LE-ERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKWNGEESP  124 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhc------CC-CCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEecCCCCC
Confidence            7999999999998887654211      11 23466899999999999999999999865       7777766    33


Q ss_pred             hhhhccCccHHHHHHHHHHH
Q psy6208         156 IMSKLAGESESNLRKAFEEA  175 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a  175 (197)
                      +.....+-.....+..|...
T Consensus       125 ~~e~Pl~l~p~~~r~~~~~~  144 (361)
T smart00763      125 MHEDPLHLFPDELREDLEDE  144 (361)
T ss_pred             CccCCcccCCHHHHHHHHHH
Confidence            33332233334445555443

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=98.69  E-value=4e-08  Score=80.44  Aligned_cols=95  Identities=23%  Similarity=0.321  Sum_probs=61.9

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---------------------
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---------------------  145 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---------------------  145 (197)
                      ++.+.+....++..++....           ..+..+||+||||+|||++|.++|+.+.                     
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~-----------~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~   70 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG-----------RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPA   70 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC-----------CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhh
Confidence            45667777777777765321           2333599999999999999999999885                     


Q ss_pred             ---CeEEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCcc
Q psy6208         146 ---AFFFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       146 ---~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~  194 (197)
                         -.++.++.++.....  -....++.+.+....    +...|++|||+|.|...
T Consensus        71 ~~~~d~lel~~s~~~~~~--i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~  124 (325)
T COG0470          71 GNHPDFLELNPSDLRKID--IIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTED  124 (325)
T ss_pred             cCCCceEEecccccCCCc--chHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHH
Confidence               245566655443211  123344444443322    34679999999998753

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.68  E-value=6.5e-08  Score=79.03  Aligned_cols=86  Identities=35%  Similarity=0.473  Sum_probs=62.9

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechhhhh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMS  158 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~~~~  158 (197)
                      +...-+.++|+.++.+..--.+...-.        |--..+++|+.||||||||.||-++++++|  .||..++++++.+
T Consensus        34 ~k~~~dG~VGQ~~AReAaGvIv~mik~--------gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiYS  105 (450)
T COG1224          34 AKFIGDGLVGQEEAREAAGVIVKMIKQ--------GKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYS  105 (450)
T ss_pred             EeEcCCcccchHHHHHhhhHHHHHHHh--------CcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeeccceeee
Confidence            344556799999988876554443211        123567899999999999999999999995  6999999999977


Q ss_pred             hccCccHHHHHHHHHHH
Q psy6208         159 KLAGESESNLRKAFEEA  175 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a  175 (197)
                      .-...++ .+.++|+++
T Consensus       106 ~E~kKTE-~L~qa~Rra  121 (450)
T COG1224         106 LEVKKTE-ALTQALRRA  121 (450)
T ss_pred             ecccHHH-HHHHHHHHh
Confidence            6554443 455556655

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

Probab=98.65  E-value=1.2e-07  Score=80.45  Aligned_cols=76  Identities=22%  Similarity=0.370  Sum_probs=46.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCC-----eEEEEec------hhhhhhcc----Ccc--HHHHHHHHHHHhc--CC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGA-----FFFLING------PEIMSKLA----GES--ESNLRKAFEEADK--NS  179 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~-----~~~~v~~------~~~~~~~~----~~~--~~~~~~~~~~a~~--~~  179 (197)
                      ...+++|+||||||||++|+++|..+..     ++..+..      .++...+.    +..  ...+..+...|..  ..
T Consensus       193 ~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~p~~  272 (459)
T PRK11331        193 IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQPEK  272 (459)
T ss_pred             cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCCeEecCchHHHHHHHHHhcccC
Confidence            3568999999999999999999988742     1212221      22221111    100  1123334445543  35


Q ss_pred             CeEEEEcccCccCcc
Q psy6208         180 PSIIFIDELDAIAPK  194 (197)
Q Consensus       180 ~~vl~lDeid~l~~~  194 (197)
                      |.+|||||+++...+
T Consensus       273 ~~vliIDEINRani~  287 (459)
T PRK11331        273 KYVFIIDEINRANLS  287 (459)
T ss_pred             CcEEEEehhhccCHH
Confidence            789999999986644

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.64  E-value=9.2e-08  Score=79.93  Aligned_cols=51  Identities=20%  Similarity=0.179  Sum_probs=44.6

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +-++++|+|++.+++.+.+.+..-            ..+..+||+||+|+||+++|.++|+.+
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~------------rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSG------------RLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            557889999999999999988752            446679999999999999999999987

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

Probab=98.62  E-value=7.7e-08  Score=79.42  Aligned_cols=92  Identities=27%  Similarity=0.366  Sum_probs=59.1

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh--hccCccH
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS--KLAGESE  165 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~--~~~~~~~  165 (197)
                      +.|.++.+..+...+.               ...+++|.||||+|||++++++|..++.+++.+.|.....  +..|...
T Consensus        26 ~~g~~~~~~~~l~a~~---------------~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~   90 (329)
T COG0714          26 VVGDEEVIELALLALL---------------AGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYA   90 (329)
T ss_pred             eeccHHHHHHHHHHHH---------------cCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchh
Confidence            6666666665555443               3568999999999999999999999999999999864432  2222221


Q ss_pred             HHHH----HHHHHHhc--CCC--eEEEEcccCccCcc
Q psy6208         166 SNLR----KAFEEADK--NSP--SIIFIDELDAIAPK  194 (197)
Q Consensus       166 ~~~~----~~~~~a~~--~~~--~vl~lDeid~l~~~  194 (197)
                      -...    ..+....+  -..  .++++|||+...++
T Consensus        91 ~~~~~~~~~~~~~~~gpl~~~~~~ill~DEInra~p~  127 (329)
T COG0714          91 YAALLLEPGEFRFVPGPLFAAVRVILLLDEINRAPPE  127 (329)
T ss_pred             HhhhhccCCeEEEecCCcccccceEEEEeccccCCHH
Confidence            1110    00000000  001  39999999988765

>TIGR00368 Mg chelatase-related protein

Probab=98.61  E-value=3.3e-08  Score=85.55  Aligned_cols=47  Identities=28%  Similarity=0.530  Sum_probs=37.4

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..|+++.|++..++.+.-.+               ....+++|.||||+|||++++.++..+
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa---------------~~g~~vlliG~pGsGKTtlar~l~~ll  235 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAA---------------AGGHNLLLFGPPGSGKTMLASRLQGIL  235 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhc---------------cCCCEEEEEecCCCCHHHHHHHHhccc
Confidence            47889999988866654433               345689999999999999999998643

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.58  E-value=1.2e-07  Score=81.86  Aligned_cols=98  Identities=24%  Similarity=0.377  Sum_probs=65.5

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh-
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-  159 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~-  159 (197)
                      .+.++.|.+..+..+.+.+...           ......++|.|++||||+++|++++...   +.+|+.++|..+... 
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~-----------~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~  204 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRL-----------SRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDL  204 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHH-----------hccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHH
Confidence            3456777777777776666532           2456679999999999999999999987   468999999876322 


Q ss_pred             ----ccCccHHH-------HHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 ----LAGESESN-------LRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ----~~~~~~~~-------~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                          ++|.....       ....++.+   ....|||||++.|++.-
T Consensus       205 ~~~~lfg~~~g~~~~~~~~~~g~~~~a---~~Gtl~l~~i~~l~~~~  248 (469)
T PRK10923        205 IESELFGHEKGAFTGANTIRQGRFEQA---DGGTLFLDEIGDMPLDV  248 (469)
T ss_pred             HHHHhcCCCCCCCCCCCcCCCCCeeEC---CCCEEEEeccccCCHHH
Confidence                11211100       01112222   24579999999988753

>PHA00729 NTP-binding motif containing protein

Probab=98.58  E-value=6.6e-08  Score=75.16  Aligned_cols=25  Identities=32%  Similarity=0.466  Sum_probs=22.8

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .+++|+|+|||||||+|.+++..++
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4799999999999999999998864

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.58  E-value=2.3e-07  Score=77.21  Aligned_cols=53  Identities=23%  Similarity=0.240  Sum_probs=45.5

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +-.+++++|++.+.+.+...+..-            ..+..+||+||+|+|||++|+.+++.+.+
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~g------------rl~ha~L~~G~~G~GKttlA~~lA~~Llc   71 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREG------------KLHHALLFEGPEGIGKATLAFHLANHILS   71 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcC------------CCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence            567889999999999999988752            44567999999999999999999998854

>KOG1051|consensus

Probab=98.53  E-value=4.2e-07  Score=82.58  Aligned_cols=101  Identities=22%  Similarity=0.338  Sum_probs=72.1

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh----
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS----  158 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~----  158 (197)
                      +.|+|+++++..+-+++...-..-  .+.   .+...++|.||.|+|||-||+++|..+   .-.++.++.+++..    
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl--~~~---~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evskl  636 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGL--KDP---NPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSKL  636 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhccc--CCC---CCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhhc
Confidence            358999999999999987542110  000   245668999999999999999999987   44788999886432    


Q ss_pred             -----hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         159 -----KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       159 -----~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                           .|.|..+  ...+.+..++...+||+|||||.--+
T Consensus       637 igsp~gyvG~e~--gg~LteavrrrP~sVVLfdeIEkAh~  674 (898)
T KOG1051|consen  637 IGSPPGYVGKEE--GGQLTEAVKRRPYSVVLFEEIEKAHP  674 (898)
T ss_pred             cCCCcccccchh--HHHHHHHHhcCCceEEEEechhhcCH
Confidence                 1333333  23556666677779999999997543

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.53  E-value=3.4e-08  Score=84.61  Aligned_cols=98  Identities=23%  Similarity=0.304  Sum_probs=65.8

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL  160 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~  160 (197)
                      .+.++.|.+..+.++.+.+...           .....+++|+|++||||+++|++++...   +.+++.++|..+....
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~~-----------a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~  205 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEKI-----------APSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENL  205 (445)
T ss_pred             cccceeecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHH
Confidence            3456778887777777766532           2345679999999999999999999876   4689999998763221


Q ss_pred             -----cCccHH-------HHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 -----AGESES-------NLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 -----~~~~~~-------~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                           +|....       ...+.++.+   ...+|||||++.|++.-
T Consensus       206 ~~~~lfg~~~~~~~~~~~~~~g~~~~a---~~gtl~l~~i~~l~~~~  249 (445)
T TIGR02915       206 LESELFGYEKGAFTGAVKQTLGKIEYA---HGGTLFLDEIGDLPLNL  249 (445)
T ss_pred             HHHHhcCCCCCCcCCCccCCCCceeEC---CCCEEEEechhhCCHHH
Confidence                 111100       001112222   34689999999998753

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.53  E-value=3.8e-07  Score=66.70  Aligned_cols=71  Identities=30%  Similarity=0.478  Sum_probs=46.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc----------------------cCc--cHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL----------------------AGE--SESNLRKAFEEA  175 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~----------------------~~~--~~~~~~~~~~~a  175 (197)
                      ++|+|+||+|||+++..++...   +.++++++........                      ...  ...........+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERLR   81 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHHH
Confidence            6899999999999999998776   5677777764332211                      000  111112223445


Q ss_pred             hcCCCeEEEEcccCccCc
Q psy6208         176 DKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l~~  193 (197)
                      ....+.+++|||+..+..
T Consensus        82 ~~~~~~~lviDe~~~~~~   99 (165)
T cd01120          82 ERGGDDLIILDELTRLVR   99 (165)
T ss_pred             hCCCCEEEEEEcHHHHHH
Confidence            566789999999997643

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

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.52  E-value=2.8e-08  Score=83.92  Aligned_cols=47  Identities=30%  Similarity=0.528  Sum_probs=39.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|.|+.|++.+++.+.-...               ...++|++||||||||++|+.+...
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAA---------------GgHnLl~~GpPGtGKTmla~Rl~~l  221 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAA---------------GGHNLLLVGPPGTGKTMLASRLPGL  221 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHh---------------cCCcEEEecCCCCchHHhhhhhccc
Confidence            3478899999999998877653               4679999999999999999988543

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.51  E-value=6e-07  Score=68.16  Aligned_cols=76  Identities=18%  Similarity=0.212  Sum_probs=45.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCe-------E-EEEechhhhhh----------cc-CccHHHHHHHHHHHhc--
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAF-------F-FLINGPEIMSK----------LA-GESESNLRKAFEEADK--  177 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~-------~-~~v~~~~~~~~----------~~-~~~~~~~~~~~~~a~~--  177 (197)
                      .+..+||+||+|+|||++++++++.+.+.       . ...+|..+...          .. .-....++.+.+.+..  
T Consensus        13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~   92 (188)
T TIGR00678        13 LAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTP   92 (188)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCc
Confidence            45679999999999999999999987432       0 00011111000          00 0122345545554433  


Q ss_pred             --CCCeEEEEcccCccCcc
Q psy6208         178 --NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       178 --~~~~vl~lDeid~l~~~  194 (197)
                        +...|++|||+|.|...
T Consensus        93 ~~~~~kviiide~~~l~~~  111 (188)
T TIGR00678        93 QESGRRVVIIEDAERMNEA  111 (188)
T ss_pred             ccCCeEEEEEechhhhCHH
Confidence              34679999999998753

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.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.47  E-value=3.7e-07  Score=78.42  Aligned_cols=98  Identities=22%  Similarity=0.317  Sum_probs=64.7

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL  160 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~  160 (197)
                      .+..+.|.+..+..+.+.+...           .....+++++|++||||+++|++++...   +.+++.++|..+....
T Consensus       141 ~~~~ii~~S~~~~~~~~~~~~~-----------a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~  209 (457)
T PRK11361        141 QWGHILTNSPAMMDICKDTAKI-----------ALSQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESL  209 (457)
T ss_pred             cccceecccHHHhHHHHHHHHH-----------cCCCcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHH
Confidence            3455777777777766655433           2445679999999999999999998876   4689999998764321


Q ss_pred             -----cCccHHH-------HHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 -----AGESESN-------LRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 -----~~~~~~~-------~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                           +|.....       ..+.++.+   ...+|||||++.|++..
T Consensus       210 ~~~~lfg~~~~~~~~~~~~~~g~~~~a---~~gtl~ld~i~~l~~~~  253 (457)
T PRK11361        210 LESELFGHEKGAFTGAQTLRQGLFERA---NEGTLLLDEIGEMPLVL  253 (457)
T ss_pred             HHHHhcCCCCCCCCCCCCCCCCceEEC---CCCEEEEechhhCCHHH
Confidence                 1111000       01122222   24589999999998753

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.44  E-value=3.3e-07  Score=75.15  Aligned_cols=49  Identities=16%  Similarity=0.287  Sum_probs=43.3

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .|++|+|++.+++.+.+.+..-            .-++.+||+||+|+||+++|.++++.+
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~~------------rl~ha~Lf~G~~G~Gk~~~A~~~a~~l   50 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQN------------RIAPAYLFAGPEGVGRKLAALCFIEGL   50 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHhC------------CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999998752            346789999999999999999999887

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.43  E-value=2.9e-07  Score=76.08  Aligned_cols=49  Identities=24%  Similarity=0.251  Sum_probs=39.7

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.|..|+|++..+..+.-.+..             +...+++|.|++|+|||+++++++..+
T Consensus         1 ~pf~~ivgq~~~~~al~~~~~~-------------~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         1 FPFTAIVGQDEMKLALLLNVID-------------PKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             CCccccccHHHHHHHHHHHhcC-------------CCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            3578899999999887655533             234679999999999999999999776

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

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.43  E-value=4.5e-07  Score=74.90  Aligned_cols=50  Identities=16%  Similarity=0.201  Sum_probs=41.2

Q ss_pred             CcccccC-cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208          84 GYDDIGG-CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus        84 ~~~~i~g-~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .|++|.| ++.+++.+.+.+..-            ..++.+||+||+|+||+++|+++++.+.
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~~~------------~l~ha~Lf~G~~G~gk~~~a~~la~~l~   53 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIAKN------------RLSHAYLFEGAKGTGKKATALWLAKSLF   53 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHHC
Confidence            4777777 888999998887642            4466789999999999999999998873

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=98.40  E-value=9.3e-07  Score=68.15  Aligned_cols=77  Identities=27%  Similarity=0.454  Sum_probs=50.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh-cc---C-------------------ccHHHHH
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-LA---G-------------------ESESNLR  169 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~-~~---~-------------------~~~~~~~  169 (197)
                      |+....-++|+||||+|||+++..++...   +.+++++++.++... +.   .                   +....+.
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~~~~~rl~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~   87 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDRPERALSNFIVFEVFDFDEQGVAIQ   87 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCCHHHHHHHHHhChHHHhcCEEEEECCCHHHHHHHHH
Confidence            45666778999999999999999987654   678899988652110 00   0                   0011123


Q ss_pred             HHHHHHhcCCCeEEEEcccCccC
Q psy6208         170 KAFEEADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       170 ~~~~~a~~~~~~vl~lDeid~l~  192 (197)
                      .+.+......+++|+||-+..+.
T Consensus        88 ~l~~~~~~~~~~lvVIDSis~l~  110 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFTALY  110 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcHHHh
Confidence            33333444468999999998774

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

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=98.40  E-value=1.6e-06  Score=69.50  Aligned_cols=94  Identities=19%  Similarity=0.342  Sum_probs=61.4

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEec-hhhhh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLING-PEIMS  158 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~-~~~~~  158 (197)
                      .++++++-.....+.+.+++..              ....++|.|++|+|||++++++.....   ..++.+.- .++.-
T Consensus        57 ~~l~~lg~~~~~~~~l~~~~~~--------------~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~  122 (264)
T cd01129          57 LDLEKLGLKPENLEIFRKLLEK--------------PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQI  122 (264)
T ss_pred             CCHHHcCCCHHHHHHHHHHHhc--------------CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecC
Confidence            4567777667777777666532              344689999999999999999977663   34555432 12211


Q ss_pred             h------ccCccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         159 K------LAGESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       159 ~------~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                      .      ............++.+.+..|++|+++|+..
T Consensus       123 ~~~~q~~v~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~  160 (264)
T cd01129         123 PGINQVQVNEKAGLTFARGLRAILRQDPDIIMVGEIRD  160 (264)
T ss_pred             CCceEEEeCCcCCcCHHHHHHHHhccCCCEEEeccCCC
Confidence            0      0111112456677777888999999999854

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.37  E-value=8.6e-07  Score=74.65  Aligned_cols=67  Identities=18%  Similarity=0.314  Sum_probs=45.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ..+.++++.||+||||||++.+++...    |   .+++.+.+...+..       ..+..  -..+++|+|||+..+.-
T Consensus       207 e~~~Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~T~a~Lf~~L~~-------~~lg~--v~~~DlLI~DEvgylp~  274 (449)
T TIGR02688       207 EPNYNLIELGPKGTGKSYIYNNLSPYVILISG---GTITVAKLFYNIST-------RQIGL--VGRWDVVAFDEVATLKF  274 (449)
T ss_pred             hcCCcEEEECCCCCCHHHHHHHHhHHHHHHcC---CcCcHHHHHHHHHH-------HHHhh--hccCCEEEEEcCCCCcC
Confidence            567899999999999999999987662    3   34455555443221       11121  23478999999999776


Q ss_pred             ccC
Q psy6208         194 KRE  196 (197)
Q Consensus       194 ~r~  196 (197)
                      .++
T Consensus       275 ~~~  277 (449)
T TIGR02688       275 AKP  277 (449)
T ss_pred             Cch
Confidence            543

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.37  E-value=2.5e-06  Score=72.92  Aligned_cols=96  Identities=23%  Similarity=0.341  Sum_probs=64.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe---EEEEech-hh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF---FFLINGP-EI  156 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~---~~~v~~~-~~  156 (197)
                      ...++++++........+.+.+..              +..-+|++||+|+|||+.+.++.+.++.+   ++.+.-+ +.
T Consensus       233 ~~l~l~~Lg~~~~~~~~~~~~~~~--------------p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~  298 (500)
T COG2804         233 VILDLEKLGMSPFQLARLLRLLNR--------------PQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEY  298 (500)
T ss_pred             ccCCHHHhCCCHHHHHHHHHHHhC--------------CCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeee
Confidence            357788899888888888888753              34457899999999999999998888543   3332211 11


Q ss_pred             hhhc-----c-CccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         157 MSKL-----A-GESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       157 ~~~~-----~-~~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                      .-.-     + ....-.....++...+..|+||++.||..
T Consensus       299 ~~~gI~Q~qVN~k~gltfa~~LRa~LRqDPDvImVGEIRD  338 (500)
T COG2804         299 QLPGINQVQVNPKIGLTFARALRAILRQDPDVIMVGEIRD  338 (500)
T ss_pred             ecCCcceeecccccCCCHHHHHHHHhccCCCeEEEeccCC
Confidence            1000     0 01111234556667778999999999864

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=98.36  E-value=4.7e-07  Score=63.55  Aligned_cols=31  Identities=32%  Similarity=0.688  Sum_probs=28.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      |+|.|+||+||||+|+.+++.++.+++.++.
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence            7899999999999999999999988876665

...

>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=98.35  E-value=7.3e-07  Score=69.09  Aligned_cols=43  Identities=44%  Similarity=0.727  Sum_probs=33.5

Q ss_pred             cCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          89 GGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        89 ~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .|.+..+++|.+++..             .....++|+||.|+|||+|++.+.+..
T Consensus         2 ~gR~~el~~l~~~l~~-------------~~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    2 FGREKELEKLKELLES-------------GPSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             -S-HHHHHHHHHCHHH---------------SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHh-------------hcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            5777788888777653             345679999999999999999999887

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

>PRK15115 response regulator GlrR; Provisional

Probab=98.35  E-value=9.4e-07  Score=75.69  Aligned_cols=75  Identities=27%  Similarity=0.473  Sum_probs=50.8

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc-----cCccHH-------HHHHHHHHHhcCCCeE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL-----AGESES-------NLRKAFEEADKNSPSI  182 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~-----~~~~~~-------~~~~~~~~a~~~~~~v  182 (197)
                      .....++|+|++|+|||++|+++++..   +.+++.++|..+....     +|....       ...+.++.+   ...+
T Consensus       155 ~~~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a---~~gt  231 (444)
T PRK15115        155 QSDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHARGAFTGAVSNREGLFQAA---EGGT  231 (444)
T ss_pred             cCCCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCCcCCCCCCccCCCCcEEEC---CCCE
Confidence            345679999999999999999999886   4689999998763321     111000       000112222   2458


Q ss_pred             EEEcccCccCccc
Q psy6208         183 IFIDELDAIAPKR  195 (197)
Q Consensus       183 l~lDeid~l~~~r  195 (197)
                      |||||||.|++..
T Consensus       232 l~l~~i~~l~~~~  244 (444)
T PRK15115        232 LFLDEIGDMPAPL  244 (444)
T ss_pred             EEEEccccCCHHH
Confidence            9999999998764

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=98.34  E-value=5.5e-07  Score=73.41  Aligned_cols=71  Identities=21%  Similarity=0.366  Sum_probs=48.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEec-hhhhhh-------ccCccHHHHHHHHHHHhcCCCeEEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET-----GAFFFLING-PEIMSK-------LAGESESNLRKAFEEADKNSPSIIFI  185 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~-~~~~~~-------~~~~~~~~~~~~~~~a~~~~~~vl~l  185 (197)
                      ...++++.|++|+|||++++++....     +..++.+.- .++.-.       ...........+++.+.+..|+.|++
T Consensus       131 ~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~~~~~~~~~l~~aLR~~pD~iiv  210 (299)
T TIGR02782       131 ARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSDDAISMTRLLKATLRLRPDRIIV  210 (299)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecCCCCCHHHHHHHHhcCCCCEEEE
Confidence            45689999999999999999999876     234444432 122100       01111125677888888899999999


Q ss_pred             cccC
Q psy6208         186 DELD  189 (197)
Q Consensus       186 Deid  189 (197)
                      .|+-
T Consensus       211 GEiR  214 (299)
T TIGR02782       211 GEVR  214 (299)
T ss_pred             eccC
Confidence            9985

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

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

Probab=98.34  E-value=5.2e-06  Score=66.30  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=22.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ...++|+||+|+|||++++.+++.+.
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            34588999999999999999999875

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.

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=98.34  E-value=6.1e-07  Score=71.99  Aligned_cols=98  Identities=24%  Similarity=0.423  Sum_probs=61.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh--C-CeEEEEec-hhhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET--G-AFFFLING-PEIM  157 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~--~-~~~~~v~~-~~~~  157 (197)
                      .+++++++-.....+.+.+++...           +....++++.|++|+|||+++.++....  . .+++.+.- .++.
T Consensus       100 ~~sle~l~~~~~~~~~~~~~l~~~-----------v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~  168 (270)
T PF00437_consen  100 PFSLEDLGESGSIPEEIAEFLRSA-----------VRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELR  168 (270)
T ss_dssp             --CHCCCCHTHHCHHHHHHHHHHC-----------HHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S-
T ss_pred             cccHhhccCchhhHHHHHHHHhhc-----------cccceEEEEECCCccccchHHHHHhhhccccccceEEecccccee
Confidence            567777776666666666666543           2346689999999999999999999877  2 45555442 2221


Q ss_pred             hh------cc-CccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         158 SK------LA-GESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       158 ~~------~~-~~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                      -.      +. .........++..+.+..|++|+++|+..
T Consensus       169 l~~~~~~~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~  208 (270)
T PF00437_consen  169 LPGPNQIQIQTRRDEISYEDLLKSALRQDPDVIIIGEIRD  208 (270)
T ss_dssp             -SCSSEEEEEEETTTBSHHHHHHHHTTS--SEEEESCE-S
T ss_pred             ecccceEEEEeecCcccHHHHHHHHhcCCCCcccccccCC
Confidence            11      00 11233456777888888999999999864

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=98.34  E-value=1.6e-06  Score=68.04  Aligned_cols=68  Identities=26%  Similarity=0.408  Sum_probs=50.6

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ...+-.+.||+|||||..++.+|+.+|+.++.++|++-++      ...+.+++.-+... -+.+++||++.|..
T Consensus        31 ~~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~------~~~l~ril~G~~~~-GaW~cfdefnrl~~   98 (231)
T PF12774_consen   31 LNLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMD------YQSLSRILKGLAQS-GAWLCFDEFNRLSE   98 (231)
T ss_dssp             TTTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-------HHHHHHHHHHHHHH-T-EEEEETCCCSSH
T ss_pred             cCCCCCCcCCCCCCchhHHHHHHHHhCCeEEEeccccccc------HHHHHHHHHHHhhc-CchhhhhhhhhhhH
Confidence            4556789999999999999999999999999999987643      33455566544332 46899999998864

>PRK08118 topology modulation protein; Reviewed

Probab=98.33  E-value=1.9e-06  Score=64.42  Aligned_cols=32  Identities=25%  Similarity=0.467  Sum_probs=29.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      .|+|.|+||+||||+|+.|++.++.+++.++.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~   34 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDA   34 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecch
Confidence            58999999999999999999999999887774

>cd01131 PilT Pilus retraction ATPase PilT

Probab=98.33  E-value=1.5e-06  Score=66.62  Aligned_cols=68  Identities=24%  Similarity=0.460  Sum_probs=43.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC----CeEEEEech-hhhhh---------ccCccHHHHHHHHHHHhcCCCeEEEEcc
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG----AFFFLINGP-EIMSK---------LAGESESNLRKAFEEADKNSPSIIFIDE  187 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~----~~~~~v~~~-~~~~~---------~~~~~~~~~~~~~~~a~~~~~~vl~lDe  187 (197)
                      -++|.||+|+|||+++++++....    ..++.+..+ ++...         ..+.....+...++.+.+..|+++++||
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~~~~~~i~q~~vg~~~~~~~~~i~~aLr~~pd~ii~gE   82 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHESKRSLINQREVGLDTLSFENALKAALRQDPDVILVGE   82 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccccCccceeeecccCCCccCHHHHHHHHhcCCcCEEEEcC
Confidence            479999999999999999887763    233333221 21110         0121223355566677777899999999


Q ss_pred             cC
Q psy6208         188 LD  189 (197)
Q Consensus       188 id  189 (197)
                      +.
T Consensus        83 ir   84 (198)
T cd01131          83 MR   84 (198)
T ss_pred             CC
Confidence            83

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.32  E-value=2.2e-06  Score=62.89  Aligned_cols=26  Identities=31%  Similarity=0.507  Sum_probs=23.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ....++++|+||+|||+++..++..+
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHH
Confidence            34569999999999999999999877

>PRK07261 topology modulation protein; Provisional

Probab=98.32  E-value=2e-06  Score=64.52  Aligned_cols=33  Identities=21%  Similarity=0.368  Sum_probs=28.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      .|+|.|+||+|||++|+.++..++.+++..+.-
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~   34 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTL   34 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCE
Confidence            489999999999999999999998887776643

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.32  E-value=1.4e-06  Score=75.82  Aligned_cols=69  Identities=25%  Similarity=0.301  Sum_probs=54.2

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +-+...+.+.+++.-..+-+++++.++...+..        ....+-++|+||+|||||++++.+|++++..+....
T Consensus         9 W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~--------~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~   77 (519)
T PF03215_consen    9 WVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSG--------SSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWI   77 (519)
T ss_pred             cchhcCCCCHHHhhccHHHHHHHHHHHHHHhcc--------CCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEec
Confidence            344566788899999999999999999754221        123446789999999999999999999988777653

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=98.31  E-value=1.9e-06  Score=71.58  Aligned_cols=71  Identities=25%  Similarity=0.462  Sum_probs=47.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC----CeEEEEech-hhhh---------hccCccHHHHHHHHHHHhcCCCeEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG----AFFFLINGP-EIMS---------KLAGESESNLRKAFEEADKNSPSIIF  184 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~----~~~~~v~~~-~~~~---------~~~~~~~~~~~~~~~~a~~~~~~vl~  184 (197)
                      +...++|.||+|+|||++++++.....    ..++.+.-+ ++..         ...+.........++.+.+..|++|+
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr~~pd~i~  200 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLDTLSFANALRAALREDPDVIL  200 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCCCcCHHHHHHHhhccCCCEEE
Confidence            345689999999999999999988663    334444221 2210         01122222456667777788999999


Q ss_pred             EcccC
Q psy6208         185 IDELD  189 (197)
Q Consensus       185 lDeid  189 (197)
                      +||+.
T Consensus       201 vgEir  205 (343)
T TIGR01420       201 IGEMR  205 (343)
T ss_pred             EeCCC
Confidence            99984

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.31  E-value=4e-06  Score=67.34  Aligned_cols=73  Identities=25%  Similarity=0.488  Sum_probs=51.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCC----eEEEEech-h--------hh-hhccCccHHHHHHHHHHHhcCCCeEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGA----FFFLINGP-E--------IM-SKLAGESESNLRKAFEEADKNSPSII  183 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~----~~~~v~~~-~--------~~-~~~~~~~~~~~~~~~~~a~~~~~~vl  183 (197)
                      .+..-||++||+|+|||+.+.++....|.    +.+.+.-+ +        +. ..-+|.........++.|.+..|+||
T Consensus       123 ~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~skkslI~QREvG~dT~sF~~aLraALReDPDVI  202 (353)
T COG2805         123 SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHESKKSLINQREVGRDTLSFANALRAALREDPDVI  202 (353)
T ss_pred             CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhcchHhhhhHHHhcccHHHHHHHHHHHhhcCCCEE
Confidence            34455899999999999999999887743    34443321 1        11 22345555666777888888899999


Q ss_pred             EEcccCc
Q psy6208         184 FIDELDA  190 (197)
Q Consensus       184 ~lDeid~  190 (197)
                      ++-|+-.
T Consensus       203 lvGEmRD  209 (353)
T COG2805         203 LVGEMRD  209 (353)
T ss_pred             EEecccc
Confidence            9999754

>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=98.31  E-value=2.4e-06  Score=63.55  Aligned_cols=90  Identities=23%  Similarity=0.375  Sum_probs=56.0

Q ss_pred             CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------------------
Q psy6208          90 GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------------------  147 (197)
Q Consensus        90 g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------------------  147 (197)
                      |++.+++.+.+.+..-            .-+..+||+||+|+||+++|.++++.+-+.                      
T Consensus         1 gq~~~~~~L~~~~~~~------------~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~   68 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG------------RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHP   68 (162)
T ss_dssp             S-HHHHHHHHHHHHCT------------C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CT
T ss_pred             CcHHHHHHHHHHHHcC------------CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCc
Confidence            6788888888887642            456679999999999999999999887221                      


Q ss_pred             -EEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCcc
Q psy6208         148 -FFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       148 -~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~  194 (197)
                       +..++......   .-....++.+.+.+..    +...|++|||+|.|...
T Consensus        69 d~~~~~~~~~~~---~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~  117 (162)
T PF13177_consen   69 DFIIIKPDKKKK---SIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEE  117 (162)
T ss_dssp             TEEEEETTTSSS---SBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HH
T ss_pred             ceEEEecccccc---hhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHH
Confidence             11221111000   1123455655554432    34679999999998653

...

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.30  E-value=2.2e-06  Score=68.92  Aligned_cols=76  Identities=24%  Similarity=0.485  Sum_probs=52.0

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHH------HhCCeEEEEechhhhhh-----ccCccHH-------HHHHHHHHHhcC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVAN------ETGAFFFLINGPEIMSK-----LAGESES-------NLRKAFEEADKN  178 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~------~~~~~~~~v~~~~~~~~-----~~~~~~~-------~~~~~~~~a~~~  178 (197)
                      +....++||.||+|.||+.||+.+..      ++..+|+.+||..+.+.     ++|+...       .-..++..+   
T Consensus       205 ~rsr~p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsa---  281 (531)
T COG4650         205 IRSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSA---  281 (531)
T ss_pred             hhccCCeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccC---
Confidence            46677899999999999999998853      34678999999877533     2222111       112222222   


Q ss_pred             CCeEEEEcccCccCccc
Q psy6208         179 SPSIIFIDELDAIAPKR  195 (197)
Q Consensus       179 ~~~vl~lDeid~l~~~r  195 (197)
                      ...+||+|||..|....
T Consensus       282 dggmlfldeigelgade  298 (531)
T COG4650         282 DGGMLFLDEIGELGADE  298 (531)
T ss_pred             CCceEehHhhhhcCccH
Confidence            34589999999987654

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=98.27  E-value=2.9e-06  Score=75.43  Aligned_cols=84  Identities=27%  Similarity=0.375  Sum_probs=59.9

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----EEEEechh--
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPE--  155 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----~~~v~~~~--  155 (197)
                      ..-++++.|++..++.+...+..               ..+++|+||||||||++++++++.++..    ++++..+.  
T Consensus        14 ~~~~~~viG~~~a~~~l~~a~~~---------------~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~   78 (608)
T TIGR00764        14 ERLIDQVIGQEEAVEIIKKAAKQ---------------KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDP   78 (608)
T ss_pred             hhhHhhccCHHHHHHHHHHHHHc---------------CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCC
Confidence            45678999999999988887753               3489999999999999999999998543    33333222  


Q ss_pred             ----hhhhccCccHHHHHHHHHHHhcCCC
Q psy6208         156 ----IMSKLAGESESNLRKAFEEADKNSP  180 (197)
Q Consensus       156 ----~~~~~~~~~~~~~~~~~~~a~~~~~  180 (197)
                          +..-..+..++.++..|..+++..+
T Consensus        79 ~~~~~~~v~~~~g~~~~~~~~~~~~~~~~  107 (608)
T TIGR00764        79 NMPRIVEVPAGEGREIVEDYKKKAFKQPS  107 (608)
T ss_pred             chHHHHHHHHhhchHHHHHHHHHhhcccc
Confidence                1222345566677777777766544

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

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

Probab=98.26  E-value=8.5e-07  Score=62.86  Aligned_cols=70  Identities=34%  Similarity=0.520  Sum_probs=38.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEech-hhh-hhccCc----cHHHHHHHHHHHhcC--CCeEEEEcccCccCc
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGP-EIM-SKLAGE----SESNLRKAFEEADKN--SPSIIFIDELDAIAP  193 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~-~~~-~~~~~~----~~~~~~~~~~~a~~~--~~~vl~lDeid~l~~  193 (197)
                      ++||+|+||+|||++++++|..++..|..|.+. ++. ++..|.    .+.   ..|+- ..+  -..|+++|||.+.++
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~---~~f~~-~~GPif~~ill~DEiNrapp   76 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQET---GEFEF-RPGPIFTNILLADEINRAPP   76 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTT---TEEEE-EE-TT-SSEEEEETGGGS-H
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCC---CeeEe-ecChhhhceeeecccccCCH
Confidence            489999999999999999999999999988763 232 221111    000   00000 000  025999999999887


Q ss_pred             cc
Q psy6208         194 KR  195 (197)
Q Consensus       194 ~r  195 (197)
                      +-
T Consensus        77 kt   78 (131)
T PF07726_consen   77 KT   78 (131)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

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

>PRK11823 DNA repair protein RadA; Provisional

Probab=98.25  E-value=2.5e-06  Score=73.19  Aligned_cols=78  Identities=27%  Similarity=0.525  Sum_probs=54.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhcc------Cc--------cHHHHHHHHHHHhcC
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLA------GE--------SESNLRKAFEEADKN  178 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~------~~--------~~~~~~~~~~~a~~~  178 (197)
                      |+.+...++|+|+||+|||+|+..++...   +.+++|++..+-.....      +.        .+..+..+++.....
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~  155 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEE  155 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhh
Confidence            35566678999999999999999998765   67888888755332211      10        112234555555566


Q ss_pred             CCeEEEEcccCccCc
Q psy6208         179 SPSIIFIDELDAIAP  193 (197)
Q Consensus       179 ~~~vl~lDeid~l~~  193 (197)
                      .|.+|+||++..+..
T Consensus       156 ~~~lVVIDSIq~l~~  170 (446)
T PRK11823        156 KPDLVVIDSIQTMYS  170 (446)
T ss_pred             CCCEEEEechhhhcc
Confidence            789999999998764

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=98.25  E-value=2.7e-06  Score=64.15  Aligned_cols=31  Identities=35%  Similarity=0.371  Sum_probs=25.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ++++||||+|||+++..++...   +.++++++.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~   35 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL   35 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            6899999999999999886654   667877765

A related protein is found in archaea.

>TIGR02012 tigrfam_recA protein RecA

Probab=98.25  E-value=4.3e-06  Score=68.54  Aligned_cols=78  Identities=27%  Similarity=0.391  Sum_probs=52.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc----------------cCccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL----------------AGESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~----------------~~~~~~~~~~~~~~a~~  177 (197)
                      +.....++|+||||+|||+|+..++...   +.+++++++.+-....                ....+..+..+....+.
T Consensus        52 lp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~  131 (321)
T TIGR02012        52 LPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRS  131 (321)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhc
Confidence            5566678999999999999988776544   6778888875432210                11122233333333445


Q ss_pred             CCCeEEEEcccCccCcc
Q psy6208         178 NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~~  194 (197)
                      ..+++|+||-+..|.+.
T Consensus       132 ~~~~lIVIDSv~al~~~  148 (321)
T TIGR02012       132 GAVDIIVVDSVAALVPK  148 (321)
T ss_pred             cCCcEEEEcchhhhccc
Confidence            67899999999988764

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=98.24  E-value=2.1e-06  Score=71.95  Aligned_cols=77  Identities=26%  Similarity=0.482  Sum_probs=52.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc------cC--------ccHHHHHHHHHHHhcCC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL------AG--------ESESNLRKAFEEADKNS  179 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~------~~--------~~~~~~~~~~~~a~~~~  179 (197)
                      +.+..-++|+|+||+|||+++..++...   +.++++++..+-....      .+        ..+..+..+++......
T Consensus        79 i~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~  158 (372)
T cd01121          79 LVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEELK  158 (372)
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhcC
Confidence            5566678999999999999999998765   4578888765422211      01        01123445555555667


Q ss_pred             CeEEEEcccCccCc
Q psy6208         180 PSIIFIDELDAIAP  193 (197)
Q Consensus       180 ~~vl~lDeid~l~~  193 (197)
                      |++|+||++..+..
T Consensus       159 ~~lVVIDSIq~l~~  172 (372)
T cd01121         159 PDLVIIDSIQTVYS  172 (372)
T ss_pred             CcEEEEcchHHhhc
Confidence            99999999988753

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

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.24  E-value=2.3e-06  Score=73.63  Aligned_cols=95  Identities=22%  Similarity=0.395  Sum_probs=62.3

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc---
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL---  160 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~---  160 (197)
                      .+.|.+..+.++.+.+...           ......+++.|++||||+++|++++...   +.+++.++|..+...+   
T Consensus       135 ~lig~s~~~~~v~~~i~~~-----------a~~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~  203 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRL-----------SRSDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIES  203 (463)
T ss_pred             ceeecCHHHHHHHHHHHHH-----------hCcCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHH
Confidence            4667776666666655432           2345679999999999999999999876   5689999997763321   


Q ss_pred             --cCccHHHH-------HHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 --AGESESNL-------RKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 --~~~~~~~~-------~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                        +|......       .+.++   .....+||||||+.|+...
T Consensus       204 ~lfg~~~~~~~~~~~~~~g~~~---~a~~gtl~l~ei~~l~~~~  244 (463)
T TIGR01818       204 ELFGHEKGAFTGANTRRQGRFE---QADGGTLFLDEIGDMPLDA  244 (463)
T ss_pred             HhcCCCCCCCCCcccCCCCcEE---ECCCCeEEEEchhhCCHHH
Confidence              12110000       01122   2234689999999998753

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=98.24  E-value=5.3e-06  Score=71.92  Aligned_cols=95  Identities=19%  Similarity=0.353  Sum_probs=61.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEech-hhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGP-EIM  157 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~-~~~  157 (197)
                      ..++++++-..+..+.+.+.+..              +..-++++||+|+|||+++.++.+.++   ..++.+.-+ ++.
T Consensus       218 ~~~l~~Lg~~~~~~~~l~~~~~~--------------~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~  283 (486)
T TIGR02533       218 RLDLETLGMSPELLSRFERLIRR--------------PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQ  283 (486)
T ss_pred             CCCHHHcCCCHHHHHHHHHHHhc--------------CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeee
Confidence            45677887777777777776642              233478999999999999998877663   344444321 111


Q ss_pred             h----h--ccCccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         158 S----K--LAGESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       158 ~----~--~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                      -    .  .............+.+.+..|++|++.|+..
T Consensus       284 ~~~~~q~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEiRd  322 (486)
T TIGR02533       284 IEGIGQIQVNPKIGLTFAAGLRAILRQDPDIIMVGEIRD  322 (486)
T ss_pred             cCCCceEEEccccCccHHHHHHHHHhcCCCEEEEeCCCC
Confidence            0    0  0011112345566777788999999999854

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=98.23  E-value=3.5e-06  Score=69.64  Aligned_cols=73  Identities=23%  Similarity=0.352  Sum_probs=49.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEe-chhhhh-h-------c-----cCccHHHHHHHHHHHhcCCCe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG--AFFFLIN-GPEIMS-K-------L-----AGESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~-~~~~~~-~-------~-----~~~~~~~~~~~~~~a~~~~~~  181 (197)
                      ....++++.|++|+|||++++++.....  .+++.+. ..++.- .       .     .+...-....+++.+.+..|+
T Consensus       158 ~~~~nili~G~tgSGKTTll~aL~~~ip~~~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~~~~~~~~ll~~~LR~~PD  237 (332)
T PRK13900        158 ISKKNIIISGGTSTGKTTFTNAALREIPAIERLITVEDAREIVLSNHPNRVHLLASKGGQGRAKVTTQDLIEACLRLRPD  237 (332)
T ss_pred             HcCCcEEEECCCCCCHHHHHHHHHhhCCCCCeEEEecCCCccccccCCCEEEEEecCCCCCcCcCcHHHHHHHHhccCCC
Confidence            4567899999999999999999998874  3444432 122211 0       0     011122456778888889999


Q ss_pred             EEEEcccCc
Q psy6208         182 IIFIDELDA  190 (197)
Q Consensus       182 vl~lDeid~  190 (197)
                      .|+++|+..
T Consensus       238 ~IivGEiR~  246 (332)
T PRK13900        238 RIIVGELRG  246 (332)
T ss_pred             eEEEEecCC
Confidence            999999863

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.22  E-value=1.2e-06  Score=65.73  Aligned_cols=59  Identities=24%  Similarity=0.519  Sum_probs=36.6

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC---eEEEEechhh
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA---FFFLINGPEI  156 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~---~~~~v~~~~~  156 (197)
                      ++|.+++++++...+. ...         ...++.++|+|++|+|||++++++...+..   .++.+++...
T Consensus         2 fvgR~~e~~~l~~~l~-~~~---------~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen    2 FVGREEEIERLRDLLD-AAQ---------SGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             -TT-HHHHHHHHHTTG-GTS---------S-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CCCHHHHHHHHHHHHH-HHH---------cCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            5788888998888875 211         245678999999999999999998776622   2666665444

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

Probab=98.22  E-value=5.8e-06  Score=67.44  Aligned_cols=71  Identities=28%  Similarity=0.378  Sum_probs=52.4

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhC-CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~-~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      -|+|++++++.+.-++..-.++..+-..+. --.|.+||+.||+|+|||.+|+.+|+..+.||+.+.+..+.
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKfT   87 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFT   87 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeeee
Confidence            389999999887665543222211111111 23578999999999999999999999999999999887664

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=98.21  E-value=1.7e-06  Score=71.10  Aligned_cols=71  Identities=23%  Similarity=0.371  Sum_probs=48.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEe-chhhhhh------ccCccHHHHHHHHHHHhcCCCeEEEEc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET-----GAFFFLIN-GPEIMSK------LAGESESNLRKAFEEADKNSPSIIFID  186 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~-~~~~~~~------~~~~~~~~~~~~~~~a~~~~~~vl~lD  186 (197)
                      ...++++.|++|+|||++++++....     +..++.+. ..++.-.      +.....-....+++.+.+..|+.|++.
T Consensus       143 ~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~v~l~~~~~~~~~~lv~~aLR~~PD~IivG  222 (323)
T PRK13833        143 SRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAVALHTSDTVDMARLLKSTMRLRPDRIIVG  222 (323)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCCEEEeccCCCcCHHHHHHHHhCCCCCEEEEe
Confidence            45689999999999999999998875     23444433 2232210      111112245677788888999999999


Q ss_pred             ccC
Q psy6208         187 ELD  189 (197)
Q Consensus       187 eid  189 (197)
                      |+-
T Consensus       223 EiR  225 (323)
T PRK13833        223 EVR  225 (323)
T ss_pred             ecC
Confidence            984

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=98.21  E-value=6.9e-06  Score=67.43  Aligned_cols=78  Identities=27%  Similarity=0.393  Sum_probs=51.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh-------------c---cCccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-------------L---AGESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~-------------~---~~~~~~~~~~~~~~a~~  177 (197)
                      ++...-+.|+||||+|||+|+..++...   +..++++++.+-...             +   ....+..+..+....+.
T Consensus        52 lp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s  131 (325)
T cd00983          52 YPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVRS  131 (325)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHhc
Confidence            4556668999999999999999887543   778888887442211             0   11122222222223345


Q ss_pred             CCCeEEEEcccCccCcc
Q psy6208         178 NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~~  194 (197)
                      ..+++|+||-+..+.+.
T Consensus       132 ~~~~lIVIDSvaal~~~  148 (325)
T cd00983         132 GAVDLIVVDSVAALVPK  148 (325)
T ss_pred             cCCCEEEEcchHhhccc
Confidence            67899999999988763

RecA couples ATP hydrolysis to DNA strand exchange.

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

Probab=98.20  E-value=1.3e-05  Score=64.78  Aligned_cols=100  Identities=15%  Similarity=0.196  Sum_probs=58.7

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechhhh
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPEIM  157 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~~~  157 (197)
                      .-+|...+.+.+...-.. +..|.      .....+++|+|++|.|||++++.++..-         ..|++++.++.-.
T Consensus        35 rWIgY~~A~~~L~~L~~L-l~~P~------~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p  107 (302)
T PF05621_consen   35 RWIGYPRAKEALDRLEEL-LEYPK------RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEP  107 (302)
T ss_pred             CeecCHHHHHHHHHHHHH-HhCCc------ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCC
Confidence            345665555554443221 22222      2345679999999999999999998653         2477787754321


Q ss_pred             h----------h----cc--CccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         158 S----------K----LA--GESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       158 ~----------~----~~--~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      +          .    +.  .........+....+...+.+|+|||+|.+..
T Consensus       108 ~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLa  159 (302)
T PF05621_consen  108 DERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLA  159 (302)
T ss_pred             ChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhc
Confidence            1          1    10  11112222333444556688999999999643

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

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=98.20  E-value=1.9e-06  Score=70.86  Aligned_cols=72  Identities=26%  Similarity=0.436  Sum_probs=48.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEe-chhhhh------hccCccHHHHHHHHHHHhcCCCeEEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLIN-GPEIMS------KLAGESESNLRKAFEEADKNSPSIIFI  185 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~-~~~~~~------~~~~~~~~~~~~~~~~a~~~~~~vl~l  185 (197)
                      ....++++.|++|+|||+++++++...     ...++.+. ..++.-      .+.....-....+++.+.+..|+.|++
T Consensus       146 ~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~~~~~~~~~ll~~aLR~~PD~Iiv  225 (319)
T PRK13894        146 RAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHTSIDVNMTALLKTTLRMRPDRILV  225 (319)
T ss_pred             HcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEecCCCCCHHHHHHHHhcCCCCEEEE
Confidence            346789999999999999999998763     23344332 122210      011111234667888888999999999


Q ss_pred             cccC
Q psy6208         186 DELD  189 (197)
Q Consensus       186 Deid  189 (197)
                      .|+-
T Consensus       226 GEiR  229 (319)
T PRK13894        226 GEVR  229 (319)
T ss_pred             eccC
Confidence            9985

>PRK04296 thymidine kinase; Provisional

Probab=98.19  E-value=6.9e-06  Score=62.60  Aligned_cols=71  Identities=21%  Similarity=0.280  Sum_probs=42.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech----h----hhhhccCc-cH----HHHHHHHHHH--hcCCCeEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLINGP----E----IMSKLAGE-SE----SNLRKAFEEA--DKNSPSII  183 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~----~----~~~~~~~~-~~----~~~~~~~~~a--~~~~~~vl  183 (197)
                      -.+++||+|+|||+++..++...   +..++.+...    .    +.+.+ +. ..    .....++..+  ....+++|
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~l-g~~~~~~~~~~~~~~~~~~~~~~~~~dvv   82 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRI-GLSREAIPVSSDTDIFELIEEEGEKIDCV   82 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCC-CCcccceEeCChHHHHHHHHhhCCCCCEE
Confidence            46899999999999998887765   5566655431    1    11111 10 00    0112222222  33467899


Q ss_pred             EEcccCccCc
Q psy6208         184 FIDELDAIAP  193 (197)
Q Consensus       184 ~lDeid~l~~  193 (197)
                      +|||++.|..
T Consensus        83 iIDEaq~l~~   92 (190)
T PRK04296         83 LIDEAQFLDK   92 (190)
T ss_pred             EEEccccCCH
Confidence            9999988754

>PRK10436 hypothetical protein; Provisional

Probab=98.18  E-value=7.1e-06  Score=70.58  Aligned_cols=95  Identities=22%  Similarity=0.377  Sum_probs=63.5

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEech-hhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGP-EIM  157 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~-~~~  157 (197)
                      ..++++++-.....+.+.+.+..              +...+|++||+|+|||+++.++....+   .+++.+.-+ +..
T Consensus       194 ~~~L~~LG~~~~~~~~l~~~~~~--------------~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~  259 (462)
T PRK10436        194 ALDLETLGMTPAQLAQFRQALQQ--------------PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIP  259 (462)
T ss_pred             CCCHHHcCcCHHHHHHHHHHHHh--------------cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCcccc
Confidence            35778888778888888877643              355689999999999999988777663   344444321 211


Q ss_pred             hhc-----cC-ccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         158 SKL-----AG-ESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       158 ~~~-----~~-~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                      -..     ++ .........++.+.+..|++|++.|+-.
T Consensus       260 l~gi~Q~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEIRD  298 (462)
T PRK10436        260 LAGINQTQIHPKAGLTFQRVLRALLRQDPDVIMVGEIRD  298 (462)
T ss_pred             CCCcceEeeCCccCcCHHHHHHHHhcCCCCEEEECCCCC
Confidence            110     11 1122456677778888999999999853

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=98.18  E-value=5.4e-06  Score=69.43  Aligned_cols=71  Identities=20%  Similarity=0.299  Sum_probs=47.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEech-hhhh-----------hccCccHHHHHHHHHHHhcCCCeE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGP-EIMS-----------KLAGESESNLRKAFEEADKNSPSI  182 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~-~~~~-----------~~~~~~~~~~~~~~~~a~~~~~~v  182 (197)
                      ...++++||+|+|||++++++....     +.+++.+.-+ ++.-           ..++.........++.+.+..|++
T Consensus       149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~~~~~~~~~q~evg~~~~~~~~~l~~aLR~~PD~  228 (372)
T TIGR02525       149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGSPDDLLPPAQSQIGRDVDSFANGIRLALRRAPKI  228 (372)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCCCceeecccccccCCCccCHHHHHHHhhccCCCE
Confidence            3468999999999999999998766     2345555322 2210           011222224556677788889999


Q ss_pred             EEEcccCc
Q psy6208         183 IFIDELDA  190 (197)
Q Consensus       183 l~lDeid~  190 (197)
                      |+++|+..
T Consensus       229 I~vGEiRd  236 (372)
T TIGR02525       229 IGVGEIRD  236 (372)
T ss_pred             EeeCCCCC
Confidence            99999853

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>KOG2170|consensus

Probab=98.17  E-value=6.4e-06  Score=66.13  Aligned_cols=97  Identities=19%  Similarity=0.290  Sum_probs=59.5

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CC--eEE--EEechhh----
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GA--FFF--LINGPEI----  156 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~--~~~--~v~~~~~----  156 (197)
                      +.|+.-+++.+-..+......+..      ..|-.+-++|++||||++.++.||+.+   |.  +++  ++....+    
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p------~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~  157 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNP------RKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHAS  157 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCC------CCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChH
Confidence            678877777777777765544331      233446799999999999999999876   21  211  1111111    


Q ss_pred             -hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         157 -MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       157 -~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                       ...|.   ++....+.......+.++.++||+|.|.+
T Consensus       158 ~ie~Yk---~eL~~~v~~~v~~C~rslFIFDE~DKmp~  192 (344)
T KOG2170|consen  158 KIEDYK---EELKNRVRGTVQACQRSLFIFDEVDKLPP  192 (344)
T ss_pred             HHHHHH---HHHHHHHHHHHHhcCCceEEechhhhcCH
Confidence             11111   11122333445566778999999999976

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=98.17  E-value=3.5e-06  Score=63.99  Aligned_cols=72  Identities=24%  Similarity=0.356  Sum_probs=46.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEech-hhhhh------c-------cCccHHHHHHHHHHHhcCCCe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGP-EIMSK------L-------AGESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~-~~~~~------~-------~~~~~~~~~~~~~~a~~~~~~  181 (197)
                      .....++|.||+|+|||+++++++....  ...+.+... ++...      +       .+........+++.+.+..|+
T Consensus        23 ~~g~~i~I~G~tGSGKTTll~aL~~~i~~~~~~i~ied~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lR~~pd  102 (186)
T cd01130          23 EARKNILISGGTGSGKTTLLNALLAFIPPDERIITIEDTAELQLPHPNWVRLVTRPGNVEGSGEVTMADLLRSALRMRPD  102 (186)
T ss_pred             hCCCEEEEECCCCCCHHHHHHHHHhhcCCCCCEEEECCccccCCCCCCEEEEEEecCCCCCCCccCHHHHHHHHhccCCC
Confidence            4567899999999999999999988762  223333211 11100      0       001123455667777777899


Q ss_pred             EEEEcccC
Q psy6208         182 IIFIDELD  189 (197)
Q Consensus       182 vl~lDeid  189 (197)
                      +++++|+-
T Consensus       103 ~i~igEir  110 (186)
T cd01130         103 RIIVGEVR  110 (186)
T ss_pred             EEEEEccC
Confidence            99999985

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.17  E-value=7.4e-07  Score=61.61  Aligned_cols=23  Identities=43%  Similarity=0.892  Sum_probs=20.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhC
Q psy6208         123 ILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~  145 (197)
                      |+|+|+||+|||++++.|+..+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999987763

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=98.16  E-value=7.9e-06  Score=64.19  Aligned_cols=38  Identities=21%  Similarity=0.294  Sum_probs=28.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      +.....+++.|++|+|||+++..++...   +..+++++..
T Consensus        21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e   61 (230)
T PRK08533         21 IPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQ   61 (230)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCC
Confidence            4566679999999999999986665433   5677777643

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=98.16  E-value=9.7e-06  Score=63.01  Aligned_cols=73  Identities=26%  Similarity=0.344  Sum_probs=48.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh--------CCeEEEEec-hhhhhhccCccH-------------HHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET--------GAFFFLING-PEIMSKLAGESE-------------SNLRKAFEEAD  176 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~--------~~~~~~v~~-~~~~~~~~~~~~-------------~~~~~~~~~a~  176 (197)
                      ...+.|+.||||+|||++.+-+|.-+        +..+..++- +++.....+...             ..-..+....+
T Consensus       136 g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~~gmmmaIr  215 (308)
T COG3854         136 GWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIR  215 (308)
T ss_pred             CceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHHHHHHHHHH
Confidence            34568999999999999999998765        234445543 344333322211             12234455667


Q ss_pred             cCCCeEEEEcccCcc
Q psy6208         177 KNSPSIIFIDELDAI  191 (197)
Q Consensus       177 ~~~~~vl~lDeid~l  191 (197)
                      ...|.|+++|||...
T Consensus       216 sm~PEViIvDEIGt~  230 (308)
T COG3854         216 SMSPEVIIVDEIGTE  230 (308)
T ss_pred             hcCCcEEEEeccccH
Confidence            788999999999754

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

Probab=98.16  E-value=8.8e-06  Score=58.62  Aligned_cols=35  Identities=40%  Similarity=0.756  Sum_probs=28.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      +++.|+||+||||+++.++..++  ...++...+...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~--~~~i~~D~~~~~   36 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG--AVVISQDEIRRR   36 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST--EEEEEHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC--CEEEeHHHHHHH
Confidence            68999999999999999999988  444565555443

...

>KOG1970|consensus

Probab=98.16  E-value=1.3e-05  Score=69.10  Aligned_cols=71  Identities=20%  Similarity=0.313  Sum_probs=52.6

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +-+...+-+.+++.-..+-+.+++.++... ..   +.  .-...+-+||+||+|||||+.++.++.++|..++...
T Consensus        72 W~eKy~P~t~eeLAVHkkKI~eVk~WL~~~-~~---~~--~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~  142 (634)
T KOG1970|consen   72 WVEKYKPRTLEELAVHKKKISEVKQWLKQV-AE---FT--PKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWS  142 (634)
T ss_pred             hHHhcCcccHHHHhhhHHhHHHHHHHHHHH-HH---hc--cCCCceEEEEeCCCCCCchhHHHHHHHhhCceeeeec
Confidence            345566778888888888888888888721 10   00  0123445899999999999999999999999888765

>KOG0990|consensus

Probab=98.15  E-value=4.6e-07  Score=73.08  Aligned_cols=104  Identities=18%  Similarity=0.172  Sum_probs=67.2

Q ss_pred             hHHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE------
Q psy6208          75 EEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF------  148 (197)
Q Consensus        75 ~~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~------  148 (197)
                      .+.+..++-..+++++.++....+.++...             ..-.++|+|||||+|||....+.|..+-++.      
T Consensus        30 pwvekyrP~~l~dv~~~~ei~st~~~~~~~-------------~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~   96 (360)
T KOG0990|consen   30 PWVEKYRPPFLGIVIKQEPIWSTENRYSGM-------------PGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSML   96 (360)
T ss_pred             CCccCCCCchhhhHhcCCchhhHHHHhccC-------------CCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHH
Confidence            345556677888999999999999888543             2334899999999999999999999885431      


Q ss_pred             EEEechhhhhhccCccHHHHHHHHHHHhc-------CCCeEEEEcccCccCcc
Q psy6208         149 FLINGPEIMSKLAGESESNLRKAFEEADK-------NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       149 ~~v~~~~~~~~~~~~~~~~~~~~~~~a~~-------~~~~vl~lDeid~l~~~  194 (197)
                      ..+++++-.+  ++ .-..-...|...+.       ..+.++++||+|.+...
T Consensus        97 lelnaSd~rg--id-~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~  146 (360)
T KOG0990|consen   97 LELNASDDRG--ID-PVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRD  146 (360)
T ss_pred             HHhhccCccC--Cc-chHHHHHHHHhhccceeccccCceeEEEecchhHhhHH
Confidence            1111111110  01 11122233443332       25789999999998654

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=98.15  E-value=9.1e-06  Score=63.38  Aligned_cols=39  Identities=36%  Similarity=0.558  Sum_probs=32.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      |+....-++|+|+||+|||+++..++...   +.+++++++.
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            35556668999999999999999998754   7788999887

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=98.15  E-value=3e-06  Score=73.89  Aligned_cols=63  Identities=16%  Similarity=0.332  Sum_probs=46.9

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-CCeEEEEe
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-GAFFFLIN  152 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-~~~~~~v~  152 (197)
                      --|+|+.|+++++.++.+++......      ++ ....-++|.||||+|||+|+++|++.+ ..+++.+.
T Consensus        73 ~fF~d~yGlee~ieriv~~l~~Aa~g------l~-~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~k  136 (644)
T PRK15455         73 PAFEEFYGMEEAIEQIVSYFRHAAQG------LE-EKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLK  136 (644)
T ss_pred             cchhcccCcHHHHHHHHHHHHHHHHh------cC-CCCceEEEecCCCCCchHHHHHHHHHHHhCcceeec
Confidence            35778999999999999888543221      11 234568999999999999999999887 33544443

>smart00350 MCM minichromosome maintenance proteins

Probab=98.14  E-value=1.5e-06  Score=75.87  Aligned_cols=72  Identities=24%  Similarity=0.341  Sum_probs=41.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE----echhhhhhccCc---cHHHH-HHHHHHHhcCCCeEEEEcccCcc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI----NGPEIMSKLAGE---SESNL-RKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v----~~~~~~~~~~~~---~~~~~-~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                      ..++||+|+||+|||++|+++++.+....+..    ++..+.......   .+..+ .+.+..|   ...+++|||++.+
T Consensus       236 ~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A---~~Gil~iDEi~~l  312 (509)
T smart00350      236 DINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTRDPETREFTLEGGALVLA---DNGVCCIDEFDKM  312 (509)
T ss_pred             cceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceEccCcceEEecCccEEec---CCCEEEEechhhC
Confidence            34799999999999999999999875432211    222221111000   00000 0111222   3459999999998


Q ss_pred             Ccc
Q psy6208         192 APK  194 (197)
Q Consensus       192 ~~~  194 (197)
                      .++
T Consensus       313 ~~~  315 (509)
T smart00350      313 DDS  315 (509)
T ss_pred             CHH
Confidence            765

>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=98.14  E-value=2.3e-05  Score=63.02  Aligned_cols=89  Identities=19%  Similarity=0.266  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHH--hCC---eEEEEechhh----------
Q psy6208          92 RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGA---FFFLINGPEI----------  156 (197)
Q Consensus        92 ~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~--~~~---~~~~v~~~~~----------  156 (197)
                      +..+++|.+.+...           ......+.|+|++|+|||+||..+++.  ...   .+++++...-          
T Consensus         2 e~~~~~l~~~L~~~-----------~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i   70 (287)
T PF00931_consen    2 EKEIEKLKDWLLDN-----------SNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQI   70 (287)
T ss_dssp             HHHHHHHHHHHHTT-----------TTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHH
T ss_pred             HHHHHHHHHHhhCC-----------CCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccc
Confidence            44566666666542           134556899999999999999999977  322   2344443221          


Q ss_pred             hhhc--------cCccHHHHHHHHHHHhcCCCeEEEEcccCcc
Q psy6208         157 MSKL--------AGESESNLRKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       157 ~~~~--------~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                      ...+        ...........+.......+++|+||+++..
T Consensus        71 ~~~l~~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~  113 (287)
T PF00931_consen   71 LRQLGEPDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE  113 (287)
T ss_dssp             HHHHTCC-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH
T ss_pred             cccccccccccccccccccccccchhhhccccceeeeeeeccc
Confidence            1111        1112233344444444556999999998753

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.14  E-value=4.8e-06  Score=58.87  Aligned_cols=53  Identities=21%  Similarity=0.347  Sum_probs=40.6

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.+.|+.-+.+.+.+++...+..+.      -..+--+.|+|+||||||++++.||+.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~------p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPN------PRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCC------CCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            3589999999988888887655432      1223335699999999999999999986

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PRK00131 aroK shikimate kinase; Reviewed

Probab=98.13  E-value=3.3e-06  Score=62.80  Aligned_cols=34  Identities=32%  Similarity=0.409  Sum_probs=29.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ++..|+|+|+||||||++++++++.++.+++..+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d   36 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD   36 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            4567999999999999999999999998777543

>KOG1942|consensus

Probab=98.12  E-value=6.5e-06  Score=66.10  Aligned_cols=83  Identities=31%  Similarity=0.418  Sum_probs=54.6

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechhhhhhcc
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLA  161 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~~~~~~~  161 (197)
                      .-..++|+.++.+..--.+... +..       --..+.+||.||||||||.||-++++++|  .||..+.+++..+.-+
T Consensus        36 ~~~g~vGQ~~AReAagiivdli-k~K-------kmaGravLlaGppgtGKTAlAlaisqELG~kvPFcpmvgSEvyS~Ev  107 (456)
T KOG1942|consen   36 VAAGFVGQENAREAAGIIVDLI-KSK-------KMAGRAVLLAGPPGTGKTALALAISQELGPKVPFCPMVGSEVYSNEV  107 (456)
T ss_pred             cccccccchhhhhhhhHHHHHH-Hhh-------hccCcEEEEecCCCCchhHHHHHHHHHhCCCCCcccccchhhhhhhh
Confidence            3356888888777654333321 110       12466899999999999999999999995  5777777777766544


Q ss_pred             CccHHHHHHHHHHH
Q psy6208         162 GESESNLRKAFEEA  175 (197)
Q Consensus       162 ~~~~~~~~~~~~~a  175 (197)
                      ...+ -+.+.|+++
T Consensus       108 KKTE-vLmenfRRa  120 (456)
T KOG1942|consen  108 KKTE-VLMENFRRA  120 (456)
T ss_pred             hHHH-HHHHHHHHH
Confidence            3332 334444443

>PHA02624 large T antigen; Provisional

Probab=98.12  E-value=1.3e-05  Score=70.25  Aligned_cols=40  Identities=33%  Similarity=0.404  Sum_probs=34.2

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      +++..+.++|+||+|||||+++.+|++.++..++.++++.
T Consensus       427 giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt  466 (647)
T PHA02624        427 NVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPP  466 (647)
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCc
Confidence            4566678999999999999999999999977777787654

>KOG2227|consensus

Probab=98.12  E-value=3.2e-05  Score=65.55  Aligned_cols=109  Identities=19%  Similarity=0.335  Sum_probs=72.7

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----CC-eEEEEec
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----GA-FFFLING  153 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----~~-~~~~v~~  153 (197)
                      ......-..+.|.+..+..+++++..++.         ...++.+++.|.||+|||.+..-+....    .. ..++++|
T Consensus       143 l~~t~~p~~l~gRe~e~~~v~~F~~~hle---------~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc  213 (529)
T KOG2227|consen  143 LLNTAPPGTLKGRELEMDIVREFFSLHLE---------LNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINC  213 (529)
T ss_pred             HHhcCCCCCccchHHHHHHHHHHHHhhhh---------cccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEee
Confidence            33445566799999999999999987644         3567789999999999999999775554    22 3488888


Q ss_pred             hhhhh----------hc----cCc-cHHHHHHHHHHH-hcC-CCeEEEEcccCccCcccC
Q psy6208         154 PEIMS----------KL----AGE-SESNLRKAFEEA-DKN-SPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       154 ~~~~~----------~~----~~~-~~~~~~~~~~~a-~~~-~~~vl~lDeid~l~~~r~  196 (197)
                      ..+..          .+    .+. .+......|+.- ... .+-++++||+|.|..+++
T Consensus       214 ~sl~~~~aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~  273 (529)
T KOG2227|consen  214 TSLTEASAIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQ  273 (529)
T ss_pred             ccccchHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhccc
Confidence            75421          11    111 112223333332 222 367999999999986554

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=98.12  E-value=9.1e-06  Score=63.82  Aligned_cols=39  Identities=28%  Similarity=0.514  Sum_probs=31.7

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      |+..+..++++|+||+|||+++.+++...   +.++++++..
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e   62 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTE   62 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcC
Confidence            45677789999999999999999996543   6788888754

>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=98.10  E-value=5.1e-06  Score=69.35  Aligned_cols=73  Identities=22%  Similarity=0.400  Sum_probs=43.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC-eEEEEechhhhhhccCc------cHHHHHHHHHHHhcCCCeEEEEcccC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA-FFFLINGPEIMSKLAGE------SESNLRKAFEEADKNSPSIIFIDELD  189 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~-~~~~v~~~~~~~~~~~~------~~~~~~~~~~~a~~~~~~vl~lDeid  189 (197)
                      ...++|++|||++|+|||+|+..+.+.+.. .-..++-.+++......      ....+..+.+... ....+|++||++
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l~-~~~~lLcfDEF~  137 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADELA-KESRLLCFDEFQ  137 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHHH-hcCCEEEEeeee
Confidence            457899999999999999999999888743 22222222332211100      1112222322222 234699999987


Q ss_pred             c
Q psy6208         190 A  190 (197)
Q Consensus       190 ~  190 (197)
                      -
T Consensus       138 V  138 (362)
T PF03969_consen  138 V  138 (362)
T ss_pred             c
Confidence            4

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

>PRK13764 ATPase; Provisional

Probab=98.10  E-value=7.4e-06  Score=72.30  Aligned_cols=71  Identities=21%  Similarity=0.365  Sum_probs=43.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEe-chhh-----hhhccCccHHHHHHHHHHHhcCCCeEEEEcccC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG---AFFFLIN-GPEI-----MSKLAGESESNLRKAFEEADKNSPSIIFIDELD  189 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~-~~~~-----~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid  189 (197)
                      ...+++++||||+||||++++++..+.   ..+..+. ..++     ...+. ............+.+..|+++++||+.
T Consensus       256 ~~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~i~q~~-~~~~~~~~~~~~lLR~rPD~IivGEiR  334 (602)
T PRK13764        256 RAEGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPEITQYS-KLEGSMEETADILLLVRPDYTIYDEMR  334 (602)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCcceEEe-eccccHHHHHHHHHhhCCCEEEECCCC
Confidence            356799999999999999999998773   3333432 1122     11111 000111222233346679999999985


Q ss_pred             c
Q psy6208         190 A  190 (197)
Q Consensus       190 ~  190 (197)
                      .
T Consensus       335 d  335 (602)
T PRK13764        335 K  335 (602)
T ss_pred             C
Confidence            3

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=98.09  E-value=1.5e-05  Score=70.44  Aligned_cols=94  Identities=23%  Similarity=0.301  Sum_probs=62.0

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEech-hhhh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGP-EIMS  158 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~-~~~~  158 (197)
                      .++++++-.....+.+.+++..              +...++++||+|+|||+++.++.+.++   .+++.+.-+ +..-
T Consensus       293 ~~l~~lg~~~~~~~~l~~~~~~--------------~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~  358 (564)
T TIGR02538       293 LDIDKLGFEPDQKALFLEAIHK--------------PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINL  358 (564)
T ss_pred             CCHHHcCCCHHHHHHHHHHHHh--------------cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecC
Confidence            4667888777777777776643              345689999999999999988877764   334443221 1110


Q ss_pred             ----h-ccC-ccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         159 ----K-LAG-ESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       159 ----~-~~~-~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                          . .+. .........++.+.+..|++|++.|+..
T Consensus       359 ~~~~q~~v~~~~g~~~~~~l~~~LR~dPDvI~vGEiRd  396 (564)
T TIGR02538       359 PGINQVNVNPKIGLTFAAALRSFLRQDPDIIMVGEIRD  396 (564)
T ss_pred             CCceEEEeccccCCCHHHHHHHHhccCCCEEEeCCCCC
Confidence                0 011 1112456667778888999999999864

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.09  E-value=6.3e-06  Score=68.05  Aligned_cols=73  Identities=22%  Similarity=0.326  Sum_probs=46.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCe------------------------EEEEechhhhhhccCccHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAF------------------------FFLINGPEIMSKLAGESESNLRKAFE  173 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~------------------------~~~v~~~~~~~~~~~~~~~~~~~~~~  173 (197)
                      +.+..+||+||+|+||+++|+++|+.+.+.                        ++.+....- +.  .-.-..++++.+
T Consensus        20 r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~-~~--~i~id~iR~l~~   96 (328)
T PRK05707         20 RHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA-DK--TIKVDQVRELVS   96 (328)
T ss_pred             CcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC-CC--CCCHHHHHHHHH
Confidence            346679999999999999999999988442                        111111000 00  012245555554


Q ss_pred             HHh----cCCCeEEEEcccCccCc
Q psy6208         174 EAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       174 ~a~----~~~~~vl~lDeid~l~~  193 (197)
                      .+.    .+...|++||++|.|..
T Consensus        97 ~~~~~~~~~~~kv~iI~~a~~m~~  120 (328)
T PRK05707         97 FVVQTAQLGGRKVVLIEPAEAMNR  120 (328)
T ss_pred             HHhhccccCCCeEEEECChhhCCH
Confidence            443    34567999999999865

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.08  E-value=8.3e-06  Score=69.72  Aligned_cols=75  Identities=27%  Similarity=0.442  Sum_probs=50.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc-----cCccHHH-------HHHHHHHHhcCCCeE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL-----AGESESN-------LRKAFEEADKNSPSI  182 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~-----~~~~~~~-------~~~~~~~a~~~~~~v  182 (197)
                      .....++++|++|+||++++++++...   +.+|+.++|..+....     .|.....       ..+.+..   ....+
T Consensus       160 ~~~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~---a~~gt  236 (441)
T PRK10365        160 PSEATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVE---ADGGT  236 (441)
T ss_pred             CCCCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHHHHHhcCCCCCCcCCCCcCCCCceeE---CCCCE
Confidence            345679999999999999999999776   4689999998663221     1111000       0011122   23568


Q ss_pred             EEEcccCccCccc
Q psy6208         183 IFIDELDAIAPKR  195 (197)
Q Consensus       183 l~lDeid~l~~~r  195 (197)
                      ||||||+.|++..
T Consensus       237 l~ldei~~l~~~~  249 (441)
T PRK10365        237 LFLDEIGDISPMM  249 (441)
T ss_pred             EEEeccccCCHHH
Confidence            9999999998753

>PF05729 NACHT: NACHT domain

Probab=98.08  E-value=8.2e-06  Score=59.88  Aligned_cols=73  Identities=23%  Similarity=0.396  Sum_probs=43.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh------C---CeEEEEechhhhhhcc------------CccHHHHHH-HHHHHhcCC
Q psy6208         122 GILLYGPPGTGKTLIARAVANET------G---AFFFLINGPEIMSKLA------------GESESNLRK-AFEEADKNS  179 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~------~---~~~~~v~~~~~~~~~~------------~~~~~~~~~-~~~~a~~~~  179 (197)
                      -++|+|++|+|||++++.++..+      .   ..++++.+.+......            ......... .........
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            47899999999999999998776      1   1233444433322110            001111111 112233455


Q ss_pred             CeEEEEcccCccCcc
Q psy6208         180 PSIIFIDELDAIAPK  194 (197)
Q Consensus       180 ~~vl~lDeid~l~~~  194 (197)
                      ..+|+||.+|.+...
T Consensus        82 ~~llilDglDE~~~~   96 (166)
T PF05729_consen   82 RVLLILDGLDELEEQ   96 (166)
T ss_pred             ceEEEEechHhcccc
Confidence            679999999998874

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

Probab=98.08  E-value=9.5e-06  Score=64.43  Aligned_cols=30  Identities=27%  Similarity=0.436  Sum_probs=25.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +..+..++|.||+|+|||++++.+++....
T Consensus        13 i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          13 IGKGQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            345677999999999999999999987743

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.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=98.07  E-value=7.3e-06  Score=67.96  Aligned_cols=73  Identities=23%  Similarity=0.376  Sum_probs=48.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEe-chhhhhh------c------cCccHHHHHHHHHHHhcCCCe
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLIN-GPEIMSK------L------AGESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~-~~~~~~~------~------~~~~~~~~~~~~~~a~~~~~~  181 (197)
                      +....++++.|++|+|||++++++.....  ..++.+. ..++.-.      +      .+...-....+++.+.+..|+
T Consensus       159 v~~~~nilI~G~tGSGKTTll~aLl~~i~~~~rivtiEd~~El~l~~~~~v~l~~~~~~~~~~~~t~~~ll~~~LR~~pD  238 (344)
T PRK13851        159 VVGRLTMLLCGPTGSGKTTMSKTLISAIPPQERLITIEDTLELVIPHENHVRLLYSKNGAGLGAVTAEHLLQASLRMRPD  238 (344)
T ss_pred             HHcCCeEEEECCCCccHHHHHHHHHcccCCCCCEEEECCCccccCCCCCEEEEEeeccccCcCccCHHHHHHHHhcCCCC
Confidence            45677899999999999999999998763  2333332 1122100      0      011122355677888888999


Q ss_pred             EEEEcccC
Q psy6208         182 IIFIDELD  189 (197)
Q Consensus       182 vl~lDeid  189 (197)
                      .|++.|+-
T Consensus       239 ~IivGEiR  246 (344)
T PRK13851        239 RILLGEMR  246 (344)
T ss_pred             eEEEEeeC
Confidence            99999975

>PRK06762 hypothetical protein; Provisional

Probab=98.07  E-value=2.4e-05  Score=57.99  Aligned_cols=38  Identities=26%  Similarity=0.397  Sum_probs=31.1

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      .-++|.|+||+|||++|+.+++.++..+..++...+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~~D~~r~   40 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLVSQDVVRR   40 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEEecHHHHHH
Confidence            45889999999999999999999866676777665544

>KOG1514|consensus

Probab=98.07  E-value=1.7e-05  Score=70.07  Aligned_cols=103  Identities=25%  Similarity=0.386  Sum_probs=65.1

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEEechh
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLINGPE  155 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v~~~~  155 (197)
                      +.+...+....+|..++...+..        ......++|+|-||||||++++.+-..+          ...++++|+-.
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~--------~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~  467 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISD--------QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLR  467 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCC--------CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEccee
Confidence            45677777777777777665332        0223468999999999999999987754          34677788644


Q ss_pred             hhh----------hccCccH------HHHHHHHHHH-hcCCCeEEEEcccCccCcccC
Q psy6208         156 IMS----------KLAGESE------SNLRKAFEEA-DKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       156 ~~~----------~~~~~~~------~~~~~~~~~a-~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+          .+.++.-      ..+..-|... ....++||+|||+|.|..++|
T Consensus       468 l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~Q  525 (767)
T KOG1514|consen  468 LASPREIYEKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQ  525 (767)
T ss_pred             ecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccH
Confidence            432          2222211      1122222210 124578999999999998765

>KOG3347|consensus

Probab=98.06  E-value=4.5e-06  Score=60.45  Aligned_cols=34  Identities=38%  Similarity=0.617  Sum_probs=29.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..++||++|-||+|||+++.++|..++.+++.++
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            3568999999999999999999999998876654

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.05  E-value=2.5e-06  Score=66.36  Aligned_cols=22  Identities=45%  Similarity=0.794  Sum_probs=20.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala  141 (197)
                      +..+||||+||+|||++|+.++
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            5569999999999999999986

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=98.05  E-value=1.3e-05  Score=65.67  Aligned_cols=74  Identities=22%  Similarity=0.372  Sum_probs=48.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEe-chhhhhh------cc------CccHHHHHHHHHHHhcCCCe
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLIN-GPEIMSK------LA------GESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~-~~~~~~~------~~------~~~~~~~~~~~~~a~~~~~~  181 (197)
                      +....++++.|++|+|||+++++++....  ...+.+. ..++.-.      +.      +...-....++..+.+..|+
T Consensus       141 v~~~~~ili~G~tGsGKTTll~al~~~~~~~~~iv~ied~~El~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~pd  220 (308)
T TIGR02788       141 IASRKNIIISGGTGSGKTTFLKSLVDEIPKDERIITIEDTREIFLPHPNYVHLFYSKGGQGLAKVTPKDLLQSCLRMRPD  220 (308)
T ss_pred             hhCCCEEEEECCCCCCHHHHHHHHHccCCccccEEEEcCccccCCCCCCEEEEEecCCCCCcCccCHHHHHHHHhcCCCC
Confidence            45677899999999999999999987762  2233332 1121100      00      11112345677777788999


Q ss_pred             EEEEcccCc
Q psy6208         182 IIFIDELDA  190 (197)
Q Consensus       182 vl~lDeid~  190 (197)
                      +|++||+-.
T Consensus       221 ~ii~gE~r~  229 (308)
T TIGR02788       221 RIILGELRG  229 (308)
T ss_pred             eEEEeccCC
Confidence            999999853

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.04  E-value=3.5e-06  Score=73.01  Aligned_cols=46  Identities=28%  Similarity=0.458  Sum_probs=34.0

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.++.|+...++.+.-.               +....+++|.||+|+|||++++.++..+
T Consensus       189 d~~~v~Gq~~~~~al~la---------------a~~G~~llliG~~GsGKTtLak~L~gll  234 (506)
T PRK09862        189 DLSDVIGQEQGKRGLEIT---------------AAGGHNLLLIGPPGTGKTMLASRINGLL  234 (506)
T ss_pred             CeEEEECcHHHHhhhhee---------------ccCCcEEEEECCCCCcHHHHHHHHhccC
Confidence            566777776655543211               2456789999999999999999998754

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.03  E-value=7.1e-05  Score=57.33  Aligned_cols=34  Identities=35%  Similarity=0.478  Sum_probs=25.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      .+..++.|++|||||++++.+...+   +..++.+..
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~ap   54 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAP   54 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEES
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECC
Confidence            4567889999999999999987655   556666654

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.03  E-value=2.8e-06  Score=74.03  Aligned_cols=73  Identities=29%  Similarity=0.468  Sum_probs=52.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh--CCeEEEEechhhhhhc-----cCccH--------HHHHHHHHHHhcCCCeE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET--GAFFFLINGPEIMSKL-----AGESE--------SNLRKAFEEADKNSPSI  182 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~--~~~~~~v~~~~~~~~~-----~~~~~--------~~~~~~~~~a~~~~~~v  182 (197)
                      .....+++.|+|||||..+++++++..  ..+|+.+||..+....     +|...        +..+..++.+..   ..
T Consensus       334 ~~~~pvll~GEtGtGKe~laraiH~~s~~~gpfvAvNCaAip~~liesELFGy~~GafTga~~kG~~g~~~~A~g---Gt  410 (606)
T COG3284         334 ATDLPVLLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESELFGYVAGAFTGARRKGYKGKLEQADG---GT  410 (606)
T ss_pred             hcCCCeEecCCcchhHHHHHHHHHhcccccCCeEEEEeccchHHhhhHHHhccCccccccchhccccccceecCC---Cc
Confidence            445679999999999999999999887  4589999998776443     22222        222333344433   36


Q ss_pred             EEEcccCccCc
Q psy6208         183 IFIDELDAIAP  193 (197)
Q Consensus       183 l~lDeid~l~~  193 (197)
                      +|+|||+.|+-
T Consensus       411 lFldeIgd~p~  421 (606)
T COG3284         411 LFLDEIGDMPL  421 (606)
T ss_pred             cHHHHhhhchH
Confidence            99999998864

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.02  E-value=1.4e-05  Score=66.97  Aligned_cols=27  Identities=30%  Similarity=0.487  Sum_probs=23.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+...+|.||+|+|||+|++.+++..
T Consensus       167 GkGQR~lIvgppGvGKTTLaK~Ian~I  193 (416)
T PRK09376        167 GKGQRGLIVAPPKAGKTVLLQNIANSI  193 (416)
T ss_pred             ccCceEEEeCCCCCChhHHHHHHHHHH
Confidence            345568999999999999999999876

>PRK09354 recA recombinase A; Provisional

Probab=98.01  E-value=2.4e-05  Score=64.76  Aligned_cols=77  Identities=25%  Similarity=0.380  Sum_probs=51.0

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEechhhhhh------------c----cCccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMSK------------L----AGESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~~~~~------------~----~~~~~~~~~~~~~~a~~  177 (197)
                      +....-+.|+||+|+|||+|+..++..   .+..+++++..+-...            +    ....+..+..+-...+.
T Consensus        57 ip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s  136 (349)
T PRK09354         57 LPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRS  136 (349)
T ss_pred             CcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhc
Confidence            555666899999999999999987644   3778888887542211            0    11122222222223345


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ..+++|+||-+..|.+
T Consensus       137 ~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        137 GAVDLIVVDSVAALVP  152 (349)
T ss_pred             CCCCEEEEeChhhhcc
Confidence            6789999999998876

>PRK03839 putative kinase; Provisional

Probab=98.01  E-value=6e-06  Score=62.18  Aligned_cols=31  Identities=29%  Similarity=0.504  Sum_probs=27.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|+|.|+||+||||+++.+|+.++.+++.++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            4899999999999999999999998887654

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.01  E-value=6e-06  Score=73.21  Aligned_cols=73  Identities=23%  Similarity=0.327  Sum_probs=47.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCC--eEEEEechhhhhhccCccH--HHHH--------HHHHHHhcCCCeEEEEcc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGA--FFFLINGPEIMSKLAGESE--SNLR--------KAFEEADKNSPSIIFIDE  187 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~--~~~~v~~~~~~~~~~~~~~--~~~~--------~~~~~a~~~~~~vl~lDe  187 (197)
                      -.+|||.|++|||||+++++++..++.  +|+.+........++|...  ..+.        +.+..+   ...+|||||
T Consensus        16 ~g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A---~~GvL~lDE   92 (589)
T TIGR02031        16 LGGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEA---PRGVLYVDM   92 (589)
T ss_pred             cceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeC---CCCcEeccc
Confidence            357999999999999999999998754  5887775433334444321  0000        011111   235899999


Q ss_pred             cCccCccc
Q psy6208         188 LDAIAPKR  195 (197)
Q Consensus       188 id~l~~~r  195 (197)
                      ++.+.++-
T Consensus        93 i~rl~~~~  100 (589)
T TIGR02031        93 ANLLDDGL  100 (589)
T ss_pred             hhhCCHHH
Confidence            99998753

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>PRK13947 shikimate kinase; Provisional

Probab=97.99  E-value=7.4e-06  Score=61.02  Aligned_cols=31  Identities=35%  Similarity=0.421  Sum_probs=28.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +|+|.|+||+|||++++.+|+.++.+++..+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d   33 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTD   33 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            5999999999999999999999999886654

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.99  E-value=1.2e-05  Score=67.01  Aligned_cols=23  Identities=48%  Similarity=0.640  Sum_probs=21.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -+++.|.||||||.+|-.++..+
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHh
Confidence            47899999999999999999887

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK10536 hypothetical protein; Provisional

Probab=97.99  E-value=6.4e-05  Score=59.70  Aligned_cols=23  Identities=43%  Similarity=0.508  Sum_probs=20.9

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+++.||+|||||+||.+++.+
T Consensus        75 ~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         75 QLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999874

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.99  E-value=2.1e-05  Score=58.38  Aligned_cols=28  Identities=32%  Similarity=0.491  Sum_probs=24.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|+||+|||||+|.+++|...
T Consensus        26 v~~Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          26 VRAGEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             ecCCceEEEeCCCCccHHHHHHHHHhcc
Confidence            4566679999999999999999998754

>TIGR00416 sms DNA repair protein RadA

Probab=97.98  E-value=1.8e-05  Score=68.06  Aligned_cols=78  Identities=26%  Similarity=0.449  Sum_probs=52.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc------cCc--------cHHHHHHHHHHHhcC
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL------AGE--------SESNLRKAFEEADKN  178 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~------~~~--------~~~~~~~~~~~a~~~  178 (197)
                      |+.+..-++|.|+||+|||+|+..++...   +.+++|++..+-..+.      .+-        .+..+..+.+.....
T Consensus        90 Gi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~  169 (454)
T TIGR00416        90 GIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEE  169 (454)
T ss_pred             CccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhc
Confidence            35667779999999999999999997655   4578888865432211      010        011234444455556


Q ss_pred             CCeEEEEcccCccCc
Q psy6208         179 SPSIIFIDELDAIAP  193 (197)
Q Consensus       179 ~~~vl~lDeid~l~~  193 (197)
                      .|++++||.+..+..
T Consensus       170 ~~~~vVIDSIq~l~~  184 (454)
T TIGR00416       170 NPQACVIDSIQTLYS  184 (454)
T ss_pred             CCcEEEEecchhhcc
Confidence            799999999988753

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.97  E-value=2.2e-05  Score=55.26  Aligned_cols=23  Identities=43%  Similarity=0.530  Sum_probs=20.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ++++.||+|+|||+++..++...
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~   24 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILEL   24 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHH
Confidence            68999999999999888876665

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK00625 shikimate kinase; Provisional

Probab=97.96  E-value=9.1e-06  Score=61.05  Aligned_cols=31  Identities=35%  Similarity=0.462  Sum_probs=28.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +|+|.|.||+|||++++.+++.++.+++.++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            5899999999999999999999998887765

>PRK06217 hypothetical protein; Validated

Probab=97.95  E-value=9.5e-06  Score=61.36  Aligned_cols=31  Identities=23%  Similarity=0.320  Sum_probs=28.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|+|.|.||+|||++++++++.++.+++..+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D   33 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTD   33 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence            4899999999999999999999998877655

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.95  E-value=4.8e-05  Score=59.98  Aligned_cols=39  Identities=26%  Similarity=0.388  Sum_probs=30.7

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~  154 (197)
                      |+.++..++++|+||+|||+++..++.+   .|.++++++..
T Consensus        17 G~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e   58 (237)
T TIGR03877        17 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE   58 (237)
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee
Confidence            4677788999999999999999877554   26677777643

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.95  E-value=3.6e-05  Score=59.11  Aligned_cols=24  Identities=29%  Similarity=0.490  Sum_probs=20.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....++|.||+|+|||++++.++.
T Consensus        24 ~g~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          24 KKNGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHH
Confidence            345689999999999999999974

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.95  E-value=3.9e-05  Score=63.15  Aligned_cols=28  Identities=21%  Similarity=0.221  Sum_probs=24.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .-+..+||+||+|+||+++|+++|+.+.
T Consensus        22 rl~HA~Lf~G~~G~GK~~lA~~~A~~ll   49 (325)
T PRK06871         22 LGHHALLFKADSGLGTEQLIRALAQWLM   49 (325)
T ss_pred             CcceeEEeECCCCCCHHHHHHHHHHHHc
Confidence            4466899999999999999999998873

>PHA02774 E1; Provisional

Probab=97.94  E-value=3.4e-05  Score=67.46  Aligned_cols=37  Identities=22%  Similarity=0.521  Sum_probs=29.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC-eEEEEec
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA-FFFLING  153 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~-~~~~v~~  153 (197)
                      .+..++++|+||||||||+++.+|++.++. .+.++|.
T Consensus       431 ~PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~  468 (613)
T PHA02774        431 IPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNS  468 (613)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEEC
Confidence            444568999999999999999999999854 4455664

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.94  E-value=1.1e-05  Score=58.88  Aligned_cols=31  Identities=35%  Similarity=0.538  Sum_probs=27.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +|+|+|+||+|||++++.++..++.+++..+
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            4899999999999999999999998876544

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.93  E-value=2e-05  Score=63.29  Aligned_cols=69  Identities=23%  Similarity=0.319  Sum_probs=42.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC----------CeEEEEe-chhhhhhcc-------Cc------cHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG----------AFFFLIN-GPEIMSKLA-------GE------SESNLRKAFEEAD  176 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~----------~~~~~v~-~~~~~~~~~-------~~------~~~~~~~~~~~a~  176 (197)
                      .+++|.||+|+|||+++++++..+.          ..+..++ ..++.....       +.      .......++...+
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~~~~i~  191 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGMMMLIR  191 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhcccccccccccccccccchHHHHHHHHHH
Confidence            5899999999999999999998762          1222222 123321110       00      0112234455555


Q ss_pred             cCCCeEEEEcccC
Q psy6208         177 KNSPSIIFIDELD  189 (197)
Q Consensus       177 ~~~~~vl~lDeid  189 (197)
                      ...|+++++||+.
T Consensus       192 ~~~P~villDE~~  204 (270)
T TIGR02858       192 SMSPDVIVVDEIG  204 (270)
T ss_pred             hCCCCEEEEeCCC
Confidence            5789999999964

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.91  E-value=1.2e-05  Score=60.47  Aligned_cols=29  Identities=21%  Similarity=0.421  Sum_probs=25.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      |+|.|+||+|||++++.++..++...+..
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~is~   30 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHLSA   30 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            68999999999999999999998655443

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.91  E-value=0.00012  Score=59.25  Aligned_cols=67  Identities=28%  Similarity=0.352  Sum_probs=42.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh----C-CeEEEEechhhh-------hh---------ccCccHHHHHHHHHHHhcC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET----G-AFFFLINGPEIM-------SK---------LAGESESNLRKAFEEADKN  178 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~----~-~~~~~v~~~~~~-------~~---------~~~~~~~~~~~~~~~a~~~  178 (197)
                      +..++|.||+|+||||++..++..+    + ..+..+++....       ..         ........+...++...  
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~--  271 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLR--  271 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHcc--
Confidence            4468899999999999999998755    3 566667654321       00         01122334444444442  


Q ss_pred             CCeEEEEccc
Q psy6208         179 SPSIIFIDEL  188 (197)
Q Consensus       179 ~~~vl~lDei  188 (197)
                      ..++|+||..
T Consensus       272 ~~d~vliDt~  281 (282)
T TIGR03499       272 DKDLILIDTA  281 (282)
T ss_pred             CCCEEEEeCC
Confidence            3689999975

>cd01394 radB RadB

Probab=97.90  E-value=3.9e-05  Score=59.51  Aligned_cols=39  Identities=46%  Similarity=0.599  Sum_probs=31.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      |+....-++|+|+||+|||+++..++...   +.++++++..
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e   56 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTE   56 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECC
Confidence            35556668999999999999999998765   5688888654

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK14532 adenylate kinase; Provisional

Probab=97.90  E-value=1.3e-05  Score=60.68  Aligned_cols=30  Identities=30%  Similarity=0.633  Sum_probs=26.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|+||+|||++++.+|+..+..++..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is~   31 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLST   31 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEeC
Confidence            489999999999999999999998766544

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=97.89  E-value=1.4e-05  Score=64.40  Aligned_cols=28  Identities=36%  Similarity=0.555  Sum_probs=23.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ....++||.||+|||||.+++.+-..+.
T Consensus        31 ~~~~pvLl~G~~GtGKT~li~~~l~~l~   58 (272)
T PF12775_consen   31 SNGRPVLLVGPSGTGKTSLIQNFLSSLD   58 (272)
T ss_dssp             HCTEEEEEESSTTSSHHHHHHHHHHCST
T ss_pred             HcCCcEEEECCCCCchhHHHHhhhccCC
Confidence            3467899999999999999998776653

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

Probab=97.88  E-value=2e-05  Score=59.52  Aligned_cols=27  Identities=41%  Similarity=0.774  Sum_probs=23.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      .|+|.||||+||||+|+.|++.++.+-
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~h   28 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPH   28 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcE
Confidence            489999999999999999999965543

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.88  E-value=5.5e-05  Score=62.66  Aligned_cols=28  Identities=18%  Similarity=0.280  Sum_probs=24.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +.+..+||+||+|+||+++|.++|+.+-
T Consensus        22 rl~HA~Lf~G~~G~Gk~~lA~~~A~~Ll   49 (334)
T PRK07993         22 RGHHALLIQALPGMGDDALIYALSRWLM   49 (334)
T ss_pred             CcceEEeeECCCCCCHHHHHHHHHHHHc
Confidence            4567899999999999999999998873

>PLN03210 Resistant to P

Probab=97.88  E-value=4.7e-05  Score=72.65  Aligned_cols=52  Identities=27%  Similarity=0.489  Sum_probs=40.1

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ..+++++|.+..++++...+...           ....+-+-|+|++|+||||||+++++...
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~-----------~~~~~vvgI~G~gGiGKTTLA~~l~~~l~  232 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLE-----------SEEVRMVGIWGSSGIGKTTIARALFSRLS  232 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccc-----------cCceEEEEEEcCCCCchHHHHHHHHHHHh
Confidence            45667888888888887776421           23445688999999999999999988763

syringae 6; Provisional

>PRK13949 shikimate kinase; Provisional

Probab=97.87  E-value=1.4e-05  Score=59.77  Aligned_cols=31  Identities=39%  Similarity=0.581  Sum_probs=28.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|+|.|+||+|||++++.+|+.++.+++..+
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            5899999999999999999999998887766

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.87  E-value=1.5e-05  Score=59.77  Aligned_cols=34  Identities=29%  Similarity=0.352  Sum_probs=28.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      .-|+|.|+||+|||+++++++..++.+++.++..
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~~D   36 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFGVD   36 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCccccCcc
Confidence            4689999999999999999999987766655443

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=97.86  E-value=4.6e-05  Score=63.67  Aligned_cols=72  Identities=18%  Similarity=0.299  Sum_probs=45.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC------CeEEEEech-hhhhh-------c-----cCccHHHHHHHHHHHhcCC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG------AFFFLINGP-EIMSK-------L-----AGESESNLRKAFEEADKNS  179 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~------~~~~~v~~~-~~~~~-------~-----~~~~~~~~~~~~~~a~~~~  179 (197)
                      +...++++||+|+|||+++++++....      ..++.+.-+ ++.-.       .     .+.........++.+.+..
T Consensus       133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~~~~~~~~~~~v~Q~~v~~~~~~~~~~l~~aLR~~  212 (358)
T TIGR02524       133 QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFVYDEIETISASVCQSEIPRHLNNFAAGVRNALRRK  212 (358)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEeccccccccceeeeeeccccccCHHHHHHHHhccC
Confidence            355699999999999999999987761      234333211 11100       0     0111123445566677778


Q ss_pred             CeEEEEcccCc
Q psy6208         180 PSIIFIDELDA  190 (197)
Q Consensus       180 ~~vl~lDeid~  190 (197)
                      |+++++.|+..
T Consensus       213 Pd~i~vGEiRd  223 (358)
T TIGR02524       213 PHAILVGEARD  223 (358)
T ss_pred             CCEEeeeeeCC
Confidence            99999999753

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.86  E-value=0.00014  Score=62.16  Aligned_cols=73  Identities=26%  Similarity=0.345  Sum_probs=46.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh-----------h----ccCc-----cHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS-----------K----LAGE-----SESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~-----------~----~~~~-----~~~~~~~~~~~a  175 (197)
                      .+..++++|++|+|||+++..+|..+   +.++..+++.....           .    ....     ....+...++.+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~  173 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF  173 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence            46678999999999999999998776   56666666543211           0    1111     111233444444


Q ss_pred             hcCCCeEEEEcccCccCc
Q psy6208         176 DKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l~~  193 (197)
                      ..  .++|+||....+..
T Consensus       174 ~~--~DvVIIDTAGr~~~  189 (437)
T PRK00771        174 KK--ADVIIVDTAGRHAL  189 (437)
T ss_pred             hc--CCEEEEECCCcccc
Confidence            33  38999999877653

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.86  E-value=1.7e-05  Score=57.79  Aligned_cols=28  Identities=36%  Similarity=0.629  Sum_probs=24.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ++|.|+||+|||++++.+++.++..++.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~   29 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFID   29 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEe
Confidence            6899999999999999999998876654

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

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.86  E-value=5e-05  Score=55.22  Aligned_cols=71  Identities=23%  Similarity=0.367  Sum_probs=41.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC--eEEEEechh---hhhhccCccHHHHHHHHHHHhcCCCeEEEEcccC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA--FFFLINGPE---IMSKLAGESESNLRKAFEEADKNSPSIIFIDELD  189 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~--~~~~v~~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid  189 (197)
                      +.++..+.|.|++|+|||+|+++++.....  --+.++...   +...+. ..+ ..+-.+..+...+|.++++||-.
T Consensus        23 ~~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~~lS-~G~-~~rv~laral~~~p~illlDEP~   98 (144)
T cd03221          23 INPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQLS-GGE-KMRLALAKLLLENPNLLLLDEPT   98 (144)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEccCC-HHH-HHHHHHHHHHhcCCCEEEEeCCc
Confidence            356667899999999999999999876521  011222110   000111 111 22223455555679999999964

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.85  E-value=0.00024  Score=58.84  Aligned_cols=74  Identities=23%  Similarity=0.313  Sum_probs=45.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh-------hh--------cc----Ccc-HHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM-------SK--------LA----GES-ESNLRKAFEEAD  176 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~-------~~--------~~----~~~-~~~~~~~~~~a~  176 (197)
                      +.-++|.|++|+|||+++..+|..+   +.++..+++..+.       ..        ..    +.. ...+....+.+.
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~  219 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAK  219 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHH
Confidence            5568999999999999998888765   5566556543211       00        00    000 112233334444


Q ss_pred             cCCCeEEEEcccCccCc
Q psy6208         177 KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~~  193 (197)
                      ....++|+||..+.+..
T Consensus       220 ~~~~DvVLIDTaGr~~~  236 (336)
T PRK14974        220 ARGIDVVLIDTAGRMHT  236 (336)
T ss_pred             hCCCCEEEEECCCccCC
Confidence            44568999999988754

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=97.85  E-value=1.2e-05  Score=61.85  Aligned_cols=36  Identities=39%  Similarity=0.553  Sum_probs=27.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ++|+||+|||||.++-++|+..|.+++..+.-....
T Consensus         4 ~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~y~   39 (233)
T PF01745_consen    4 YLIVGPTGTGKTALAIALAQKTGAPVISLDRIQCYP   39 (233)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG-G
T ss_pred             EEEECCCCCChhHHHHHHHHHhCCCEEEecceeccc
Confidence            689999999999999999999999999988655443

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.85  E-value=1.8e-05  Score=58.59  Aligned_cols=29  Identities=41%  Similarity=0.567  Sum_probs=25.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ++|.||+|+|||++++.++..++..++..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~~   29 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIEG   29 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEeC
Confidence            57899999999999999999998666543

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.85  E-value=2.3e-05  Score=69.88  Aligned_cols=51  Identities=27%  Similarity=0.430  Sum_probs=43.2

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .++..|+++.|++.++..+...+..               ..+++|+||||+|||++++++++.+.
T Consensus        25 ~~~~~~~~vigq~~a~~~L~~~~~~---------------~~~~l~~G~~G~GKttla~~l~~~l~   75 (637)
T PRK13765         25 VPERLIDQVIGQEHAVEVIKKAAKQ---------------RRHVMMIGSPGTGKSMLAKAMAELLP   75 (637)
T ss_pred             cCcccHHHcCChHHHHHHHHHHHHh---------------CCeEEEECCCCCcHHHHHHHHHHHcC
Confidence            3457889999999999988877653               34799999999999999999998874

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.84  E-value=0.00022  Score=60.13  Aligned_cols=72  Identities=21%  Similarity=0.266  Sum_probs=44.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh-------CCeEEEEechhhh----------hh------ccCccHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET-------GAFFFLINGPEIM----------SK------LAGESESNLRKAFEEAD  176 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~-------~~~~~~v~~~~~~----------~~------~~~~~~~~~~~~~~~a~  176 (197)
                      +..++|.||+|+|||+++..+|..+       +..+..+++....          ..      ........+...+... 
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~-  252 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS-  252 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh-
Confidence            4568999999999999999998764       2445444432211          00      0112223344444443 


Q ss_pred             cCCCeEEEEcccCccCc
Q psy6208         177 KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~~  193 (197)
                       ...++|+||.++.+..
T Consensus       253 -~~~DlVLIDTaGr~~~  268 (388)
T PRK12723        253 -KDFDLVLVDTIGKSPK  268 (388)
T ss_pred             -CCCCEEEEcCCCCCcc
Confidence             3468999999998764

>PRK14530 adenylate kinase; Provisional

Probab=97.84  E-value=2.2e-05  Score=60.89  Aligned_cols=31  Identities=35%  Similarity=0.488  Sum_probs=27.1

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ..|+|.|+||+|||++++.++..++.+++..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            3699999999999999999999998776643

>PRK14531 adenylate kinase; Provisional

Probab=97.84  E-value=2.1e-05  Score=59.47  Aligned_cols=31  Identities=29%  Similarity=0.518  Sum_probs=27.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ..|++.|+||+|||++++.++..++..++..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~~~is~   33 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGLRHLST   33 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence            3599999999999999999999998776543

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.82  E-value=6.5e-05  Score=62.87  Aligned_cols=78  Identities=24%  Similarity=0.441  Sum_probs=58.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh--CCeEEEEechhhhhhc--------------cCccHHHHHHHHHHHhcCCC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET--GAFFFLINGPEIMSKL--------------AGESESNLRKAFEEADKNSP  180 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~--~~~~~~v~~~~~~~~~--------------~~~~~~~~~~~~~~a~~~~~  180 (197)
                      +-+..-+||-|.||.|||+|+-.++..+  ..+++|++.++-..+.              .-..+.++..+.+.....+|
T Consensus        90 ~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~~vLYVsGEES~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p  169 (456)
T COG1066          90 LVPGSVILIGGDPGIGKSTLLLQVAARLAKRGKVLYVSGEESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKP  169 (456)
T ss_pred             cccccEEEEccCCCCCHHHHHHHHHHHHHhcCcEEEEeCCcCHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHhcCC
Confidence            3456668999999999999999888776  3389999976543221              11234566777777777889


Q ss_pred             eEEEEcccCccCcc
Q psy6208         181 SIIFIDELDAIAPK  194 (197)
Q Consensus       181 ~vl~lDeid~l~~~  194 (197)
                      ++++||-|+.+...
T Consensus       170 ~lvVIDSIQT~~s~  183 (456)
T COG1066         170 DLVVIDSIQTLYSE  183 (456)
T ss_pred             CEEEEeccceeecc
Confidence            99999999887654

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

Probab=97.82  E-value=2.1e-05  Score=59.63  Aligned_cols=29  Identities=41%  Similarity=0.618  Sum_probs=25.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      |+|.|+||+|||++++.|+..++..++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i~~   30 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHIST   30 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            79999999999999999999988766554

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

>PRK04132 replication factor C small subunit; Provisional

Probab=97.82  E-value=3.2e-05  Score=70.78  Aligned_cols=66  Identities=29%  Similarity=0.347  Sum_probs=48.1

Q ss_pred             eEEEC--CCCCcHHHHHHHHHHHh-----CCeEEEEechhhhhhccCccHHHHHHHHHHHhcC------CCeEEEEcccC
Q psy6208         123 ILLYG--PPGTGKTLIARAVANET-----GAFFFLINGPEIMSKLAGESESNLRKAFEEADKN------SPSIIFIDELD  189 (197)
Q Consensus       123 ill~G--~~GtGKT~la~ala~~~-----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~------~~~vl~lDeid  189 (197)
                      -++.|  |++.|||++|+++|+++     +..++.+|+++..      .-..++...+.+...      ...|+||||+|
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~r------gid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD  640 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDER------GINVIREKVKEFARTKPIGGASFKIIFLDEAD  640 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcc------cHHHHHHHHHHHHhcCCcCCCCCEEEEEECcc
Confidence            46678  99999999999999997     4579999998742      223455544433221      23699999999


Q ss_pred             ccCcc
Q psy6208         190 AIAPK  194 (197)
Q Consensus       190 ~l~~~  194 (197)
                      .|...
T Consensus       641 ~Lt~~  645 (846)
T PRK04132        641 ALTQD  645 (846)
T ss_pred             cCCHH
Confidence            99754

>PRK13948 shikimate kinase; Provisional

Probab=97.82  E-value=2.7e-05  Score=58.99  Aligned_cols=35  Identities=26%  Similarity=0.308  Sum_probs=31.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .++..|+|.|.+|+|||++++.+++.++.+++..+
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            45678999999999999999999999999988655

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.81  E-value=5.5e-05  Score=60.01  Aligned_cols=34  Identities=26%  Similarity=0.478  Sum_probs=27.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      |+|.|.||+|||++|++++..+   +..++.++...+
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~l   38 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLI   38 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            7899999999999999999887   456777765444

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=97.80  E-value=2.3e-05  Score=56.56  Aligned_cols=30  Identities=30%  Similarity=0.576  Sum_probs=27.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      |.|.|+||+|||++++.++..++.+++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            689999999999999999999998887665

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=97.80  E-value=7.2e-05  Score=60.13  Aligned_cols=69  Identities=25%  Similarity=0.355  Sum_probs=37.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh---hc-cCccHHHHHHH----HHHHhcCCCeEEEEcccCcc
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS---KL-AGESESNLRKA----FEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~---~~-~~~~~~~~~~~----~~~a~~~~~~vl~lDeid~l  191 (197)
                      |+|+|-||+|||++|+.|+..+   +..+..++...+.-   .| -...++..+..    ++++.. ...|+|+|+...+
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls-~~~iVI~Dd~nYi   82 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALS-KDTIVILDDNNYI   82 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHT-T-SEEEE-S---S
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhc-cCeEEEEeCCchH
Confidence            7899999999999999998875   56777777554431   11 12234444433    344433 3479999997655


Q ss_pred             C
Q psy6208         192 A  192 (197)
Q Consensus       192 ~  192 (197)
                      -
T Consensus        83 K   83 (270)
T PF08433_consen   83 K   83 (270)
T ss_dssp             H
T ss_pred             H
Confidence            3

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK06547 hypothetical protein; Provisional

Probab=97.79  E-value=3.5e-05  Score=57.86  Aligned_cols=35  Identities=31%  Similarity=0.420  Sum_probs=28.8

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..+.-|+|.|++|+|||++++.+++.++..++..+
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            34556889999999999999999999887766543

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.79  E-value=9.5e-05  Score=56.68  Aligned_cols=73  Identities=25%  Similarity=0.318  Sum_probs=43.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh--------------h-hcc----C-ccHHHHHHHHHHHhc
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM--------------S-KLA----G-ESESNLRKAFEEADK  177 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~--------------~-~~~----~-~~~~~~~~~~~~a~~  177 (197)
                      .-++|.||+|+|||+.+-.+|..+   +..+..+++....              + .+.    . .......+.++....
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~   81 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRK   81 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhh
Confidence            458999999999999999888766   5555555532221              0 000    1 112234455566555


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ...++|+||-......
T Consensus        82 ~~~D~vlIDT~Gr~~~   97 (196)
T PF00448_consen   82 KGYDLVLIDTAGRSPR   97 (196)
T ss_dssp             TTSSEEEEEE-SSSST
T ss_pred             cCCCEEEEecCCcchh
Confidence            5578999998766543

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.79  E-value=0.00033  Score=59.02  Aligned_cols=74  Identities=22%  Similarity=0.194  Sum_probs=48.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh-------hhc---------cCccHHHHHHHHHHHhc-CC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM-------SKL---------AGESESNLRKAFEEADK-NS  179 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~-------~~~---------~~~~~~~~~~~~~~a~~-~~  179 (197)
                      +..++|.||+|+|||+++..||..+   +.++..+++....       ..+         .......+...+..+.. ..
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~  320 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEAR  320 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccC
Confidence            4678999999999999999998776   4556666553221       011         12234455555555543 24


Q ss_pred             CeEEEEcccCccCc
Q psy6208         180 PSIIFIDELDAIAP  193 (197)
Q Consensus       180 ~~vl~lDeid~l~~  193 (197)
                      .++||||-..+...
T Consensus       321 ~DvVLIDTaGRs~k  334 (436)
T PRK11889        321 VDYILIDTAGKNYR  334 (436)
T ss_pred             CCEEEEeCccccCc
Confidence            68999998877553

>PLN02674 adenylate kinase

Probab=97.79  E-value=6.7e-05  Score=59.35  Aligned_cols=38  Identities=26%  Similarity=0.578  Sum_probs=29.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      .....|+|.||||+||+++++.++..++...  +++.+++
T Consensus        29 ~~~~~i~l~G~PGsGKgT~a~~La~~~~~~h--is~Gdll   66 (244)
T PLN02674         29 KPDKRLILIGPPGSGKGTQSPIIKDEYCLCH--LATGDML   66 (244)
T ss_pred             ccCceEEEECCCCCCHHHHHHHHHHHcCCcE--EchhHHH
Confidence            3346799999999999999999999998544  4444444

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

Probab=97.79  E-value=2.3e-05  Score=58.45  Aligned_cols=32  Identities=34%  Similarity=0.435  Sum_probs=29.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .+|+|.|++|+|||++.+++|+.++.+|+-.+
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D   34 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD   34 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch
Confidence            47999999999999999999999999987765

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.78  E-value=9.8e-05  Score=59.02  Aligned_cols=39  Identities=23%  Similarity=0.319  Sum_probs=30.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      |+.....++++|+||+|||+++..++...   +.++++++..
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E   73 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE   73 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            35566778999999999999999886643   6677777754

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

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

Probab=97.78  E-value=0.0001  Score=62.45  Aligned_cols=70  Identities=24%  Similarity=0.319  Sum_probs=44.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      .++|+||.++|||++++.+........++++..+.......-  ......+..........+|||||+.+..
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l--~d~~~~~~~~~~~~~~yifLDEIq~v~~  108 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIEL--LDLLRAYIELKEREKSYIFLDEIQNVPD  108 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhH--HHHHHHHHHhhccCCceEEEecccCchh
Confidence            789999999999999988888775546666655443322111  1112222222222457899999998753

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.78  E-value=9.6e-05  Score=54.65  Aligned_cols=29  Identities=31%  Similarity=0.251  Sum_probs=23.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFL  150 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~  150 (197)
                      -+.+|+++|.|||++|-++|-+.   |.++..
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~   35 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGYRVGV   35 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence            47899999999999999987665   555555

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>TIGR00767 rho transcription termination factor Rho

Probab=97.77  E-value=9.4e-05  Score=62.26  Aligned_cols=28  Identities=25%  Similarity=0.466  Sum_probs=24.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..++|.||+|+|||++++.+++..
T Consensus       165 ig~Gq~~~IvG~~g~GKTtL~~~i~~~I  192 (415)
T TIGR00767       165 IGKGQRGLIVAPPKAGKTVLLQKIAQAI  192 (415)
T ss_pred             eCCCCEEEEECCCCCChhHHHHHHHHhh
Confidence            3456669999999999999999999875

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

>PRK04328 hypothetical protein; Provisional

Probab=97.77  E-value=0.00014  Score=57.76  Aligned_cols=38  Identities=26%  Similarity=0.390  Sum_probs=29.6

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      |+..+..++++|+||+|||+|+..++...   +.+.++++.
T Consensus        19 Gip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~   59 (249)
T PRK04328         19 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVAL   59 (249)
T ss_pred             CCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEe
Confidence            35667789999999999999999876442   667777764

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=97.76  E-value=2.1e-05  Score=71.91  Aligned_cols=74  Identities=19%  Similarity=0.142  Sum_probs=42.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC-------CeEEEEechhhhhhcc-CccHHHH-HHHHHHHhcCCCeEEEEccc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG-------AFFFLINGPEIMSKLA-GESESNL-RKAFEEADKNSPSIIFIDEL  188 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~-------~~~~~v~~~~~~~~~~-~~~~~~~-~~~~~~a~~~~~~vl~lDei  188 (197)
                      ....+|||.|+||||||.+|+++++...       .++..+.+........ ...+..+ .+.+..|   ...+++|||+
T Consensus       490 RgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~~d~~tG~~~le~GaLvlA---dgGtL~IDEi  566 (915)
T PTZ00111        490 RGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLA---NGGVCCIDEL  566 (915)
T ss_pred             cCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhhcccccCcccccCCcEEEc---CCCeEEecch
Confidence            4455799999999999999999998653       2333333332211000 0000000 0112222   2358999999


Q ss_pred             CccCcc
Q psy6208         189 DAIAPK  194 (197)
Q Consensus       189 d~l~~~  194 (197)
                      +.|.++
T Consensus       567 dkms~~  572 (915)
T PTZ00111        567 DKCHNE  572 (915)
T ss_pred             hhCCHH
Confidence            998764

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.76  E-value=4e-05  Score=57.50  Aligned_cols=34  Identities=35%  Similarity=0.589  Sum_probs=29.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      ...|+|.|++|+|||++++.++..++.+++..+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            4579999999999999999999999988876653

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.76  E-value=3.8e-05  Score=60.27  Aligned_cols=33  Identities=27%  Similarity=0.528  Sum_probs=28.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +..|+|.||||+|||++++.+++.++.+++.++
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~~~g~~~is~g   38 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSKKENLKHINMG   38 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence            345999999999999999999999987776554

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.75  E-value=0.00042  Score=55.82  Aligned_cols=74  Identities=24%  Similarity=0.378  Sum_probs=45.2

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh-------hhc--------c----C-ccHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM-------SKL--------A----G-ESESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~-------~~~--------~----~-~~~~~~~~~~~~a  175 (197)
                      .+..+.+.||+|+|||+++..+|..+   +..+..+++..+.       ..|        .    + .........+..+
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~  150 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKA  150 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHH
Confidence            45568899999999999999998766   5667666654210       000        0    0 0112222333444


Q ss_pred             hcCCCeEEEEcccCccC
Q psy6208         176 DKNSPSIIFIDELDAIA  192 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l~  192 (197)
                      .....++++||=...+.
T Consensus       151 ~~~~~D~ViIDT~G~~~  167 (272)
T TIGR00064       151 KARNIDVVLIDTAGRLQ  167 (272)
T ss_pred             HHCCCCEEEEeCCCCCc
Confidence            44557899999777654

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.75  E-value=9.2e-05  Score=57.96  Aligned_cols=40  Identities=20%  Similarity=0.284  Sum_probs=31.1

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      |+....-+.|+|+||+|||+++..++...         +..+++++..+
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~   63 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG   63 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence            35566678999999999999999997542         25788887644

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.74  E-value=3.2e-05  Score=56.81  Aligned_cols=28  Identities=39%  Similarity=0.609  Sum_probs=25.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      |-+.|+|||||||+++.+|..+|.+++.
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            6789999999999999999999998876

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.74  E-value=9.4e-05  Score=54.90  Aligned_cols=73  Identities=16%  Similarity=0.196  Sum_probs=43.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC--eEEEEechhh--------hhhccC-----ccHHHHHHHHHHHhcCCCe
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA--FFFLINGPEI--------MSKLAG-----ESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~--~~~~v~~~~~--------~~~~~~-----~~~~~~~~~~~~a~~~~~~  181 (197)
                      +.++..+.|.||+|+|||+|++.++.....  --+.++...+        ....++     ......+-.+..+....|.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p~  102 (163)
T cd03216          23 VRRGEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARALARNAR  102 (163)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCCC
Confidence            456677999999999999999999876411  1122222111        111010     0111223345556667799


Q ss_pred             EEEEcccC
Q psy6208         182 IIFIDELD  189 (197)
Q Consensus       182 vl~lDeid  189 (197)
                      ++++||-.
T Consensus       103 illlDEP~  110 (163)
T cd03216         103 LLILDEPT  110 (163)
T ss_pred             EEEEECCC
Confidence            99999954

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.73  E-value=0.00016  Score=56.10  Aligned_cols=21  Identities=29%  Similarity=0.559  Sum_probs=19.6

Q ss_pred             CceEEECCCCCcHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala  141 (197)
                      +.++|+||.|+|||++++.++
T Consensus        30 ~~~~itGpNg~GKStlLk~i~   50 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVA   50 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            568999999999999999997

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.73  E-value=4.2e-05  Score=57.03  Aligned_cols=32  Identities=31%  Similarity=0.465  Sum_probs=28.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..++|.|.+|+|||++++.+|..++.+++..+
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg~~~~d~D   34 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALGYRFVDTD   34 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence            36899999999999999999999999887654

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.73  E-value=8.6e-05  Score=64.54  Aligned_cols=76  Identities=30%  Similarity=0.324  Sum_probs=52.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhcc------C----------------------cc
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLA------G----------------------ES  164 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~------~----------------------~~  164 (197)
                      |+.+...+|+.||||+|||+|+..++...   +-++++++..+-...+.      |                      ..
T Consensus       259 G~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~  338 (484)
T TIGR02655       259 GFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGL  338 (484)
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCCh
Confidence            35667779999999999999999997755   56778877543321110      0                      01


Q ss_pred             HHHHHHHHHHHhcCCCeEEEEcccCcc
Q psy6208         165 ESNLRKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       165 ~~~~~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                      +..+..+.+......|++++||-+..+
T Consensus       339 ~~~~~~i~~~i~~~~~~~vvIDsi~~~  365 (484)
T TIGR02655       339 EDHLQIIKSEIADFKPARIAIDSLSAL  365 (484)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEcCHHHH
Confidence            344555556666667899999988765

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.72  E-value=0.00013  Score=56.75  Aligned_cols=40  Identities=28%  Similarity=0.404  Sum_probs=31.2

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---C------CeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---G------AFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~------~~~~~v~~~~  155 (197)
                      |+....-+.|+|+||+|||+++..++...   +      ..+++++...
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~   63 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG   63 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence            35566678999999999999999997653   3      6778887643

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.72  E-value=7.3e-05  Score=55.09  Aligned_cols=40  Identities=35%  Similarity=0.530  Sum_probs=33.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL  160 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~  160 (197)
                      ..|+|+|.||+|||++|+++.+.+   +.+++.++...+...+
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR~~l   45 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNLRHGL   45 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHCTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchhhcc
Confidence            358899999999999999999887   7899999988776543

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

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

Probab=97.72  E-value=5.9e-05  Score=56.86  Aligned_cols=72  Identities=25%  Similarity=0.182  Sum_probs=41.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC--eEEEEechhh--hhhc--cCccHHHHHHHHHHHhcCCCeEEEEcccC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA--FFFLINGPEI--MSKL--AGESESNLRKAFEEADKNSPSIIFIDELD  189 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~--~~~~v~~~~~--~~~~--~~~~~~~~~~~~~~a~~~~~~vl~lDeid  189 (197)
                      +.+...+.|.||+|+|||+|++.++.....  =-+.++...+  ..+.  ....+ ..+-.+..+....|.++++||--
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq-~qrv~laral~~~p~lllLDEPt   99 (177)
T cd03222          22 VKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGE-LQRVAIAAALLRNATFYLFDEPS   99 (177)
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHH-HHHHHHHHHHhcCCCEEEEECCc
Confidence            355667889999999999999999876411  1122221111  0010  11111 22233445555679999999964

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

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.72  E-value=0.0001  Score=55.16  Aligned_cols=32  Identities=31%  Similarity=0.379  Sum_probs=27.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      ++++|++|+|||++|..++...+.+++++...
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~   33 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATA   33 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEcc
Confidence            68999999999999999998877778777643

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.72  E-value=0.00012  Score=61.37  Aligned_cols=74  Identities=22%  Similarity=0.313  Sum_probs=44.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh----C-CeEEEEechhhh-------h---hcc------CccHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET----G-AFFFLINGPEIM-------S---KLA------GESESNLRKAFEEAD  176 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~----~-~~~~~v~~~~~~-------~---~~~------~~~~~~~~~~~~~a~  176 (197)
                      ..+..++|.||+|+||||++..++...    + ..+..+++..+.       .   +..      ......+...+... 
T Consensus       135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l-  213 (374)
T PRK14722        135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAEL-  213 (374)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHh-
Confidence            345678999999999999999998763    3 345555543321       0   000      11112233333332 


Q ss_pred             cCCCeEEEEcccCccCc
Q psy6208         177 KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~~  193 (197)
                       ...++|+||..+....
T Consensus       214 -~~~DlVLIDTaG~~~~  229 (374)
T PRK14722        214 -RNKHMVLIDTIGMSQR  229 (374)
T ss_pred             -cCCCEEEEcCCCCCcc
Confidence             3468999999986643

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.72  E-value=7.1e-05  Score=58.45  Aligned_cols=40  Identities=28%  Similarity=0.391  Sum_probs=31.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      |+.....+++.|+||+|||+++..++...   +.++++++..+
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~   58 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE   58 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC
Confidence            45677789999999999999999876432   66788887643

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.71  E-value=0.00011  Score=52.71  Aligned_cols=29  Identities=28%  Similarity=0.373  Sum_probs=25.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .+...++|.|+.|+|||++++.+++.++.
T Consensus        20 ~~~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        20 DFGTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            45567899999999999999999999865

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PRK13946 shikimate kinase; Provisional

Probab=97.71  E-value=3.9e-05  Score=58.11  Aligned_cols=34  Identities=29%  Similarity=0.446  Sum_probs=30.2

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ....|++.|.+|+|||++++.+++.++.+++..+
T Consensus         9 ~~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D   42 (184)
T PRK13946          9 GKRTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD   42 (184)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence            3467999999999999999999999999987655

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase

Probab=97.71  E-value=4.3e-05  Score=63.41  Aligned_cols=72  Identities=22%  Similarity=0.344  Sum_probs=48.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEe-chhhhhh------cc-------CccHHHHHHHHHHHhcCCCe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG--AFFFLIN-GPEIMSK------LA-------GESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~-~~~~~~~------~~-------~~~~~~~~~~~~~a~~~~~~  181 (197)
                      ....++++.|++|+|||+++++++....  ...+.+. ..++.-.      +.       +...-....+++.+.+..|+
T Consensus       176 ~~~~~ili~G~tGsGKTTll~al~~~i~~~~riv~iEd~~El~~~~~~~~~l~~r~~~~~g~~~~t~~~ll~~aLR~~PD  255 (340)
T TIGR03819       176 AARLAFLISGGTGSGKTTLLSALLALVAPDERIVLVEDAAELRPDHPHVVRLEARPANVEGAGAVTLTDLVRQALRMRPD  255 (340)
T ss_pred             hCCCeEEEECCCCCCHHHHHHHHHccCCCCCcEEEECCcceecCCCCCeeeEEeccccccCcCccCHHHHHHHHhccCCC
Confidence            3467899999999999999999987762  2333332 1222210      00       11223456778888888999


Q ss_pred             EEEEcccC
Q psy6208         182 IIFIDELD  189 (197)
Q Consensus       182 vl~lDeid  189 (197)
                      .|++.|+-
T Consensus       256 ~IivGEiR  263 (340)
T TIGR03819       256 RIVVGEVR  263 (340)
T ss_pred             eEEEeCcC
Confidence            99999985

Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.

>PLN02200 adenylate kinase family protein

Probab=97.70  E-value=5.2e-05  Score=59.71  Aligned_cols=38  Identities=21%  Similarity=0.411  Sum_probs=30.0

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      ..+..++|.|+||+|||++++.++..++...  +++.++.
T Consensus        41 ~~~~ii~I~G~PGSGKsT~a~~La~~~g~~h--is~gdll   78 (234)
T PLN02200         41 KTPFITFVLGGPGSGKGTQCEKIVETFGFKH--LSAGDLL   78 (234)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhCCeE--EEccHHH
Confidence            3445689999999999999999999998654  5554554

>PF13245 AAA_19: Part of AAA domain

Probab=97.70  E-value=8.4e-05  Score=48.08  Aligned_cols=33  Identities=33%  Similarity=0.542  Sum_probs=21.7

Q ss_pred             CceEEECCCCCcHH-HHHHHHHHHh------CCeEEEEec
Q psy6208         121 RGILLYGPPGTGKT-LIARAVANET------GAFFFLING  153 (197)
Q Consensus       121 ~~ill~G~~GtGKT-~la~ala~~~------~~~~~~v~~  153 (197)
                      +.+++.|||||||| ++++.++...      +..++.+..
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~   50 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAP   50 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECC
Confidence            34566999999999 4555555544      445666643

>PRK14528 adenylate kinase; Provisional

Probab=97.70  E-value=4.3e-05  Score=58.02  Aligned_cols=30  Identities=27%  Similarity=0.463  Sum_probs=26.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .+++.||||+|||++++.++..++.+++..
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~   32 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERLSIPQIST   32 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeeeC
Confidence            589999999999999999999998776544

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.70  E-value=0.00021  Score=58.63  Aligned_cols=36  Identities=33%  Similarity=0.486  Sum_probs=31.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..+...|+|.|.+|+|||++++.++..++.+++.++
T Consensus       130 ~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        130 AARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            456778999999999999999999999999988544

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.69  E-value=7.8e-05  Score=61.51  Aligned_cols=28  Identities=36%  Similarity=0.453  Sum_probs=24.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +.+..+||+||+|+|||++|+.+|+.+.
T Consensus        19 r~~hA~Lf~G~~G~GK~~la~~~a~~ll   46 (325)
T PRK08699         19 RRPNAWLFAGKKGIGKTAFARFAAQALL   46 (325)
T ss_pred             CcceEEEeECCCCCCHHHHHHHHHHHHc
Confidence            4566899999999999999999998874

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.69  E-value=0.00013  Score=59.94  Aligned_cols=28  Identities=36%  Similarity=0.587  Sum_probs=24.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .-+..+||+||+|+||+++|.++|+.+-
T Consensus        24 rl~HA~Lf~Gp~G~GK~~lA~~lA~~Ll   51 (319)
T PRK08769         24 RLGHGLLICGPEGLGKRAVALALAEHVL   51 (319)
T ss_pred             CcceeEeeECCCCCCHHHHHHHHHHHHh
Confidence            4466799999999999999999998773

>PF13479 AAA_24: AAA domain

Probab=97.69  E-value=0.0001  Score=57.21  Aligned_cols=67  Identities=31%  Similarity=0.478  Sum_probs=39.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh---hhhc------cCccHHHHHHHHHHH--hcCCCeEEEEccc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI---MSKL------AGESESNLRKAFEEA--DKNSPSIIFIDEL  188 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~---~~~~------~~~~~~~~~~~~~~a--~~~~~~vl~lDei  188 (197)
                      +-.++|||+||+|||+++..+    + ..+++++..=   ...+      .-.+-..+.+.+...  ......+|+||-+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~----~-k~l~id~E~g~~~~~~~~~~~~i~i~s~~~~~~~~~~l~~~~~~y~tiVIDsi   77 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL----P-KPLFIDTENGSDSLKFLDDGDVIPITSWEDFLEALDELEEDEADYDTIVIDSI   77 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC----C-CeEEEEeCCCccchhhhcCCCeeCcCCHHHHHHHHHHHHhccCCCCEEEEECH
Confidence            446899999999999999988    2 2334443221   1010      001223344444332  2345689999988


Q ss_pred             Ccc
Q psy6208         189 DAI  191 (197)
Q Consensus       189 d~l  191 (197)
                      +.+
T Consensus        78 s~~   80 (213)
T PF13479_consen   78 SWL   80 (213)
T ss_pred             HHH
Confidence            765

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.68  E-value=4.8e-05  Score=57.29  Aligned_cols=29  Identities=24%  Similarity=0.406  Sum_probs=25.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      -+++.|+||+|||++++.++..++...+.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~~   33 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTHLS   33 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEe
Confidence            58899999999999999999998765443

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.68  E-value=8.6e-05  Score=47.02  Aligned_cols=30  Identities=27%  Similarity=0.564  Sum_probs=23.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh-CCeEEEEe
Q psy6208         123 ILLYGPPGTGKTLIARAVANET-GAFFFLIN  152 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~-~~~~~~v~  152 (197)
                      +.+.|++|+|||++++++++.+ +.++..++
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l~~~~~~~i~   32 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVLD   32 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCEEEEe
Confidence            6789999999999999999986 23444443

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]

Probab=97.68  E-value=4e-05  Score=62.79  Aligned_cols=71  Identities=24%  Similarity=0.358  Sum_probs=50.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEe-chhhh-------------hhccCccHHHHHHHHHHHhcCCCe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG--AFFFLIN-GPEIM-------------SKLAGESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~-~~~~~-------------~~~~~~~~~~~~~~~~~a~~~~~~  181 (197)
                      ....++|+.|.+|+|||||+.++.....  -.++.+. ..++.             ....|..+-....+.+.+.+..|+
T Consensus       171 ~~r~NILisGGTGSGKTTlLNal~~~i~~~eRvItiEDtaELql~~ph~vrL~TR~~n~Eg~gevtm~dLvkn~LRmRPD  250 (355)
T COG4962         171 GIRCNILISGGTGSGKTTLLNALSGFIDSDERVITIEDTAELQLAHPHVVRLETRPPNVEGTGEVTMRDLVKNALRMRPD  250 (355)
T ss_pred             hhceeEEEeCCCCCCHHHHHHHHHhcCCCcccEEEEeehhhhccCCCceEEEeecCCCCCCcceEEHHHHHHHHhhcCcc
Confidence            3457899999999999999999988762  2444432 22321             111233455678889999999999


Q ss_pred             EEEEccc
Q psy6208         182 IIFIDEL  188 (197)
Q Consensus       182 vl~lDei  188 (197)
                      -+++-|+
T Consensus       251 RIiVGEV  257 (355)
T COG4962         251 RIIVGEV  257 (355)
T ss_pred             ceEEEEe
Confidence            9999876

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.67  E-value=3.5e-05  Score=54.16  Aligned_cols=22  Identities=45%  Similarity=0.674  Sum_probs=20.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      |+|.|+||+|||++++.|++.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999986

...

>TIGR01351 adk adenylate kinases

Probab=97.67  E-value=4.5e-05  Score=58.94  Aligned_cols=29  Identities=34%  Similarity=0.621  Sum_probs=25.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      |+|.||||+|||++++.++...+..++..
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is~   30 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHIST   30 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence            78999999999999999999988766543

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.67  E-value=3.5e-05  Score=57.19  Aligned_cols=30  Identities=33%  Similarity=0.510  Sum_probs=26.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|+++|.||+|||++++.++ .++..++.++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~   31 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-ELGYKVIELN   31 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-HhCCceeeHH
Confidence            47899999999999999999 8888877665

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.67  E-value=0.00029  Score=52.60  Aligned_cols=32  Identities=38%  Similarity=0.441  Sum_probs=26.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      +++.|+||+|||+++..++..+   +..+..+++.
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D   37 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAAD   37 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Confidence            6899999999999999998765   5677777764

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK02496 adk adenylate kinase; Provisional

Probab=97.67  E-value=4.7e-05  Score=57.49  Aligned_cols=30  Identities=27%  Similarity=0.423  Sum_probs=26.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .++|.|+||+|||++++.++..++.+.+..
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            489999999999999999999998766544

>PRK06696 uridine kinase; Validated

Probab=97.66  E-value=0.00016  Score=56.37  Aligned_cols=37  Identities=24%  Similarity=0.293  Sum_probs=29.6

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      .+.-|.|.|++|+||||+|+.|+..+   +.+++.++..+
T Consensus        21 ~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Dd   60 (223)
T PRK06696         21 RPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDD   60 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecccc
Confidence            35568899999999999999999988   56676655433

>PRK14527 adenylate kinase; Provisional

Probab=97.66  E-value=4.4e-05  Score=58.10  Aligned_cols=33  Identities=30%  Similarity=0.491  Sum_probs=27.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      +.+.-+++.||||+|||++++.+++.++...+.
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~~~~is   36 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQELGLKKLS   36 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCCCCCC
Confidence            345679999999999999999999998765544

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.66  E-value=3.2e-05  Score=60.32  Aligned_cols=22  Identities=27%  Similarity=0.668  Sum_probs=20.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      ++++|+||+|||++++.+....
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~~   22 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKDR   22 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHhc
Confidence            5799999999999999998874

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.64  E-value=0.00023  Score=58.53  Aligned_cols=27  Identities=19%  Similarity=0.320  Sum_probs=24.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +-+..+||+||.|+||+.+|+++|+.+
T Consensus        23 rl~hA~L~~G~~G~Gk~~lA~~~a~~l   49 (319)
T PRK06090         23 RIPGALLLQSDEGLGVESLVELFSRAL   49 (319)
T ss_pred             CcceeEeeECCCCCCHHHHHHHHHHHH
Confidence            456689999999999999999999877

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.63  E-value=6e-05  Score=58.47  Aligned_cols=30  Identities=33%  Similarity=0.576  Sum_probs=26.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+++|+||+|||++++.+|..++...+.+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            389999999999999999999998766553

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=97.63  E-value=0.00026  Score=54.32  Aligned_cols=23  Identities=30%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala  141 (197)
                      .+..++|+||.|+|||++++.++
T Consensus        28 ~~~~~~l~G~Ng~GKStll~~i~   50 (202)
T cd03243          28 SGRLLLITGPNMGGKSTYLRSIG   50 (202)
T ss_pred             CCeEEEEECCCCCccHHHHHHHH
Confidence            34569999999999999999998

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.63  E-value=0.00013  Score=54.65  Aligned_cols=33  Identities=27%  Similarity=0.370  Sum_probs=28.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      .+++.|+||+|||++|..++...+.+++++...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~   35 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATA   35 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCC
Confidence            489999999999999999999988777777653

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.62  E-value=0.00018  Score=59.13  Aligned_cols=29  Identities=31%  Similarity=0.562  Sum_probs=25.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ..++|+++||+.|.|||+|+..+...+..
T Consensus        63 ~~~~GlYl~GgVGrGKT~LMD~Fy~~lp~   91 (367)
T COG1485          63 GPVRGLYLWGGVGRGKTMLMDLFYESLPG   91 (367)
T ss_pred             CCCceEEEECCCCccHHHHHHHHHhhCCc
Confidence            46789999999999999999999887743

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=97.62  E-value=0.00026  Score=54.21  Aligned_cols=43  Identities=30%  Similarity=0.500  Sum_probs=32.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh-CCeEEEEechhhhhhc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET-GAFFFLINGPEIMSKL  160 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~-~~~~~~v~~~~~~~~~  160 (197)
                      ..|.-+++.|+||+|||+++..+...+ +..++.++..++....
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~r~~~   56 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEFRQFH   56 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGGGGGS
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHHHHhc
Confidence            456678999999999999999999888 6778888887765443

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.62  E-value=0.00034  Score=53.01  Aligned_cols=19  Identities=32%  Similarity=0.562  Sum_probs=18.0

Q ss_pred             eEEECCCCCcHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala  141 (197)
                      ++|+||.|+|||++++.++
T Consensus         2 ~~ltG~N~~GKst~l~~i~   20 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVG   20 (185)
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            6899999999999999997

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=97.61  E-value=0.0003  Score=64.22  Aligned_cols=74  Identities=16%  Similarity=0.140  Sum_probs=43.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh----hhhccCccHHHHHHHHHHHh-----cCCCeEEEEcc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI----MSKLAGESESNLRKAFEEAD-----KNSPSIIFIDE  187 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~----~~~~~~~~~~~~~~~~~~a~-----~~~~~vl~lDe  187 (197)
                      ..-.+|.|++|||||++++++...+   +..++.+.....    +....+.....+..+.....     -...++|++||
T Consensus       368 ~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~g~~a~Ti~~~~~~~~~~~~~~~~~~llIvDE  447 (744)
T TIGR02768       368 GDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAESGIESRTLASLEYAWANGRDLLSDKDVLVIDE  447 (744)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhccCCceeeHHHHHhhhccCcccCCCCcEEEEEC
Confidence            3457899999999999999987554   666666543222    22222222222333221111     12457999999


Q ss_pred             cCccCc
Q psy6208         188 LDAIAP  193 (197)
Q Consensus       188 id~l~~  193 (197)
                      +..+..
T Consensus       448 asMv~~  453 (744)
T TIGR02768       448 AGMVGS  453 (744)
T ss_pred             cccCCH
Confidence            887653

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.61  E-value=0.00023  Score=57.81  Aligned_cols=34  Identities=35%  Similarity=0.474  Sum_probs=26.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh-CCeEEEEechhhh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET-GAFFFLINGPEIM  157 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~-~~~~~~v~~~~~~  157 (197)
                      -+++.|+||||||++|+.+++.+ +.  ..++...+.
T Consensus         4 liil~G~pGSGKSTla~~L~~~~~~~--~~l~~D~~r   38 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAAKNPKA--VNVNRDDLR   38 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHCCCC--EEEeccHHH
Confidence            57899999999999999999998 54  444544443

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.61  E-value=7.1e-05  Score=57.86  Aligned_cols=23  Identities=39%  Similarity=0.624  Sum_probs=16.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -.+++||||||||+++..+...+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCChHHHHHHHHHHh
Confidence            38999999999998766665544

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=97.61  E-value=0.00025  Score=58.62  Aligned_cols=53  Identities=21%  Similarity=0.386  Sum_probs=41.1

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +++.|.++.+.++.+++...-.      .++ ...+-++|.||+|+|||++++.+.+-+.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~------g~~-~~krIl~L~GPvg~GKSsl~~~Lk~~le  113 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQ------GLE-ERKRILLLLGPVGGGKSSLAELLKRGLE  113 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHh------ccC-ccceEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3799999999999988775422      121 3345588999999999999999988773

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.61  E-value=0.00093  Score=56.77  Aligned_cols=72  Identities=19%  Similarity=0.261  Sum_probs=42.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhh-------hc------cCccHHHHHHHHHHHhcCCCeE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMS-------KL------AGESESNLRKAFEEADKNSPSI  182 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~-------~~------~~~~~~~~~~~~~~a~~~~~~v  182 (197)
                      +..++|.||+|+|||+++..+|...    +..+..+++.....       .+      ..........+.+.+.....++
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D~  302 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGSEL  302 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCCE
Confidence            3458899999999999999998654    45566665543211       00      0011112333333344445789


Q ss_pred             EEEcccCcc
Q psy6208         183 IFIDELDAI  191 (197)
Q Consensus       183 l~lDeid~l  191 (197)
                      |+||=....
T Consensus       303 VLIDTaGr~  311 (432)
T PRK12724        303 ILIDTAGYS  311 (432)
T ss_pred             EEEeCCCCC
Confidence            999965544

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.60  E-value=0.001  Score=54.82  Aligned_cols=75  Identities=24%  Similarity=0.310  Sum_probs=45.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh-------hh--------cc----Ccc-HHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM-------SK--------LA----GES-ESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~-------~~--------~~----~~~-~~~~~~~~~~a  175 (197)
                      .+.-++|.||+|+|||+++..+|..+   +..+..+++....       ..        +.    +.. .......+..+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~  192 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAA  192 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            35568899999999999999998776   5566666553211       00        00    001 11122333344


Q ss_pred             hcCCCeEEEEcccCccCc
Q psy6208         176 DKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l~~  193 (197)
                      .....++|+||=...+..
T Consensus       193 ~~~~~D~ViIDTaGr~~~  210 (318)
T PRK10416        193 KARGIDVLIIDTAGRLHN  210 (318)
T ss_pred             HhCCCCEEEEeCCCCCcC
Confidence            445678999998777653

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.59  E-value=0.00024  Score=52.20  Aligned_cols=73  Identities=27%  Similarity=0.408  Sum_probs=43.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC--eEEEEechhhhh-------h---c---cCccHHHHHHHHHHHhcCCCe
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA--FFFLINGPEIMS-------K---L---AGESESNLRKAFEEADKNSPS  181 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~--~~~~v~~~~~~~-------~---~---~~~~~~~~~~~~~~a~~~~~~  181 (197)
                      +.+...+.|.|++|+|||+|+++++.....  --++++...+..       .   +   ....+ ..+-.+..+....|.
T Consensus        22 i~~g~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~-~~r~~l~~~l~~~~~  100 (157)
T cd00267          22 LKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQ-RQRVALARALLLNPD  100 (157)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHHHhceEEEeeCCHHH-HHHHHHHHHHhcCCC
Confidence            355667899999999999999999876532  122333221110       0   0   11112 222224444455689


Q ss_pred             EEEEcccCc
Q psy6208         182 IIFIDELDA  190 (197)
Q Consensus       182 vl~lDeid~  190 (197)
                      ++++||...
T Consensus       101 i~ilDEp~~  109 (157)
T cd00267         101 LLLLDEPTS  109 (157)
T ss_pred             EEEEeCCCc
Confidence            999999753

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK04040 adenylate kinase; Provisional

Probab=97.59  E-value=8.6e-05  Score=56.53  Aligned_cols=31  Identities=19%  Similarity=0.318  Sum_probs=25.8

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh--CCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET--GAFFFLI  151 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~--~~~~~~v  151 (197)
                      ..++++|+||+|||++++.+++.+  +..++..
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~~~   35 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLKEDYKIVNF   35 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhccCCeEEec
Confidence            458999999999999999999998  5555433

>PRK08233 hypothetical protein; Provisional

Probab=97.59  E-value=9e-05  Score=55.52  Aligned_cols=31  Identities=16%  Similarity=0.224  Sum_probs=25.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC-CeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG-AFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~-~~~~~v~  152 (197)
                      -|.|.|+||+||||+++.++..++ .+++..+
T Consensus         5 iI~I~G~~GsGKtTla~~L~~~l~~~~~~~~d   36 (182)
T PRK08233          5 IITIAAVSGGGKTTLTERLTHKLKNSKALYFD   36 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCCCCceEEEC
Confidence            478899999999999999999885 4455444

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.58  E-value=0.00036  Score=53.49  Aligned_cols=21  Identities=29%  Similarity=0.596  Sum_probs=19.4

Q ss_pred             CceEEECCCCCcHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala  141 (197)
                      +.++|+||.|+|||++++.++
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            359999999999999999987

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.58  E-value=0.00023  Score=59.63  Aligned_cols=27  Identities=26%  Similarity=0.552  Sum_probs=24.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..+++.|+.|||||++.+++.+.+
T Consensus        20 ~~~~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen   20 EEGLNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             cCCcEEEEEcCCCCChhHHHHHHHHHh
Confidence            456789999999999999999998877

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=97.58  E-value=0.00026  Score=58.48  Aligned_cols=39  Identities=15%  Similarity=0.153  Sum_probs=32.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ...++|.|++|+|||+|++.++...+.+++.--..+...
T Consensus       162 ~~~~~~~G~~~~gkstl~~~l~~~~~~~~v~E~~R~~~~  200 (325)
T TIGR01526       162 VKTVAILGGESTGKSTLVNKLAAVFNTTSAWEYAREYVE  200 (325)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCCEEeehhHHHHH
Confidence            447999999999999999999999988886655554443

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.58  E-value=0.0004  Score=63.15  Aligned_cols=73  Identities=23%  Similarity=0.377  Sum_probs=42.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---C--CeEEEEech----hhhhhccCccHHHHHHHHHHH---------h-cCCC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---G--AFFFLINGP----EIMSKLAGESESNLRKAFEEA---------D-KNSP  180 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~--~~~~~v~~~----~~~~~~~~~~~~~~~~~~~~a---------~-~~~~  180 (197)
                      .+.++|.|+||||||++++++...+   +  .+++.+...    .-+.+..+.....+..++...         . ....
T Consensus       338 ~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~~~~~~  417 (720)
T TIGR01448       338 HKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFRHNHLEDPIDC  417 (720)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCccchhhhhccccC
Confidence            3468999999999999999987655   3  333333211    112222222223333333211         0 1235


Q ss_pred             eEEEEcccCccC
Q psy6208         181 SIIFIDELDAIA  192 (197)
Q Consensus       181 ~vl~lDeid~l~  192 (197)
                      ++|++||+..+.
T Consensus       418 ~llIvDEaSMvd  429 (720)
T TIGR01448       418 DLLIVDESSMMD  429 (720)
T ss_pred             CEEEEeccccCC
Confidence            799999998765

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.57  E-value=0.00012  Score=53.55  Aligned_cols=35  Identities=34%  Similarity=0.636  Sum_probs=28.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM  157 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~  157 (197)
                      ++|.|+||+|||++++.++..+   +...+.++...+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d~~r   39 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVR   39 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCHHHH
Confidence            6899999999999999999988   6667777655443

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

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

Probab=97.57  E-value=0.00035  Score=52.60  Aligned_cols=26  Identities=15%  Similarity=0.236  Sum_probs=22.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      +.++.-+.|.||+|+|||+|.+++..
T Consensus        18 i~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          18 IPLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhh
Confidence            45566789999999999999999863

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.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.55  E-value=0.00013  Score=58.15  Aligned_cols=40  Identities=35%  Similarity=0.565  Sum_probs=32.6

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      |+.....++++|+||||||.++..++...   |.++++++..+
T Consensus        19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e   61 (260)
T COG0467          19 GLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEE   61 (260)
T ss_pred             CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecC
Confidence            35677789999999999999999887655   67888887543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.55  E-value=0.0007  Score=56.81  Aligned_cols=76  Identities=22%  Similarity=0.190  Sum_probs=48.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh----h------------ccCccHHHHHHHHHHHhc-
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS----K------------LAGESESNLRKAFEEADK-  177 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~----~------------~~~~~~~~~~~~~~~a~~-  177 (197)
                      ..+..++|.||+|+|||+++..+|..+   +.++..+++.....    .            +.......+...++.+.. 
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~  283 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYV  283 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhc
Confidence            345668999999999999999998765   55666666532210    0            112233445555554432 


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ...++|+||=......
T Consensus       284 ~~~D~VLIDTAGr~~~  299 (407)
T PRK12726        284 NCVDHILIDTVGRNYL  299 (407)
T ss_pred             CCCCEEEEECCCCCcc
Confidence            3468999998877543

>PF14516 AAA_35: AAA-like domain

Probab=97.55  E-value=0.00084  Score=55.59  Aligned_cols=39  Identities=21%  Similarity=0.238  Sum_probs=31.8

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      .++..+.|.||..+|||+++..+.+.+   +..++++++..+
T Consensus        29 ~~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~   70 (331)
T PF14516_consen   29 QPGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQL   70 (331)
T ss_pred             cCCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecC
Confidence            346678999999999999999987665   778888887654

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=97.54  E-value=0.00026  Score=60.01  Aligned_cols=31  Identities=19%  Similarity=0.236  Sum_probs=27.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ...|.|.|++|||||+|+++|+...|..++.
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~~g~~~v~  249 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANIFNTTSAW  249 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHhCCCeee
Confidence            4569999999999999999999998876544

>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.54  E-value=0.0004  Score=55.25  Aligned_cols=84  Identities=20%  Similarity=0.430  Sum_probs=58.6

Q ss_pred             ccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC----CeEEEEech-hhh---------hhccCccHHHHHHH
Q psy6208         106 LRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG----AFFFLINGP-EIM---------SKLAGESESNLRKA  171 (197)
Q Consensus       106 ~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~----~~~~~v~~~-~~~---------~~~~~~~~~~~~~~  171 (197)
                      +.-|+..+.+.+.+..-+++.|++|+|||+...++...-+    .+.+.+.-+ ++.         ..-+|-....+..+
T Consensus       113 L~LPevlk~la~~kRGLviiVGaTGSGKSTtmAaMi~yRN~~s~gHIiTIEDPIEfih~h~~CIvTQREvGvDTesw~~A  192 (375)
T COG5008         113 LKLPEVLKDLALAKRGLVIIVGATGSGKSTTMAAMIGYRNKNSTGHIITIEDPIEFIHKHKRCIVTQREVGVDTESWEVA  192 (375)
T ss_pred             cCCcHHHHHhhcccCceEEEECCCCCCchhhHHHHhcccccCCCCceEEecChHHHHhcccceeEEeeeeccchHHHHHH
Confidence            4567777777777777789999999999998777754332    234444322 222         12345555677778


Q ss_pred             HHHHhcCCCeEEEEcccC
Q psy6208         172 FEEADKNSPSIIFIDELD  189 (197)
Q Consensus       172 ~~~a~~~~~~vl~lDeid  189 (197)
                      ++...+.+|+||+|.|+.
T Consensus       193 lkNtlRQapDvI~IGEvR  210 (375)
T COG5008         193 LKNTLRQAPDVILIGEVR  210 (375)
T ss_pred             HHHHHhcCCCeEEEeecc
Confidence            888888899999999985

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.54  E-value=0.00015  Score=54.33  Aligned_cols=39  Identities=28%  Similarity=0.395  Sum_probs=30.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEechhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGPEI  156 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~~~  156 (197)
                      ..+..|+|.|++|+|||++++.++..+.   ...+.++...+
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~~d~~   46 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDEL   46 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEecHHH
Confidence            3456789999999999999999998884   33556665444

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.54  E-value=9.1e-05  Score=54.81  Aligned_cols=34  Identities=35%  Similarity=0.456  Sum_probs=23.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      |.|+|++|||||+|+++|+.. |.+++.-....+.
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-g~~~v~E~ar~~~   35 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-GYPVVPEYAREII   35 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-T-EEE--TTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc-CCeEEeecHHHHH
Confidence            789999999999999999988 8877644444443

>PRK14526 adenylate kinase; Provisional

Probab=97.53  E-value=0.00013  Score=56.50  Aligned_cols=28  Identities=36%  Similarity=0.765  Sum_probs=24.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      .++|.||||+|||++++.++..++..++
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~~~~~i   29 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNELNYYHI   29 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcee
Confidence            4789999999999999999998876554

>PRK05973 replicative DNA helicase; Provisional

Probab=97.53  E-value=0.00016  Score=56.95  Aligned_cols=39  Identities=33%  Similarity=0.401  Sum_probs=31.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      |+.+...++|.|+||+|||+++..++...   |.++++++.+
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlE  101 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLE  101 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence            56667779999999999999999886644   7778777754

>PRK04182 cytidylate kinase; Provisional

Probab=97.53  E-value=0.0001  Score=55.07  Aligned_cols=29  Identities=41%  Similarity=0.621  Sum_probs=26.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .|+|.|++|+|||++++.++..++.+++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            37899999999999999999999987764

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.52  E-value=0.00019  Score=53.57  Aligned_cols=28  Identities=25%  Similarity=0.563  Sum_probs=24.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||+|++.++...
T Consensus        25 i~~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          25 IKPGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4566779999999999999999998765

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.51  E-value=0.00026  Score=52.86  Aligned_cols=42  Identities=26%  Similarity=0.467  Sum_probs=35.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK  159 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~  159 (197)
                      ..+..|.|+|.+|+|||++|.++...+   |.+++.+++..+...
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~g   65 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRHG   65 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhhc
Confidence            345578999999999999999999887   889999998776543

>KOG2680|consensus

Probab=97.51  E-value=0.00014  Score=58.70  Aligned_cols=89  Identities=29%  Similarity=0.364  Sum_probs=61.9

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGPE  155 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~  155 (197)
                      .+.+.+..+.++|+-.+.+..--.+...-.        |--..+.+|+.|+||+|||.+|..+++.+|  .||..+.+++
T Consensus        32 ~le~~~~s~GmVGQ~~AR~Aagvi~kmi~e--------gkiaGraiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~gSE  103 (454)
T KOG2680|consen   32 VLEPRYVSEGMVGQVKARKAAGVILKMIRE--------GKIAGRAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSE  103 (454)
T ss_pred             ccCcccccccchhhHHHHHHhHHHHHHHHc--------CcccceEEEEecCCCCCceeeeeehhhhhCCCCceeeeecce
Confidence            344566667788888877765444433211        112356799999999999999999999996  4899999999


Q ss_pred             hhhhccCccHHHHHHHHHHH
Q psy6208         156 IMSKLAGESESNLRKAFEEA  175 (197)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~a  175 (197)
                      +.+.-....+ .+.++|..+
T Consensus       104 I~SlEmsKTE-AltQAfRks  122 (454)
T KOG2680|consen  104 IYSLEMSKTE-ALTQAFRKS  122 (454)
T ss_pred             eeeecccHHH-HHHHHHHHh
Confidence            8765544333 455556554

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=97.51  E-value=0.00011  Score=54.40  Aligned_cols=29  Identities=34%  Similarity=0.608  Sum_probs=26.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      |.|+|++|+|||++++.+++.++.+++..
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            78999999999999999999998886553

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=97.50  E-value=8.5e-05  Score=54.29  Aligned_cols=32  Identities=31%  Similarity=0.604  Sum_probs=25.8

Q ss_pred             EECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208         125 LYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus       125 l~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      |.||||+|||++++.||...+..  +++..++..
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~--~is~~~llr   32 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLV--HISVGDLLR   32 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSE--EEEHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcCcc--eechHHHHH
Confidence            67999999999999999999754  555555543

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=97.50  E-value=0.00012  Score=55.84  Aligned_cols=73  Identities=23%  Similarity=0.293  Sum_probs=31.4

Q ss_pred             eEEECCCCCcHHHHHHHH-HHHh---CCeEEEEechhhhhhccCc-----cHH------------HHHHHHHHHhcCCCe
Q psy6208         123 ILLYGPPGTGKTLIARAV-ANET---GAFFFLINGPEIMSKLAGE-----SES------------NLRKAFEEADKNSPS  181 (197)
Q Consensus       123 ill~G~~GtGKT~la~al-a~~~---~~~~~~v~~~~~~~~~~~~-----~~~------------~~~~~~~~a~~~~~~  181 (197)
                      .+++|.||+|||..|-.. ....   |++++. |-..+.-+....     ...            ..............+
T Consensus         3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t-ni~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (193)
T PF05707_consen    3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT-NIPGLNIEKIQPVLGYDIPTRLIDLSDPDFEEDWDDPDDWRKLPKGS   81 (193)
T ss_dssp             EEEE--TTSSHHHHHHHHHHH-GGGS---EEE---TTB-S--EEEE--TTT-S-----S--SSSEEGGGHHHHTTSGTT-
T ss_pred             EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE-ccCCcchhhhhhhccccccccccccccccchhhhhhhhhhcccCCCc
Confidence            578999999999988655 3322   555544 543222111100     000            000111111111467


Q ss_pred             EEEEcccCccCcccC
Q psy6208         182 IIFIDELDAIAPKRE  196 (197)
Q Consensus       182 vl~lDeid~l~~~r~  196 (197)
                      +|+|||++.+.++|.
T Consensus        82 liviDEa~~~~~~r~   96 (193)
T PF05707_consen   82 LIVIDEAQNFFPSRS   96 (193)
T ss_dssp             EEEETTGGGTSB---
T ss_pred             EEEEECChhhcCCCc
Confidence            999999999999875

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=97.49  E-value=0.0004  Score=63.13  Aligned_cols=77  Identities=26%  Similarity=0.383  Sum_probs=49.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEechhhhhh------------c----cCccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMSK------------L----AGESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~~~~~------------~----~~~~~~~~~~~~~~a~~  177 (197)
                      +.....++|+||+|+|||+|+..++..   .+..+++++.++-...            +    ....+..+..+-.....
T Consensus        57 ip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~~  136 (790)
T PRK09519         57 LPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRS  136 (790)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHHcCCChhHeEEecCCCHHHHHHHHHHHhhc
Confidence            556667899999999999999766443   3677888886543220            0    01112222222222344


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ..+++|+||-+..|.+
T Consensus       137 ~~~~LVVIDSI~aL~~  152 (790)
T PRK09519        137 GALDIVVIDSVAALVP  152 (790)
T ss_pred             CCCeEEEEcchhhhcc
Confidence            5799999999998886

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.48  E-value=0.00027  Score=59.02  Aligned_cols=27  Identities=26%  Similarity=0.444  Sum_probs=23.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ......+|.||+|+|||++++.+++.+
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i  157 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAV  157 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            445668999999999999999998876

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.47  E-value=0.00013  Score=55.21  Aligned_cols=29  Identities=28%  Similarity=0.488  Sum_probs=24.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      ..++|.||+|+|||++++.++...+..+.
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~~~~~   31 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQTQLL   31 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCCCeEE
Confidence            36889999999999999999988765443

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.47  E-value=0.00013  Score=56.96  Aligned_cols=38  Identities=29%  Similarity=0.497  Sum_probs=29.3

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      |+..+..+++.|+||+|||.++..++...    +.++++++.
T Consensus        15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~   56 (226)
T PF06745_consen   15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF   56 (226)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES
T ss_pred             CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe
Confidence            45677789999999999999999876433    788888875

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=97.47  E-value=0.00016  Score=61.27  Aligned_cols=25  Identities=44%  Similarity=0.723  Sum_probs=23.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..|||+.||||.|||++|+|+|..+
T Consensus       263 aeGILIAG~PGaGKsTFaqAlAefy  287 (604)
T COG1855         263 AEGILIAGAPGAGKSTFAQALAEFY  287 (604)
T ss_pred             hcceEEecCCCCChhHHHHHHHHHH
Confidence            4589999999999999999999876

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.47  E-value=0.00019  Score=59.51  Aligned_cols=29  Identities=31%  Similarity=0.437  Sum_probs=25.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ..+..+||+||+|+||+++|+++|+.+.+
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC   47 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQHLAQGLLC   47 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            45678999999999999999999988744

>PRK01184 hypothetical protein; Provisional

Probab=97.46  E-value=0.00014  Score=54.91  Aligned_cols=29  Identities=31%  Similarity=0.480  Sum_probs=24.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      -|+|+|+||+||||+++ ++++.+.+++..
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHcCCcEEEh
Confidence            47899999999999987 788888777654

>PRK14529 adenylate kinase; Provisional

Probab=97.45  E-value=0.00017  Score=56.36  Aligned_cols=28  Identities=29%  Similarity=0.507  Sum_probs=25.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      .|+|.||||+|||++++.|+..++.+.+
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~~~~i   29 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYDLAHI   29 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCCc
Confidence            4889999999999999999999986654

>KOG2035|consensus

Probab=97.44  E-value=0.00054  Score=54.79  Aligned_cols=52  Identities=19%  Similarity=0.254  Sum_probs=39.1

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+-+++.+.+..+....++.....             ..-+++++|||+|+||-+.+.++-+++
T Consensus         7 yrpksl~~l~~~~e~~~~Lksl~~~-------------~d~PHll~yGPSGaGKKTrimclL~el   58 (351)
T KOG2035|consen    7 YRPKSLDELIYHEELANLLKSLSST-------------GDFPHLLVYGPSGAGKKTRIMCLLREL   58 (351)
T ss_pred             cCcchhhhcccHHHHHHHHHHhccc-------------CCCCeEEEECCCCCCchhhHHHHHHHH
Confidence            3445667777777777777766541             223579999999999999999998876

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.44  E-value=0.0015  Score=55.78  Aligned_cols=74  Identities=20%  Similarity=0.209  Sum_probs=47.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh----------hh-----ccC----cc-HHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM----------SK-----LAG----ES-ESNLRKAFEEAD  176 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~----------~~-----~~~----~~-~~~~~~~~~~a~  176 (197)
                      +.-++|.|++|+||||++..+|..+   |..+..+++....          ..     +..    .. .......++.+.
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~  179 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK  179 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999998776   6677777663221          00     010    01 112233445555


Q ss_pred             cCCCeEEEEcccCccCc
Q psy6208         177 KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~~  193 (197)
                      ....++||+|=...+..
T Consensus       180 ~~~~DvViIDTaGr~~~  196 (429)
T TIGR01425       180 KENFDIIIVDTSGRHKQ  196 (429)
T ss_pred             hCCCCEEEEECCCCCcc
Confidence            55578999998776654

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.43  E-value=0.00071  Score=55.59  Aligned_cols=40  Identities=15%  Similarity=0.189  Sum_probs=30.3

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHH---------hCCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANE---------TGAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~---------~~~~~~~v~~~~  155 (197)
                      |+....-..|+||||+|||.++..++-.         .+..++|++...
T Consensus        92 Gi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~  140 (313)
T TIGR02238        92 GIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEG  140 (313)
T ss_pred             CCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCC
Confidence            3555566789999999999999987632         145788888654

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.43  E-value=0.00014  Score=59.76  Aligned_cols=73  Identities=25%  Similarity=0.397  Sum_probs=51.0

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEe-chhhhh-------hcc-----CccHHHHHHHHHHHhcCCCeE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG--AFFFLIN-GPEIMS-------KLA-----GESESNLRKAFEEADKNSPSI  182 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~-~~~~~~-------~~~-----~~~~~~~~~~~~~a~~~~~~v  182 (197)
                      ....+++++|++|+|||+++.++.....  .+++.+. ..++.-       ...     +..+-....+++.+.+.+|+.
T Consensus       141 e~~~siii~G~t~sGKTt~lnall~~Ip~~~rivtIEdt~E~~~~~~n~~~l~~r~~~~~~~~v~~~dll~aalR~rPd~  220 (312)
T COG0630         141 EARKSIIICGGTASGKTTLLNALLDFIPPEERIVTIEDTPELKLPHENWVQLVTREGESGSSEVSLEDLLRAALRQRPDY  220 (312)
T ss_pred             HcCCcEEEECCCCCCHHHHHHHHHHhCCchhcEEEEeccccccCCCCCEEEEEecCCCCCccccCHHHHHHHHHhcCCCe
Confidence            4577899999999999999999988773  2333332 112211       011     113346778889999999999


Q ss_pred             EEEcccCc
Q psy6208         183 IFIDELDA  190 (197)
Q Consensus       183 l~lDeid~  190 (197)
                      |+++|+..
T Consensus       221 IivgEvrg  228 (312)
T COG0630         221 IIVGELRG  228 (312)
T ss_pred             EEEeeeec
Confidence            99999853

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.42  E-value=0.00059  Score=51.22  Aligned_cols=28  Identities=25%  Similarity=0.472  Sum_probs=24.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||+|++.++...
T Consensus        25 i~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          25 LKQGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            4566779999999999999999998764

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK10867 signal recognition particle protein; Provisional

Probab=97.42  E-value=0.0019  Score=55.30  Aligned_cols=74  Identities=24%  Similarity=0.374  Sum_probs=46.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhh----------h-----cc----Ccc-HHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMS----------K-----LA----GES-ESNLRKAFEE  174 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~----------~-----~~----~~~-~~~~~~~~~~  174 (197)
                      ++.-+++.|++|+|||+++..+|..+    +..+..+++.....          .     +.    ... ........+.
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~  178 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEE  178 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHH
Confidence            35668999999999999888777654    56677777642211          0     01    111 1222344455


Q ss_pred             HhcCCCeEEEEcccCccC
Q psy6208         175 ADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       175 a~~~~~~vl~lDeid~l~  192 (197)
                      +.....++|++|=...+.
T Consensus       179 a~~~~~DvVIIDTaGrl~  196 (433)
T PRK10867        179 AKENGYDVVIVDTAGRLH  196 (433)
T ss_pred             HHhcCCCEEEEeCCCCcc
Confidence            555567899999887664

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.41  E-value=0.00041  Score=51.60  Aligned_cols=28  Identities=43%  Similarity=0.685  Sum_probs=24.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||+|++.++...
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          24 IKPGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4566679999999999999999998764

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.41  E-value=0.0018  Score=55.37  Aligned_cols=71  Identities=24%  Similarity=0.197  Sum_probs=43.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEechhhhh-------h---------ccCccHHHHHHHHHHHhcC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPEIMS-------K---------LAGESESNLRKAFEEADKN  178 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~~~~~-------~---------~~~~~~~~~~~~~~~a~~~  178 (197)
                      +..++|.||+|+||||++..+|..+     +..+..+++.....       .         ........+...+....  
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~--  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLR--  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhC--
Confidence            4568999999999999998887643     45677777644210       0         01112223333333332  


Q ss_pred             CCeEEEEcccCccC
Q psy6208         179 SPSIIFIDELDAIA  192 (197)
Q Consensus       179 ~~~vl~lDeid~l~  192 (197)
                      ..++|+||......
T Consensus       299 ~~DlVlIDt~G~~~  312 (424)
T PRK05703        299 DCDVILIDTAGRSQ  312 (424)
T ss_pred             CCCEEEEeCCCCCC
Confidence            46899999876543

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.41  E-value=0.0007  Score=51.47  Aligned_cols=33  Identities=18%  Similarity=0.157  Sum_probs=25.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLI  151 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v  151 (197)
                      ....+.+||++|.||||+|-.++-+.   |.++..+
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~iv   56 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVV   56 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEE
Confidence            34579999999999999999987664   5554443

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.40  E-value=0.00029  Score=52.74  Aligned_cols=37  Identities=32%  Similarity=0.468  Sum_probs=29.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      +..+.|.|+||+|||++++.++..+   +..+..++...+
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~~   43 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDAV   43 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCccH
Confidence            4568999999999999999999887   445666766443

>KOG1051|consensus

Probab=97.40  E-value=0.0012  Score=60.59  Aligned_cols=98  Identities=23%  Similarity=0.395  Sum_probs=70.0

Q ss_pred             cccccCc-HHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEEec
Q psy6208          85 YDDIGGC-RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLING  153 (197)
Q Consensus        85 ~~~i~g~-~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v~~  153 (197)
                      .+-+.|. ++.++.+.+.+..             ...++-+|.|.||+|||.++.-+++..          +..++.++.
T Consensus       185 ldPvigr~deeirRvi~iL~R-------------rtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~  251 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSR-------------KTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDF  251 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhc-------------cCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEh
Confidence            3445555 7777776666654             334688999999999999999999875          234555555


Q ss_pred             hhhh--hhccCccHHHHHHHHHHHh-cCCCeEEEEcccCccCccc
Q psy6208         154 PEIM--SKLAGESESNLRKAFEEAD-KNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       154 ~~~~--~~~~~~~~~~~~~~~~~a~-~~~~~vl~lDeid~l~~~r  195 (197)
                      ..+.  ..+.++.+..++.+.+.+. .+..-||||||++.+.+..
T Consensus       252 g~l~aGa~~rge~E~rlk~l~k~v~~~~~gvILfigelh~lvg~g  296 (898)
T KOG1051|consen  252 GSLVAGAKRRGEFEERLKELLKEVESGGGGVILFLGELHWLVGSG  296 (898)
T ss_pred             hhcccCcccchHHHHHHHHHHHHHhcCCCcEEEEecceeeeecCC
Confidence            4333  3345667788888888776 4556799999999987754

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.39  E-value=0.00078  Score=50.36  Aligned_cols=28  Identities=29%  Similarity=0.648  Sum_probs=23.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||+|++.++...
T Consensus        25 i~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          25 IEPGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3456678999999999999999998764

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.38  E-value=0.00016  Score=53.99  Aligned_cols=23  Identities=43%  Similarity=0.791  Sum_probs=20.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +++|+|+||+||||+++.+.+.+
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh
Confidence            48999999999999999998887

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PLN02199 shikimate kinase

Probab=97.38  E-value=0.0005  Score=55.69  Aligned_cols=34  Identities=29%  Similarity=0.468  Sum_probs=30.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .+.+|+|.|.+|+|||++++.+|+.++++++..+
T Consensus       101 ~~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD  134 (303)
T PLN02199        101 NGRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCD  134 (303)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCCCEEehH
Confidence            4668999999999999999999999999887655

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=97.38  E-value=0.00041  Score=53.08  Aligned_cols=37  Identities=19%  Similarity=0.238  Sum_probs=29.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  160 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~  160 (197)
                      -|.++|++|+|||++++.+++..|.+++  ++.++....
T Consensus         3 ~i~itG~~gsGKst~~~~l~~~~g~~~i--~~D~~~~~~   39 (195)
T PRK14730          3 RIGLTGGIASGKSTVGNYLAQQKGIPIL--DADIYAREA   39 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCeEe--eCcHHHHHH
Confidence            4789999999999999999988787765  555554443

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.38  E-value=0.00083  Score=58.47  Aligned_cols=39  Identities=26%  Similarity=0.269  Sum_probs=31.1

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHH----hCCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~----~~~~~~~v~~~  154 (197)
                      |+..+..+++.|+||||||+++..++.+    .+.+.++++..
T Consensus        17 Glp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e   59 (484)
T TIGR02655        17 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE   59 (484)
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            4667788999999999999999988543    25788887754

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=97.38  E-value=0.00068  Score=50.21  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ++..+|.||.|+|||+++++++-
T Consensus        21 ~~~~~i~G~NgsGKS~~l~~i~~   43 (162)
T cd03227          21 GSLTIITGPNGSGKSTILDAIGL   43 (162)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34789999999999999999854

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.36  E-value=0.00017  Score=54.12  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=21.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .++|.||||+|||+++++++..++
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999998764

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.36  E-value=0.00086  Score=50.23  Aligned_cols=30  Identities=27%  Similarity=0.174  Sum_probs=23.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFL  150 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~  150 (197)
                      .-+.+++++|.|||++|-.+|-+.   |.++..
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~i   38 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGHGKKVGV   38 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHCCCeEEE
Confidence            357899999999999999997665   566543

Alternate name: corrinoid adenosyltransferase.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.34  E-value=0.00082  Score=50.66  Aligned_cols=25  Identities=32%  Similarity=0.575  Sum_probs=21.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.-++|.||+|+||+++++++-...
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3457899999999999999997654

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.34  E-value=0.00032  Score=54.02  Aligned_cols=35  Identities=31%  Similarity=0.394  Sum_probs=26.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC-CeEEEEec
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG-AFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~-~~~~~v~~  153 (197)
                      .+.-|.|.|++|+|||||+++|+..++ ..+..++.
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~   40 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQ   40 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeC
Confidence            345688999999999999999999883 33444443

>TIGR00959 ffh signal recognition particle protein

Probab=97.34  E-value=0.0029  Score=54.14  Aligned_cols=74  Identities=28%  Similarity=0.415  Sum_probs=47.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhh----------h------cc-C--ccH-HHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMS----------K------LA-G--ESE-SNLRKAFEE  174 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~----------~------~~-~--~~~-~~~~~~~~~  174 (197)
                      .+..+++.|++|+|||+++..+|..+    +.++..++|.....          .      +. +  ... ......++.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~  177 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEY  177 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHH
Confidence            35568999999999999988887663    56777777642211          0      00 0  111 222344555


Q ss_pred             HhcCCCeEEEEcccCccC
Q psy6208         175 ADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       175 a~~~~~~vl~lDeid~l~  192 (197)
                      +.....++|++|=...+.
T Consensus       178 ~~~~~~DvVIIDTaGr~~  195 (428)
T TIGR00959       178 AKENGFDVVIVDTAGRLQ  195 (428)
T ss_pred             HHhcCCCEEEEeCCCccc
Confidence            555567899999877654

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PLN02459 probable adenylate kinase

Probab=97.33  E-value=0.00029  Score=56.20  Aligned_cols=30  Identities=23%  Similarity=0.319  Sum_probs=25.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ..++|.||||+||+++++.+++.++...+.
T Consensus        30 ~~ii~~G~PGsGK~T~a~~la~~~~~~~is   59 (261)
T PLN02459         30 VNWVFLGCPGVGKGTYASRLSKLLGVPHIA   59 (261)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCcEEe
Confidence            458889999999999999999998865543

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=97.33  E-value=0.00029  Score=54.00  Aligned_cols=29  Identities=28%  Similarity=0.310  Sum_probs=25.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      +.-+++.|.||+|||++++.++.+++..+
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~~~~~   31 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHRAIDI   31 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            34689999999999999999999988755

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=97.33  E-value=0.0016  Score=52.39  Aligned_cols=92  Identities=22%  Similarity=0.338  Sum_probs=55.4

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHH
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES  166 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~  166 (197)
                      +++-.+++++.+.+...-.           -.+.++.||.|..|+||+++++..|...+..++.+....-.+  ..+...
T Consensus         9 ~lVlf~~ai~hi~ri~RvL-----------~~~~Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~~~~~y~--~~~f~~   75 (268)
T PF12780_consen    9 NLVLFDEAIEHIARISRVL-----------SQPRGHALLVGVGGSGRQSLARLAAFICGYEVFQIEITKGYS--IKDFKE   75 (268)
T ss_dssp             -----HHHHHHHHHHHHHH-----------CSTTEEEEEECTTTSCHHHHHHHHHHHTTEEEE-TTTSTTTH--HHHHHH
T ss_pred             ceeeHHHHHHHHHHHHHHH-----------cCCCCCeEEecCCCccHHHHHHHHHHHhccceEEEEeeCCcC--HHHHHH
Confidence            4566667777766654332           134567999999999999999988888888888776432111  111234


Q ss_pred             HHHHHHHHHh-cCCCeEEEEcccCcc
Q psy6208         167 NLRKAFEEAD-KNSPSIIFIDELDAI  191 (197)
Q Consensus       167 ~~~~~~~~a~-~~~~~vl~lDeid~l  191 (197)
                      .++.++..+- .+.+.+++++|-+-.
T Consensus        76 dLk~~~~~ag~~~~~~vfll~d~qi~  101 (268)
T PF12780_consen   76 DLKKALQKAGIKGKPTVFLLTDSQIV  101 (268)
T ss_dssp             HHHHHHHHHHCS-S-EEEEEECCCSS
T ss_pred             HHHHHHHHHhccCCCeEEEecCcccc
Confidence            5555555443 466889999886543

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK12338 hypothetical protein; Provisional

Probab=97.32  E-value=0.00029  Score=57.76  Aligned_cols=30  Identities=30%  Similarity=0.378  Sum_probs=26.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      +.-+++.|+||+|||++|+++|..++...+
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~~~   33 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIKHL   33 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCeEE
Confidence            456899999999999999999999987654

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.32  E-value=0.00076  Score=50.76  Aligned_cols=28  Identities=21%  Similarity=0.433  Sum_probs=24.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.+...+.|.||+|+|||+|++.++...
T Consensus        22 i~~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          22 IEAGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3556678999999999999999998764

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.31  E-value=0.00028  Score=49.95  Aligned_cols=30  Identities=43%  Similarity=0.537  Sum_probs=24.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAF  147 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~  147 (197)
                      +...-|+|.|+-|+|||++++++++.++..
T Consensus        13 ~~g~vi~L~GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen   13 KPGDVILLSGDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             SS-EEEEEEESTTSSHHHHHHHHHHHTT--
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            445669999999999999999999998653

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=97.31  E-value=0.00027  Score=57.88  Aligned_cols=33  Identities=24%  Similarity=0.404  Sum_probs=28.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      .-++|.||+|+|||+++..+|..++..++..++
T Consensus         5 ~~i~i~GptgsGKt~la~~la~~~~~~iis~Ds   37 (307)
T PRK00091          5 KVIVIVGPTASGKTALAIELAKRLNGEIISADS   37 (307)
T ss_pred             eEEEEECCCCcCHHHHHHHHHHhCCCcEEeccc
Confidence            468999999999999999999998877665554

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=97.31  E-value=0.00037  Score=52.59  Aligned_cols=35  Identities=29%  Similarity=0.440  Sum_probs=27.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM  157 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~  157 (197)
                      |.|.|+||+|||++++.++..+   +.++..++..++.
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~   39 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYY   39 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhcc
Confidence            6799999999999999999887   3455556555444

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=97.31  E-value=0.0012  Score=51.64  Aligned_cols=24  Identities=29%  Similarity=0.259  Sum_probs=20.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....++|.||.|+|||++.+.++.
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345689999999999999999976

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=97.30  E-value=0.00046  Score=53.77  Aligned_cols=39  Identities=26%  Similarity=0.273  Sum_probs=31.1

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      |+.....+++.|+||+|||+++..++...   +.++++++..
T Consensus        12 Gi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e   53 (224)
T TIGR03880        12 GFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLE   53 (224)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            45667779999999999999999887543   7788888754

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PLN02165 adenylate isopentenyltransferase

Probab=97.30  E-value=0.00025  Score=58.43  Aligned_cols=34  Identities=15%  Similarity=0.289  Sum_probs=28.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .+..++|.||+|+|||+|+..+|..++..++..+
T Consensus        42 ~g~iivIiGPTGSGKStLA~~LA~~l~~eIIsaD   75 (334)
T PLN02165         42 KDKVVVIMGATGSGKSRLSVDLATRFPSEIINSD   75 (334)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHcCCceecCC
Confidence            3446899999999999999999999887655543

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=97.29  E-value=0.00092  Score=54.16  Aligned_cols=77  Identities=21%  Similarity=0.119  Sum_probs=45.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEec--------hhhhhhc-cCc----cHHHHHHHHHHHh----cCCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLING--------PEIMSKL-AGE----SESNLRKAFEEAD----KNSP  180 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~--------~~~~~~~-~~~----~~~~~~~~~~~a~----~~~~  180 (197)
                      .-+..+||+||.|+||+.+|.++|+.+-+.-..-.|        +++.--. .+.    .-..++.+.+.+.    .+..
T Consensus        17 rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~   96 (290)
T PRK05917         17 KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPY   96 (290)
T ss_pred             CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCc
Confidence            446689999999999999999999887432100011        1110000 000    1234444444432    2445


Q ss_pred             eEEEEcccCccCcc
Q psy6208         181 SIIFIDELDAIAPK  194 (197)
Q Consensus       181 ~vl~lDeid~l~~~  194 (197)
                      .|++||++|.|...
T Consensus        97 kv~ii~~ad~mt~~  110 (290)
T PRK05917         97 KIYIIHEADRMTLD  110 (290)
T ss_pred             eEEEEechhhcCHH
Confidence            79999999998753

>PTZ00293 thymidine kinase; Provisional

Probab=97.29  E-value=0.00056  Score=52.85  Aligned_cols=67  Identities=25%  Similarity=0.276  Sum_probs=39.8

Q ss_pred             eEEECCCCCcHHH-HHHHHHHHh--CCeEEEEechhhhhhc-----c----CccH-----HHHHHHHHHHhcCCCeEEEE
Q psy6208         123 ILLYGPPGTGKTL-IARAVANET--GAFFFLINGPEIMSKL-----A----GESE-----SNLRKAFEEADKNSPSIIFI  185 (197)
Q Consensus       123 ill~G~~GtGKT~-la~ala~~~--~~~~~~v~~~~~~~~~-----~----~~~~-----~~~~~~~~~a~~~~~~vl~l  185 (197)
                      -+++||.++|||+ |++++.+..  +.+++.+.... -+.+     +    |...     .....+++..  ...++|+|
T Consensus         7 ~vi~GpMfSGKTteLLr~i~~y~~ag~kv~~~kp~~-DtR~~~~~~I~Sh~g~~~~a~~v~~~~e~~~~~--~~~dvI~I   83 (211)
T PTZ00293          7 SVIIGPMFSGKTTELMRLVKRFTYSEKKCVVIKYSK-DTRYSDEQNISSHDKQMLKAIKVSKLKEVLETA--KNYDVIAI   83 (211)
T ss_pred             EEEECCCCChHHHHHHHHHHHHHHcCCceEEEEecc-cccCCCCCcEEecCCCcceeEEcCCHHHHHHhc--cCCCEEEE
Confidence            5889999999999 999887654  55555443311 1111     0    1000     1223333333  34689999


Q ss_pred             cccCccC
Q psy6208         186 DELDAIA  192 (197)
Q Consensus       186 Deid~l~  192 (197)
                      ||++++.
T Consensus        84 DEaQFf~   90 (211)
T PTZ00293         84 DEGQFFP   90 (211)
T ss_pred             EchHhhH
Confidence            9999884

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.29  E-value=0.00021  Score=54.50  Aligned_cols=23  Identities=39%  Similarity=0.616  Sum_probs=21.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhC
Q psy6208         123 ILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~  145 (197)
                      |.|.|++|+|||++|+.|+..++
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~   24 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILN   24 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999985

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=97.29  E-value=0.0003  Score=53.49  Aligned_cols=30  Identities=17%  Similarity=0.242  Sum_probs=24.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh-CCeEEEEe
Q psy6208         123 ILLYGPPGTGKTLIARAVANET-GAFFFLIN  152 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~-~~~~~~v~  152 (197)
                      |.+.|+||+|||++|+.++..+ +..++..+
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~~~~~i~~D   32 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILPNCCVIHQD   32 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeEEccc
Confidence            6789999999999999999998 45554433

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>KOG2543|consensus

Probab=97.28  E-value=0.0014  Score=54.62  Aligned_cols=60  Identities=22%  Similarity=0.321  Sum_probs=45.6

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+.+.+.+++.+...+-.-   .       -.-|..++|+|.+|||||.+.+++-+.++.+.++++|-+.
T Consensus         7 ~v~~Re~qi~~L~~Llg~~---~-------~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ec   66 (438)
T KOG2543|consen    7 NVPCRESQIRRLKSLLGNN---S-------CTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVEC   66 (438)
T ss_pred             CccchHHHHHHHHHHhCCC---C-------cccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHh
Confidence            3556677777777765321   0       1245667999999999999999999999999999998554

>PTZ00202 tuzin; Provisional

Probab=97.28  E-value=0.0011  Score=56.70  Aligned_cols=61  Identities=13%  Similarity=0.214  Sum_probs=47.4

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      ...++.|.+....++...+...          ....+.-+.|.|++|+|||++++.+...++...+++|..
T Consensus       260 ~~~~FVGReaEla~Lr~VL~~~----------d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNpr  320 (550)
T PTZ00202        260 VIRQFVSREAEESWVRQVLRRL----------DTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVR  320 (550)
T ss_pred             CccCCCCcHHHHHHHHHHHhcc----------CCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCC
Confidence            3467899999999998887642          112344678999999999999999999888777766643

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=97.28  E-value=0.0011  Score=51.02  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=20.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ...++|.||+|+|||++++.++.
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998863

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>TIGR00376 DNA helicase, putative

Probab=97.27  E-value=0.0028  Score=56.98  Aligned_cols=32  Identities=31%  Similarity=0.470  Sum_probs=25.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      ..++|+||||||||+++.++...+   +.+++.+.
T Consensus       174 ~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a  208 (637)
T TIGR00376       174 DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTA  208 (637)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEc
Confidence            468899999999999888876654   55666655

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.26  E-value=0.0014  Score=63.64  Aligned_cols=37  Identities=43%  Similarity=0.558  Sum_probs=33.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      -.++++|-|.||+|||+|+.|+|+..|..++.+|.++
T Consensus      1542 v~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSe 1578 (4600)
T COG5271        1542 VGKPILLEGSPGVGKTSLITALARKTGKKLIRINLSE 1578 (4600)
T ss_pred             cCCceeecCCCCccHHHHHHHHHHHhcCceEEeeccc
Confidence            3568999999999999999999999999999998654

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=97.26  E-value=0.00091  Score=52.42  Aligned_cols=28  Identities=21%  Similarity=0.328  Sum_probs=22.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.....+-+.||+|+|||+|.+.+...+
T Consensus        31 V~~Gei~~iiGgSGsGKStlLr~I~Gll   58 (263)
T COG1127          31 VPRGEILAILGGSGSGKSTLLRLILGLL   58 (263)
T ss_pred             ecCCcEEEEECCCCcCHHHHHHHHhccC
Confidence            3455667899999999999999996543

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.26  E-value=0.0003  Score=50.71  Aligned_cols=22  Identities=36%  Similarity=0.693  Sum_probs=20.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      ++|.||+|+|||++++.+++..
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            6789999999999999999874

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.26  E-value=0.00093  Score=55.52  Aligned_cols=39  Identities=18%  Similarity=0.164  Sum_probs=29.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      +....-..|+|+||||||.|+..+|-..         +..++|++...
T Consensus       123 i~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~  170 (344)
T PLN03187        123 IETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEG  170 (344)
T ss_pred             CCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCC
Confidence            4555557899999999999999886321         35788888644

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=97.25  E-value=0.00077  Score=55.37  Aligned_cols=78  Identities=23%  Similarity=0.366  Sum_probs=46.0

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEechhhhhh----------------ccCccHHHHHHHHHHHhcC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMSK----------------LAGESESNLRKAFEEADKN  178 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~~~~~----------------~~~~~~~~~~~~~~~a~~~  178 (197)
                      +..+-+-|+||+|+|||+|+-.+..+   .+..+++++++.-+..                .+...+..+..+-...+.+
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~ld~~~a~~lGvdl~rllv~~P~~~E~al~~~e~lirsg  130 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHALDPEYAESLGVDLDRLLVVQPDTGEQALWIAEQLIRSG  130 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS---HHHHHHTT--GGGEEEEE-SSHHHHHHHHHHHHHTT
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCcccchhhHHHhcCccccceEEecCCcHHHHHHHHHHHhhcc
Confidence            33444679999999999998766443   4788888887443211                1122333333333334556


Q ss_pred             CCeEEEEcccCccCccc
Q psy6208         179 SPSIIFIDELDAIAPKR  195 (197)
Q Consensus       179 ~~~vl~lDeid~l~~~r  195 (197)
                      ..+++++|-+..|.|+.
T Consensus       131 ~~~lVVvDSv~al~p~~  147 (322)
T PF00154_consen  131 AVDLVVVDSVAALVPKA  147 (322)
T ss_dssp             SESEEEEE-CTT-B-HH
T ss_pred             cccEEEEecCcccCCHH
Confidence            67899999999998864

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=97.25  E-value=0.00049  Score=54.05  Aligned_cols=38  Identities=26%  Similarity=0.425  Sum_probs=30.8

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      |+.+..-++|.|+||+|||+++..++...    +.++++++.
T Consensus         9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~   50 (242)
T cd00984           9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSL   50 (242)
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeC
Confidence            45666778999999999999999886554    778888874

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.25  E-value=0.00049  Score=56.36  Aligned_cols=39  Identities=23%  Similarity=0.331  Sum_probs=30.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      +....-+.|+||||+|||+++..++...         +..++|++..+
T Consensus        92 i~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~  139 (310)
T TIGR02236        92 IETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN  139 (310)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence            5555667899999999999999997653         34788888655

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.24  E-value=0.00045  Score=53.01  Aligned_cols=23  Identities=48%  Similarity=0.697  Sum_probs=21.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -++++|+||+|||++|+-+++.+
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHH
Confidence            37899999999999999999988

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=97.24  E-value=0.00045  Score=52.01  Aligned_cols=27  Identities=33%  Similarity=0.481  Sum_probs=23.9

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAF  147 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~  147 (197)
                      ..+.+.|++|+|||+++++++..++..
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~~~   30 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFSAK   30 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCE
Confidence            458899999999999999999988764

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=97.24  E-value=0.0017  Score=50.70  Aligned_cols=24  Identities=25%  Similarity=0.402  Sum_probs=20.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ...-++|+||.|+|||++++.++.
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~   52 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGV   52 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHH
Confidence            344689999999999999998864

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=97.23  E-value=0.00058  Score=51.42  Aligned_cols=33  Identities=27%  Similarity=0.339  Sum_probs=26.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      |.|+|++|+|||++++.+++ .|.+++.  +.++..
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i~--~D~~~~   34 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVID--ADKIAH   34 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEEe--cCHHHH
Confidence            68999999999999999998 7766644  444433

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.23  E-value=0.0004  Score=53.22  Aligned_cols=27  Identities=30%  Similarity=0.481  Sum_probs=23.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ++..++|.||+|+|||+|++.++...+
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            456789999999999999999998764

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=97.23  E-value=0.00037  Score=56.43  Aligned_cols=31  Identities=26%  Similarity=0.486  Sum_probs=27.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      ++|.||+|+|||+++..++...+..++.++.
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~~~iis~Ds   32 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLNAEIISVDS   32 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCcEEEech
Confidence            6899999999999999999998877776654

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.22  E-value=0.001  Score=49.52  Aligned_cols=33  Identities=24%  Similarity=0.384  Sum_probs=22.8

Q ss_pred             CceEEECCCCCcHHH-HHHHHHHHhC----CeEEEEec
Q psy6208         121 RGILLYGPPGTGKTL-IARAVANETG----AFFFLING  153 (197)
Q Consensus       121 ~~ill~G~~GtGKT~-la~ala~~~~----~~~~~v~~  153 (197)
                      ..+++.|++|+|||. ++..+.....    ..++.+..
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p   62 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVP   62 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeC
Confidence            689999999999999 5555554442    34555543

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.21  E-value=0.0005  Score=52.46  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=20.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.|.||+|+|||+++++++..+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999886

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.20  E-value=0.001  Score=58.22  Aligned_cols=39  Identities=36%  Similarity=0.417  Sum_probs=30.9

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      |+.....++|+|+||+|||+++..++...   +.++++++..
T Consensus       269 G~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e  310 (509)
T PRK09302        269 GFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFE  310 (509)
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            35667778999999999999999987654   6677777643

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.20  E-value=0.00046  Score=42.70  Aligned_cols=23  Identities=30%  Similarity=0.527  Sum_probs=20.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+|+|++|+|||++..|+.-.+
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999997655

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.20  E-value=0.00033  Score=53.23  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=22.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.-++|.||+|+|||+|++.+.+..
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            35568999999999999999997764

>PRK10646 ADP-binding protein; Provisional

Probab=97.19  E-value=0.0012  Score=48.47  Aligned_cols=29  Identities=34%  Similarity=0.515  Sum_probs=25.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .++.-|+|.|+=|+|||++++++++.++.
T Consensus        26 ~~g~vi~L~GdLGaGKTtf~rgl~~~Lg~   54 (153)
T PRK10646         26 DGATVIYLYGDLGAGKTTFSRGFLQALGH   54 (153)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            34556899999999999999999999865

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.19  E-value=0.0055  Score=49.64  Aligned_cols=74  Identities=18%  Similarity=0.253  Sum_probs=43.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEech-------hhhhhc------c--C----ccHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGP-------EIMSKL------A--G----ESESNLRKAFEEAD  176 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~-------~~~~~~------~--~----~~~~~~~~~~~~a~  176 (197)
                      .....+-|.|+||+|||+|+..+...+.  ..+..+...       +.....      .  |    .....+...+....
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI~gD~~t~~Da~rI~~~g~pvvqi~tG~~Chl~a~mv~~Al~~L~  181 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVIEGDQQTVNDAARIRATGTPAIQVNTGKGCHLDAQMIADAAPRLP  181 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEECCCcCcHHHHHHHHhcCCcEEEecCCCCCcCcHHHHHHHHHHHh
Confidence            3345577999999999999999988752  233333211       010000      0  0    01223444445444


Q ss_pred             cCCCeEEEEcccCcc
Q psy6208         177 KNSPSIIFIDELDAI  191 (197)
Q Consensus       177 ~~~~~vl~lDeid~l  191 (197)
                      ....++|||+.+..|
T Consensus       182 ~~~~d~liIEnvGnL  196 (290)
T PRK10463        182 LDDNGILFIENVGNL  196 (290)
T ss_pred             hcCCcEEEEECCCCc
Confidence            455689999999875

>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=97.18  E-value=0.002  Score=50.78  Aligned_cols=28  Identities=25%  Similarity=0.451  Sum_probs=23.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ..+-.+++.|++|||||+++..+...+.
T Consensus        11 ~~~fr~viIG~sGSGKT~li~~lL~~~~   38 (241)
T PF04665_consen   11 KDPFRMVIIGKSGSGKTTLIKSLLYYLR   38 (241)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            4455799999999999999999876663

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

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.18  E-value=0.0066  Score=49.79  Aligned_cols=76  Identities=24%  Similarity=0.305  Sum_probs=54.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh--------------------hccCccHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS--------------------KLAGESESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~--------------------~~~~~~~~~~~~~~~~a  175 (197)
                      .+.-+|+.|-.|+||||.+-.+|..+   |.+++...|..+..                    ..-+....-.....+.|
T Consensus       138 ~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~A  217 (340)
T COG0552         138 KPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAA  217 (340)
T ss_pred             CcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHH
Confidence            35668999999999999999998877   67777766655531                    11111223445666777


Q ss_pred             hcCCCeEEEEcccCccCcc
Q psy6208         176 DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l~~~  194 (197)
                      .....++|++|=+++|-.+
T Consensus       218 kar~~DvvliDTAGRLhnk  236 (340)
T COG0552         218 KARGIDVVLIDTAGRLHNK  236 (340)
T ss_pred             HHcCCCEEEEeCcccccCc
Confidence            7777899999999988765

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.18  E-value=0.0032  Score=58.97  Aligned_cols=72  Identities=17%  Similarity=0.092  Sum_probs=42.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh----hhccCccHHHHHHHHHHHh-----cCCCeEEEEcccC
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM----SKLAGESESNLRKAFEEAD-----KNSPSIIFIDELD  189 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~----~~~~~~~~~~~~~~~~~a~-----~~~~~vl~lDeid  189 (197)
                      -++|.|++|||||++++++....   |..++.+..+...    ..-.|.....+..++....     -...++|||||+.
T Consensus       364 v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~tGi~a~TI~sll~~~~~~~~~l~~~~vlIVDEAS  443 (988)
T PRK13889        364 LGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGSGIASRTIASLEHGWGQGRDLLTSRDVLVIDEAG  443 (988)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhccCcchhhHHHHHhhhcccccccccCcEEEEECcc
Confidence            56899999999999998875543   6666655433222    1212222334444332211     1234799999998


Q ss_pred             ccCc
Q psy6208         190 AIAP  193 (197)
Q Consensus       190 ~l~~  193 (197)
                      .+..
T Consensus       444 Mv~~  447 (988)
T PRK13889        444 MVGT  447 (988)
T ss_pred             cCCH
Confidence            7653

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.17  E-value=0.00032  Score=52.61  Aligned_cols=23  Identities=35%  Similarity=0.676  Sum_probs=20.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -++|.||+|+|||++++.++...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccC
Confidence            58899999999999999999865

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

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

Probab=97.17  E-value=0.00028  Score=58.51  Aligned_cols=26  Identities=38%  Similarity=0.530  Sum_probs=21.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+..-+.|.||+||||||+.+.||..
T Consensus        29 ~~Gef~~lLGPSGcGKTTlLR~IAGf   54 (352)
T COG3842          29 KKGEFVTLLGPSGCGKTTLLRMIAGF   54 (352)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34445779999999999999999864

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.16  E-value=0.0025  Score=52.04  Aligned_cols=35  Identities=26%  Similarity=0.394  Sum_probs=26.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      .....+.|.|++|+|||+++..++..+   +..+..++
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~   69 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA   69 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            445668999999999999999998765   44444433

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK13808 adenylate kinase; Provisional

Probab=97.16  E-value=0.00043  Score=57.07  Aligned_cols=30  Identities=30%  Similarity=0.572  Sum_probs=26.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|+||||+|||++++.|+..++..++.+
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~ygl~~is~   31 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQYGIVQLST   31 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence            489999999999999999999998755544

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=97.16  E-value=0.0013  Score=49.71  Aligned_cols=76  Identities=22%  Similarity=0.348  Sum_probs=42.2

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh-------------CCeEEEEechhhh----hhc---cCc---------------
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET-------------GAFFFLINGPEIM----SKL---AGE---------------  163 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~-------------~~~~~~v~~~~~~----~~~---~~~---------------  163 (197)
                      ...-.+|.|++|+|||+++..++...             +.++++++.+.-.    ..+   ...               
T Consensus        31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~~~~~~~~~~~~~~~~~~  110 (193)
T PF13481_consen   31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALLQDYDDDANLFFVDLSNW  110 (193)
T ss_dssp             TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHHTTS-HHHHHHHHHH--E
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHhcccCCccceEEeecccc
Confidence            34458999999999999999887654             2367777643211    000   000               


Q ss_pred             --------------cHHHHHHHHHHHhc-CCCeEEEEcccCccCcc
Q psy6208         164 --------------SESNLRKAFEEADK-NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       164 --------------~~~~~~~~~~~a~~-~~~~vl~lDeid~l~~~  194 (197)
                                    ....+..+.+.... ..+++|+||-+..+...
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~~~~~  156 (193)
T PF13481_consen  111 GCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQSLHDG  156 (193)
T ss_dssp             -EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGGG--S
T ss_pred             ccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHHHhcC
Confidence                          11223344444555 56899999999888764

>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []

Probab=97.16  E-value=0.0011  Score=53.64  Aligned_cols=19  Identities=37%  Similarity=0.807  Sum_probs=17.3

Q ss_pred             eEEECCCCCcHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala  141 (197)
                      .++|||+|+|||.|+|.+.
T Consensus        90 ~~VYGPTG~GKSqLlRNLi  108 (369)
T PF02456_consen   90 GVVYGPTGSGKSQLLRNLI  108 (369)
T ss_pred             EEEECCCCCCHHHHHHHhh
Confidence            5899999999999999874

During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.15  E-value=0.00069  Score=55.72  Aligned_cols=40  Identities=25%  Similarity=0.330  Sum_probs=31.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      |+..+.-+.|+||||+|||.++..++...         +..++|+++.+
T Consensus        98 Gi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~  146 (317)
T PRK04301         98 GIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEG  146 (317)
T ss_pred             CccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCC
Confidence            35556668999999999999999998653         34788888755

>cd01878 HflX HflX subfamily

Probab=97.15  E-value=0.0045  Score=47.25  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=20.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...+.|.|++|+|||+|+.++...
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcc
Confidence            357999999999999999998764

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.14  E-value=0.00031  Score=48.41  Aligned_cols=24  Identities=33%  Similarity=0.475  Sum_probs=21.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala  141 (197)
                      .....+.|.||+|+|||+|++++.
T Consensus        13 ~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          13 YGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHhh
Confidence            445679999999999999999987

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>TIGR00235 udk uridine kinase

Probab=97.14  E-value=0.00041  Score=53.47  Aligned_cols=25  Identities=36%  Similarity=0.462  Sum_probs=22.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .-+.|.|++|+|||||+++++..++
T Consensus         7 ~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         7 IIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3477999999999999999998775

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK06761 hypothetical protein; Provisional

Probab=97.14  E-value=0.00053  Score=55.38  Aligned_cols=29  Identities=24%  Similarity=0.322  Sum_probs=24.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      .-++|.|+||+|||++++.+++.+....+
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~   32 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQNGI   32 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcCce
Confidence            35899999999999999999999865433

>KOG0058|consensus

Probab=97.14  E-value=0.0014  Score=58.52  Aligned_cols=27  Identities=33%  Similarity=0.598  Sum_probs=23.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ++++..+-|.||+|+|||+++..+-+.
T Consensus       491 i~pGe~vALVGPSGsGKSTiasLL~rf  517 (716)
T KOG0058|consen  491 IRPGEVVALVGPSGSGKSTIASLLLRF  517 (716)
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            577788999999999999999988554

>PRK07667 uridine kinase; Provisional

Probab=97.14  E-value=0.0007  Score=51.67  Aligned_cols=35  Identities=17%  Similarity=0.203  Sum_probs=26.8

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      .-|.|.|++|+|||++++.++..+   +.++..++..+
T Consensus        18 ~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd   55 (193)
T PRK07667         18 FILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD   55 (193)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence            357899999999999999999876   34555555444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	197
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		1e-100
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		1e-100
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		1e-100
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		1e-100
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		3e-27
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		1e-100
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		3e-27
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		1e-99
2pjh_B	193	Strctural Model Of The P97 N Domain- Npl4 Ubd Compl		4e-40
3qwz_A	211	Crystal Structure Of Faf1 Ubx-P97n-Domain Complex L		2e-36
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		2e-34
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		1e-32
3qc8_A	178	Crystal Structure Of Faf1 Ubx Domain In Complex Wit		3e-31
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		2e-30
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		8e-30
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		7e-29
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		1e-27
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		2e-27
3tiw_A	187	Crystal Structure Of P97n In Complex With The C-Ter		8e-27
3qq7_A	186	Crystal Structure Of The P97 N-Terminal Domain Leng		1e-26
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		8e-26
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		5e-25
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		2e-23
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		4e-23
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		5e-23
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		5e-23
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		5e-23
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		6e-23
2ce7_A	476	Edta Treated Length = 476		7e-23
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		4e-22
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		8e-21
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		1e-20
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		3e-20
3vfd_A	389	Human Spastin Aaa Domain Length = 389		4e-20
3b9p_A	297	Spastin Length = 297		8e-19
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		2e-18
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		4e-18
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		5e-18
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		1e-17
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		1e-17
1ixr_C	312	Ruva-Ruvb Complex Length = 312		6e-06
1ixs_B	318	Structure Of Ruvb Complexed With Ruva Domain Iii Le		7e-06
1hqc_A	324	Structure Of Ruvb From Thermus Thermophilus Hb8 Len		7e-06
1ofh_A	310	Asymmetric Complex Between Hslv And I-domain Delete		3e-04
1d2n_A	272	D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Prot		5e-04
1nsf_A	273	D2 Hexamerization Domain Of N-Ethylmaleimide Sensit		5e-04

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

Iteration: 1
 Score =  360 bits (925), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183
Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243
Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303
Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

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

Iteration: 1
 Score =  360 bits (925), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183
Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243
Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303
Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

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

Iteration: 1
 Score =  360 bits (923), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 170/192 (88%), Positives = 184/192 (95%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183
Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDD+GGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243
Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303
Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

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

Iteration: 1
 Score =  359 bits (922), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 171/192 (89%), Positives = 184/192 (95%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183
Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243
Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303
Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

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

Iteration: 1
 Score =  117 bits (294), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 52/113 (46%), Positives = 79/113 (69%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++DIGG      +++E+V+ P+ HP  F   G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  A F  I GPE+++   GESE+N+R+ F++A + +P ++F DELD+IA  R
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR 586

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

Iteration: 1
 Score =  359 bits (921), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 170/192 (88%), Positives = 184/192 (95%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183
Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDD+GGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243
Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303
Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

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

Iteration: 1
 Score =  117 bits (294), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 52/113 (46%), Positives = 79/113 (69%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++DIGG      +++E+V+ P+ HP  F   G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  A F  I GPE+++   GESE+N+R+ F++A + +P ++F DELD+IA  R
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR 586

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

Iteration: 1
 Score =  358 bits (919), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 170/192 (88%), Positives = 183/192 (95%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+V GGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVHGGMRAVEFKVVETDPSPYCIVAPDTVIH 183
Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILL 125
           CEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILL
Sbjct: 184 CEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL 243
Query: 126 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFI 185
           YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFI
Sbjct: 244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFI 303
Query: 186 DELDAIAPKREK 197
           DELDAIAPKREK
Sbjct: 304 DELDAIAPKREK 315

>pdb|2PJH|B Chain B, Strctural Model Of The P97 N Domain- Npl4 Ubd Complex Length = 193

Iteration: 1
 Score =  160 bits (405), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 72/90 (80%), Positives = 82/90 (91%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 104 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 163
Query: 66  CEGDPIKREEEEEASNAVGYDDIGGCRKQL 95
           CEG+PIKRE+EEE+ N VGYDD+GGCRKQL
Sbjct: 164 CEGEPIKREDEEESLNEVGYDDVGGCRKQL 193

>pdb|3QWZ|A Chain A, Crystal Structure Of Faf1 Ubx-P97n-Domain Complex Length = 211

Iteration: 1
 Score =  148 bits (373), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 67/85 (78%), Positives = 76/85 (89%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEF +V+TDP+PYCIVA DTVIH
Sbjct: 127 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFXVVETDPSPYCIVAPDTVIH 186
Query: 66  CEGDPIKREEEEEASNAVGYDDIGG 90
           CEG+PIKRE+EEE+ N VGYDDIGG
Sbjct: 187 CEGEPIKREDEEESLNEVGYDDIGG 211

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

Iteration: 1
 Score =  141 bits (355), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 66/113 (58%), Positives = 88/113 (77%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V Y+DIGG  KQ+ +I+E+VELPL+HP LF+ +G++PP+GILLYGPPGTGKTL+A+AVA 
Sbjct: 14  VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVAT 73
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           ET A F  + G E++ K  GE  S ++  F+ A + +PSIIFIDE+DAIA KR
Sbjct: 74  ETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKR 126

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

Iteration: 1
 Score =  135 bits (341), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 65/133 (48%), Positives = 91/133 (68%)
Query: 63  VIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRG 122
           V+  + DP+    + + S    Y DIGG   Q+ +IKE VELPL HP L++ +G+KPP+G
Sbjct: 159 VLQDDADPMVSVMKMDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKG 218
Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSI 182
           ++LYG PGTGKTL+A+AVAN+T A F  I G E++ K  G+     R+ F+ A +N+PSI
Sbjct: 219 VILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSI 278
Query: 183 IFIDELDAIAPKR 195
           +FIDE+DAI  KR
Sbjct: 279 VFIDEIDAIGTKR 291

>pdb|3QC8|A Chain A, Crystal Structure Of Faf1 Ubx Domain In Complex With P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn Motif Of Ubx Domain Suffering Conformational Change Length = 178

Iteration: 1
 Score =  130 bits (328), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 59/73 (80%), Positives = 67/73 (91%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 106 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 165
Query: 66  CEGDPIKREEEEE 78
           CEG+PIKRE+EEE
Sbjct: 166 CEGEPIKREDEEE 178

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

Iteration: 1
 Score =  128 bits (322), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 61/113 (53%), Positives = 78/113 (69%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V Y D+GG   Q  +I+E VELPL    L++ IG+ PPRG+LLYGPPGTGKT++ +AVAN
Sbjct: 169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN 228
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
            T A F  +NG E + K  GE    +R  F  A +N+PSIIFIDE+D+IA KR
Sbjct: 229 STKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR 281

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

Iteration: 1
 Score =  126 bits (316), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 55/111 (49%), Positives = 83/111 (74%)
Query: 85  YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET 144
           YD +GG  KQ+ +IKE++ELP++HP LF+++G+  P+G++LYGPPGTGKTL+ARAVA+ T
Sbjct: 147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT 206
Query: 145 GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
              F  ++G E++ K  GE    +R+ F  A +++PSIIF+DE+D+I   R
Sbjct: 207 DCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTR 257

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

Iteration: 1
 Score =  123 bits (308), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 58/113 (51%), Positives = 75/113 (66%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V Y D+GGC+ Q+ +++E+VELPL  P  F  +G+ PP+GILLYGPPGTGKTL ARAVAN
Sbjct: 206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN 265
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
            T A F  + G E++ K  GE    +R+ FE A      IIF DE+DA+   R
Sbjct: 266 RTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGAR 318

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

Iteration: 1
 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/129 (44%), Positives = 85/129 (65%)
Query: 67  EGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLY 126
           E DP+           + +D IGG  +Q+ +++E++ELPL++P +F+ +G+KPP+G+LLY
Sbjct: 162 ETDPLVYNMTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLY 221
Query: 127 GPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFID 186
           GPPGTGKTL+A+AVA   GA F       I+ K  GES   +R+ F  A ++ P IIF+D
Sbjct: 222 GPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMD 281
Query: 187 ELDAIAPKR 195
           E+DAI  +R
Sbjct: 282 EVDAIGGRR 290

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

Iteration: 1
 Score =  118 bits (295), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 52/113 (46%), Positives = 79/113 (69%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++DIGG      +++E+V+ P+ HP  F   G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 12  VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  A F  I GPE+++   GESE+N+R+ F++A + +P ++F DELD+IA  R
Sbjct: 72  ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR 124

>pdb|3TIW|A Chain A, Crystal Structure Of P97n In Complex With The C-Terminus Of Gp78 Length = 187

Iteration: 1
 Score =  116 bits (290), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 51/64 (79%), Positives = 58/64 (90%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 124 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 183
Query: 66  CEGD 69
           CEG+
Sbjct: 184 CEGE 187

>pdb|3QQ7|A Chain A, Crystal Structure Of The P97 N-Terminal Domain Length = 186

Iteration: 1
 Score =  116 bits (290), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 51/64 (79%), Positives = 58/64 (90%)
Query: 6   EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
           EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 123 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 182
Query: 66  CEGD 69
           CEG+
Sbjct: 183 CEGE 186

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

Iteration: 1
 Score =  113 bits (282), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 52/111 (46%), Positives = 74/111 (66%)
Query: 85  YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET 144
           Y D+GG  KQ+ ++ E + LP++    FK +G++ P+G L+YGPPGTGKTL+ARA A +T
Sbjct: 180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT 239
Query: 145 GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
            A F  +  P+++    GE    +R AF  A + +P+IIFIDELDAI  KR
Sbjct: 240 NATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKR 290

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

Iteration: 1
 Score =  110 bits (275), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 50/113 (44%), Positives = 75/113 (66%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + DIG       ++   +  P+R+P  FKA+G+  P G+LL GPPG GKTL+A+AVAN
Sbjct: 7   VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E+G  F  + GPE+++   GESE  +R+ F+ A  ++P +IF DE+DA+ P+R
Sbjct: 67  ESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR 119

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

Iteration: 1
 Score =  105 bits (261), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 53/113 (46%), Positives = 74/113 (65%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++D+ G       +KE V LP++ P LFK    KP  GILLYGPPGTGK+ +A+AVA 
Sbjct: 24  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 82
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFIDE+DA+   R
Sbjct: 83  EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTR 135

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

Iteration: 1
 Score =  103 bits (258), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 52/113 (46%), Positives = 74/113 (65%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++D+ G       +KE V LP++ P LFK    KP  GILLYGPPGTGK+ +A+AVA 
Sbjct: 15  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 73
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++DA+   R
Sbjct: 74  EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTR 126

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

Iteration: 1
 Score =  103 bits (258), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 52/113 (46%), Positives = 74/113 (65%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++D+ G       +KE V LP++ P LFK    KP  GILLYGPPGTGK+ +A+AVA 
Sbjct: 48  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 106
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++DA+   R
Sbjct: 107 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTR 159

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

Iteration: 1
 Score =  103 bits (258), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 52/113 (46%), Positives = 74/113 (65%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++D+ G       +KE V LP++ P LFK    KP  GILLYGPPGTGK+ +A+AVA 
Sbjct: 33  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 91
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++DA+   R
Sbjct: 92  EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTR 144

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

Iteration: 1
 Score =  103 bits (257), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 50/111 (45%), Positives = 73/111 (65%), Gaps = 1/111 (0%)
Query: 85  YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET 144
           + D+ GC +   ++ E+VE  LR PS F+ +G K P+G+L+ GPPGTGKTL+A+A+A E 
Sbjct: 11  FADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 69
Query: 145 GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
              FF I+G + +    G   S +R  FE+A K +P IIFIDE+DA+  +R
Sbjct: 70  KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 120

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

Iteration: 1
 Score =  103 bits (257), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 66/187 (35%), Positives = 92/187 (49%), Gaps = 24/187 (12%)
Query: 20  YFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPA-----------PYCIVAADTVIHCEG 68
           YF     P+ K D     GGM+   +    T+PA           P  I      I   G
Sbjct: 19  YFQSMVPPIPKQDGGEQNGGMQCKPYGAGPTEPAHPVDERLKNLEPKMIELIMNEIMDHG 78
Query: 69  DPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGP 128
            P            V ++DI G     A IKE+V  P+  P +F  +   PP+GILL+GP
Sbjct: 79  PP------------VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGL-RGPPKGILLFGP 125
Query: 129 PGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDEL 188
           PGTGKTLI + +A+++GA FF I+   + SK  GE E  +R  F  A    P++IFIDE+
Sbjct: 126 PGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEI 185
Query: 189 DAIAPKR 195
           D++  +R
Sbjct: 186 DSLLSQR 192

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

Iteration: 1
 Score =  103 bits (256), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 51/113 (45%), Positives = 73/113 (64%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+GG  + + ++KE+VE  L+ PS F  IG + P+GILL GPPGTGKTL+ARAVA 
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAG 71
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    FF I+G + +    G   + +R  F +A  ++P I+FIDE+DA+   R
Sbjct: 72  EANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHR 124

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

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 50/113 (44%), Positives = 72/113 (63%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+GG  + + ++KE+VE  L+ PS F  IG + P+GILL GPPGTG TL+ARAVA 
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAG 71
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    FF I+G + +    G   + +R  F +A  ++P I+FIDE+DA+   R
Sbjct: 72  EANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHR 124

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

Iteration: 1
 Score = 96.7 bits (239), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 55/135 (40%), Positives = 80/135 (59%), Gaps = 9/135 (6%)
Query: 69  DPIKREEEEEASNA-------VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPR 121
           DP K++ + +   A       V + D+ G       +KE V LP++ P LF      P R
Sbjct: 110 DPEKKKLQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRT-PWR 168
Query: 122 GILLYGPPGTGKTLIARAVANE-TGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSP 180
           GILL+GPPGTGK+ +A+AVA E   + FF I+  +++SK  GESE  ++  F+ A +N P
Sbjct: 169 GILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKP 228
Query: 181 SIIFIDELDAIAPKR 195
           SIIFIDE+D++   R
Sbjct: 229 SIIFIDEIDSLCGSR 243

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 51/116 (43%), Positives = 73/116 (62%), Gaps = 2/116 (1%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G       +KE V LP++ P LF      P RGILL+GPPGTGK+ +A+AVA 
Sbjct: 9   VKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVAT 67
Query: 143 E-TGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK 197
           E   + FF I+  +++SK  GESE  ++  F+ A +N PSIIFIDE+D++   R +
Sbjct: 68  EANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSE 123

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

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 49/113 (43%), Positives = 69/113 (61%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   ++ E+V+  L++P  +  +G K P+G+LL GPPGTGKTL+A+AVA 
Sbjct: 8   VRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAG 66
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    FF + G   +    G   S +R  FE A K +PSIIFIDE+DAI   R
Sbjct: 67  EAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119

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

Iteration: 1
 Score = 94.0 bits (232), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 51/115 (44%), Positives = 71/115 (61%), Gaps = 1/115 (0%)
Query: 81  NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAV 140
            AV +DDI G       ++E+V LP   P LF  +   P RG+LL+GPPG GKT++A+AV
Sbjct: 110 TAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-PARGLLLFGPPGNGKTMLAKAV 168
Query: 141 ANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           A E+ A FF I+   + SK  GE E  +R  F  A +  PSIIFID++D++  +R
Sbjct: 169 AAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCER 223

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

Iteration: 1
 Score = 89.7 bits (221), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 50/112 (44%), Positives = 63/112 (56%), Gaps = 1/112 (0%)
Query: 78  EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIA 137
           E    V + DI G       ++EMV LP   P LF  +   P +G+LL+GPPG GKTL+A
Sbjct: 13  EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRA-PAKGLLLFGPPGNGKTLLA 71
Query: 138 RAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELD 189
           RAVA E  A F  I+   + SK  G+ E  +R  F  A    PSIIFIDE+D
Sbjct: 72  RAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVD 123

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

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 44/113 (38%), Positives = 67/113 (59%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   +++E V+  L+ P  F  +G K P+G LL GPPG GKTL+A+AVA 
Sbjct: 3   VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    F  + G E +  + G   + +R  F+EA   +P I++IDE+DA+  KR
Sbjct: 62  EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKR 114

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

Iteration: 1
 Score = 87.4 bits (215), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 46/113 (40%), Positives = 70/113 (61%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +ARAVA 
Sbjct: 28  VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 86
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR
Sbjct: 87  EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 139

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

Iteration: 1
 Score = 87.4 bits (215), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 46/113 (40%), Positives = 70/113 (61%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +ARAVA 
Sbjct: 37  VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 95
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR
Sbjct: 96  EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148

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

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 46/113 (40%), Positives = 70/113 (61%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +ARAVA 
Sbjct: 37  VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 95
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR
Sbjct: 96  EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148

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

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 46/113 (40%), Positives = 70/113 (61%), Gaps = 1/113 (0%)
Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +ARAVA 
Sbjct: 13  VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 71
Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR
Sbjct: 72  EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 124

>pdb|1IXR|C Chain C, Ruva-Ruvb Complex Length = 312

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 7/80 (8%)
Query: 118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADK 177
           +P   +LL+GPPG GKT +A  +A+E G    + +GP I     G+  + L  + EE D 
Sbjct: 36  EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILANSLEEGD- 92
Query: 178 NSPSIIFIDELDAIAPKREK 197
               I+FIDE+  ++ + E+
Sbjct: 93  ----ILFIDEIHRLSRQAEE 108

>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii Length = 318

Iteration: 1
 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 7/80 (8%)
Query: 118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADK 177
           +P   +LL+GPPG GKT +A  +A+E G    + +GP I     G+  + L  + EE D 
Sbjct: 36  EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILANSLEEGD- 92
Query: 178 NSPSIIFIDELDAIAPKREK 197
               I+FIDE+  ++ + E+
Sbjct: 93  ----ILFIDEIHRLSRQAEE 108

>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8 Length = 324

Iteration: 1
 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 7/80 (8%)
Query: 118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADK 177
           +P   +LL+GPPG GKT +A  +A+E G    + +GP I     G+  + L  + EE D 
Sbjct: 36  EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILANSLEEGD- 92
Query: 178 NSPSIIFIDELDAIAPKREK 197
               I+FIDE+  ++ + E+
Sbjct: 93  ----ILFIDEIHRLSRQAEE 108

>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu (h. Influenzae) Length = 310

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 53/114 (46%), Gaps = 23/114 (20%)
Query: 92  RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLI 151
           R +  Q++E    PLRH           P+ IL+ GP G GKT IAR +A    A F  +
Sbjct: 34  RWRRMQLQE----PLRHEV--------TPKNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
Query: 152 NGPEI--MSKLAGESESNLRK-------AFEEADKNSPSIIFIDELDAIAPKRE 196
              +   +  +  E +S +R        A +  ++N   I+FIDE+D I  K E
Sbjct: 82  EATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQN--GIVFIDEIDKICKKGE 133

>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein Length = 272

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 7/77 (9%)
Query: 119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES----NLRKAFEE 174
           P   +LL GPP +GKT +A  +A E+   F  I  P+   K+ G SE+     ++K F++
Sbjct: 63  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPD---KMIGFSETAKCQAMKKIFDD 119
Query: 175 ADKNSPSIIFIDELDAI 191
           A K+  S + +D+++ +
Sbjct: 120 AYKSQLSCVVVDDIERL 136

>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive Factor (Nsf) Length = 273

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 7/77 (9%)
Query: 119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES----NLRKAFEE 174
           P   +LL GPP +GKT +A  +A E+   F  I  P+   K+ G SE+     ++K F++
Sbjct: 62  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPD---KMIGFSETAKCQAMKKIFDD 118
Query: 175 ADKNSPSIIFIDELDAI 191
           A K+  S + +D+++ +
Sbjct: 119 AYKSQLSCVVVDDIERL 135

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	197
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	1e-101
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	6e-88
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	9e-54
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	4e-65
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	6e-56
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-55
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	2e-51
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	6e-49
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	3e-47
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	7e-47
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	4e-46
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	2e-45
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	1e-42
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	2e-40
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	4e-39
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	7e-34
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	8e-34
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	2e-33
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	2e-33
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	8e-33
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	5e-31
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	2e-30
3qwz_A	211	Transitional endoplasmic reticulum ATPase; UBX, P9	3e-30
3tiw_A	187	Transitional endoplasmic reticulum ATPase; beta-ba	9e-22
1cz4_A	185	VCP-like ATPase; double-PSI beta-barrel, beta-CLAM	1e-15
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	1e-11
3pvs_A	447	Replication-associated recombination protein A; ma	2e-11
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	1e-10
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-08
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	1e-06
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	1e-06
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	1e-06
2qgz_A	308	Helicase loader, putative primosome component; str	1e-06
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	2e-06
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	1e-05
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	1e-05
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	1e-05
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	1e-05
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	1e-05
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	2e-05
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	5e-05
2chg_A	226	Replication factor C small subunit; DNA-binding pr	7e-05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-04
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	2e-04
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	3e-04
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	5e-04
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	5e-04
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	6e-04
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	6e-04

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score =  300 bits (770), Expect = e-101
 Identities = 170/193 (88%), Positives = 183/193 (94%)

Query: 5   PEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVI 64
            EG   NLFEVYLKPYFLEAYRP+ K D+F+V GGMRAVEFK+V+TDP+PYCIVA DTVI
Sbjct: 123 VEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVHGGMRAVEFKVVETDPSPYCIVAPDTVI 182

Query: 65  HCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGIL 124
           HCEG+PIKRE+EEE+ N VGYDDIGGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGIL
Sbjct: 183 HCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGIL 242

Query: 125 LYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIF 184
           LYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIF
Sbjct: 243 LYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIF 302

Query: 185 IDELDAIAPKREK 197
           IDELDAIAPKREK
Sbjct: 303 IDELDAIAPKREK 315

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

 Score =  200 bits (512), Expect = 4e-65
 Identities = 70/126 (55%), Positives = 93/126 (73%), Gaps = 1/126 (0%)

Query: 71  IKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPG 130
            K  E +E  N V Y+DIGG  KQ+ +I+E+VELPL+HP LF+ +G++PP+GILLYGPPG
Sbjct: 3   AKAMEVDERPN-VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPG 61

Query: 131 TGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA 190
           TGKTL+A+AVA ET A F  + G E++ K  GE  S ++  F+ A + +PSIIFIDE+DA
Sbjct: 62  TGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDA 121

Query: 191 IAPKRE 196
           IA KR 
Sbjct: 122 IAAKRT 127

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score =  178 bits (453), Expect = 6e-56
 Identities = 55/124 (44%), Positives = 82/124 (66%), Gaps = 1/124 (0%)

Query: 72  KREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGT 131
            RE   E    V ++DIGG      +++E+V+ P+ HP  F   G+ P +G+L YGPPG 
Sbjct: 2   LRETVVEVPQ-VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGC 60

Query: 132 GKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAI 191
           GKTL+A+A+ANE  A F  I GPE+++   GESE+N+R+ F++A + +P ++F DELD+I
Sbjct: 61  GKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSI 120

Query: 192 APKR 195
           A  R
Sbjct: 121 AKAR 124

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

 Score =  176 bits (449), Expect = 1e-55
 Identities = 50/113 (44%), Positives = 75/113 (66%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + DIG       ++   +  P+R+P  FKA+G+  P G+LL GPPG GKTL+A+AVAN
Sbjct: 7   VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E+G  F  + GPE+++   GESE  +R+ F+ A  ++P +IF DE+DA+ P+R
Sbjct: 67  ESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR 119

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

 Score =  166 bits (421), Expect = 2e-51
 Identities = 26/123 (21%), Positives = 55/123 (44%), Gaps = 4/123 (3%)

Query: 75  EEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKT 134
             +E   +   + I      + ++ +  EL ++           P   +LL GPP +GKT
Sbjct: 22  TNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKT 78

Query: 135 LIARAVANETGAFFFLINGPEIMSKLAGESESN-LRKAFEEADKNSPSIIFIDELDAIAP 193
            +A  +A E+   F  I  P+ M   +  ++   ++K F++A K+  S + +D+++ +  
Sbjct: 79  ALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLD 138

Query: 194 KRE 196
              
Sbjct: 139 YVP 141

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score =  160 bits (408), Expect = 6e-49
 Identities = 54/125 (43%), Positives = 76/125 (60%), Gaps = 2/125 (1%)

Query: 71  IKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPG 130
                  E  N V ++D+ G       +KE V LP++ P LFK    KP  GILLYGPPG
Sbjct: 4   PFTAILSEKPN-VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPG 61

Query: 131 TGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA 190
           TGK+ +A+AVA E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++DA
Sbjct: 62  TGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDA 121

Query: 191 IAPKR 195
           +   R
Sbjct: 122 LTGTR 126

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

 Score =  155 bits (394), Expect = 3e-47
 Identities = 50/113 (44%), Positives = 66/113 (58%), Gaps = 1/113 (0%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + DI G       ++EMV LP   P LF  +   P +G+LL+GPPG GKTL+ARAVA 
Sbjct: 18  VEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVAT 76

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  A F  I+   + SK  G+ E  +R  F  A    PSIIFIDE+D++  +R
Sbjct: 77  ECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSER 129

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

 Score =  155 bits (394), Expect = 7e-47
 Identities = 51/114 (44%), Positives = 72/114 (63%), Gaps = 2/114 (1%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G       +KE V LP++ P LF      P RGILL+GPPGTGK+ +A+AVA 
Sbjct: 9   VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSYLAKAVAT 67

Query: 143 ETG-AFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E   + FF I+  +++SK  GESE  ++  F+ A +N PSIIFIDE+D++   R
Sbjct: 68  EANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR 121

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score =  154 bits (390), Expect = 4e-46
 Identities = 50/113 (44%), Positives = 72/113 (63%), Gaps = 1/113 (0%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++DI G     A IKE+V  P+  P +F  +   PP+GILL+GPPGTGKTLI + +A+
Sbjct: 81  VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIAS 139

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           ++GA FF I+   + SK  GE E  +R  F  A    P++IFIDE+D++  +R
Sbjct: 140 QSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR 192

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

 Score =  153 bits (387), Expect = 2e-45
 Identities = 50/113 (44%), Positives = 70/113 (61%), Gaps = 1/113 (0%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V +DDI G       ++E+V LP   P LF  +   P RG+LL+GPPG GKT++A+AVA 
Sbjct: 112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAA 170

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E+ A FF I+   + SK  GE E  +R  F  A +  PSIIFID++D++  +R
Sbjct: 171 ESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCER 223

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score =  145 bits (367), Expect = 1e-42
 Identities = 54/125 (43%), Positives = 77/125 (61%), Gaps = 2/125 (1%)

Query: 71  IKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPG 130
           +      E  N V ++D+ G       +KE V LP++ P LFK    KP  GILLYGPPG
Sbjct: 37  LSSAILSEKPN-VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPG 94

Query: 131 TGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA 190
           TGK+ +A+AVA E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++DA
Sbjct: 95  TGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDA 154

Query: 191 IAPKR 195
           +   R
Sbjct: 155 LTGTR 159

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score =  141 bits (357), Expect = 2e-40
 Identities = 55/138 (39%), Positives = 80/138 (57%), Gaps = 9/138 (6%)

Query: 66  CEGDPIKREEEEEASNA-------VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVK 118
              DP K++ + +   A       V + D+ G       +KE V LP++ P LF      
Sbjct: 107 ESDDPEKKKLQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRT 165

Query: 119 PPRGILLYGPPGTGKTLIARAVANETG-AFFFLINGPEIMSKLAGESESNLRKAFEEADK 177
           P RGILL+GPPGTGK+ +A+AVA E   + FF I+  +++SK  GESE  ++  F+ A +
Sbjct: 166 PWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARE 225

Query: 178 NSPSIIFIDELDAIAPKR 195
           N PSIIFIDE+D++   R
Sbjct: 226 NKPSIIFIDEIDSLCGSR 243

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

 Score =  134 bits (339), Expect = 4e-39
 Identities = 27/115 (23%), Positives = 50/115 (43%), Gaps = 8/115 (6%)

Query: 86  DDIGGCRKQLAQIKEMVELPLRHP-SLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET 144
           + + G          M +L +    +  K   +K P  + ++G  G GK+     V  + 
Sbjct: 4   NKLDGFYIA---PAFMDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKM 60

Query: 145 GAFFFLINGPEIMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAPKR 195
           G    +++  E+ S  AGE    +R+ + EA     K +   +FI++LDA A + 
Sbjct: 61  GINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRM 115

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

 Score =  120 bits (302), Expect = 7e-34
 Identities = 46/118 (38%), Positives = 71/118 (60%), Gaps = 1/118 (0%)

Query: 78  EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIA 137
             +  V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +A
Sbjct: 8   TEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLA 66

Query: 138 RAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           RAVA E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR
Sbjct: 67  RAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 124

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

 Score =  120 bits (302), Expect = 8e-34
 Identities = 49/119 (41%), Positives = 69/119 (57%), Gaps = 1/119 (0%)

Query: 77  EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLI 136
                 V + D+ G  +   ++ E+V+  L++P  +  +G K P+G+LL GPPGTGKTL+
Sbjct: 2   NAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLL 60

Query: 137 ARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           A+AVA E    FF + G   +    G   S +R  FE A K +PSIIFIDE+DAI   R
Sbjct: 61  AKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119

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

 Score =  118 bits (299), Expect = 2e-33
 Identities = 51/118 (43%), Positives = 74/118 (62%), Gaps = 1/118 (0%)

Query: 78  EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIA 137
           E      + D+ GC +   ++ E+VE  LR PS F+ +G K P+G+L+ GPPGTGKTL+A
Sbjct: 4   EDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLA 62

Query: 138 RAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           +A+A E    FF I+G + +    G   S +R  FE+A K +P IIFIDE+DA+  +R
Sbjct: 63  KAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 120

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

 Score =  119 bits (300), Expect = 2e-33
 Identities = 46/116 (39%), Positives = 71/116 (61%), Gaps = 1/116 (0%)

Query: 80  SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARA 139
           +  V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +ARA
Sbjct: 34  APKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARA 92

Query: 140 VANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           VA E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR
Sbjct: 93  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148

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

 Score =  117 bits (295), Expect = 8e-33
 Identities = 44/115 (38%), Positives = 67/115 (58%), Gaps = 1/115 (0%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   +++E V+  L+ P  F  +G K P+G LL GPPG GKTL+A+AVA 
Sbjct: 3   VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK 197
           E    F  + G E +  + G   + +R  F+EA   +P I++IDE+DA+  KR  
Sbjct: 62  EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRST 116

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

 Score =  116 bits (293), Expect = 5e-31
 Identities = 51/119 (42%), Positives = 74/119 (62%), Gaps = 1/119 (0%)

Query: 77  EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLI 136
              +  V + D+GG  + + ++KE+VE  L+ PS F  IG + P+GILL GPPGTGKTL+
Sbjct: 7   PSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLL 65

Query: 137 ARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           ARAVA E    FF I+G + +    G   + +R  F +A  ++P I+FIDE+DA+   R
Sbjct: 66  ARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHR 124

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

 Score =  115 bits (289), Expect = 2e-30
 Identities = 46/113 (40%), Positives = 70/113 (61%), Gaps = 1/113 (0%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +ARAVA 
Sbjct: 28  VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 86

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR
Sbjct: 87  EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 139

>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B Length = 211

 Score =  109 bits (273), Expect = 3e-30
 Identities = 67/87 (77%), Positives = 76/87 (87%)

Query: 4   VPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTV 63
             EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEF +V+TDP+PYCIVA DTV
Sbjct: 125 TVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFXVVETDPSPYCIVAPDTV 184

Query: 64  IHCEGDPIKREEEEEASNAVGYDDIGG 90
           IHCEG+PIKRE+EEE+ N VGYDDIGG
Sbjct: 185 IHCEGEPIKREDEEESLNEVGYDDIGG 211

>3tiw_A Transitional endoplasmic reticulum ATPase; beta-barrel alpha-helix, transport protein ATPase ubiquitin ubiquitin, phosphorylation; 1.80A {Homo sapiens} PDB: 3qq8_A 3qq7_A 3qc8_A Length = 187

 Score = 86.6 bits (214), Expect = 9e-22
 Identities = 51/69 (73%), Positives = 59/69 (85%)

Query: 1   MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAA 60
           +    EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA 
Sbjct: 119 IDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAP 178

Query: 61  DTVIHCEGD 69
           DTVIHCEG+
Sbjct: 179 DTVIHCEGE 187

>1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate recognition DOM hydrolase; NMR {Thermoplasma acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A Length = 185

 Score = 70.7 bits (173), Expect = 1e-15
 Identities = 18/75 (24%), Positives = 29/75 (38%), Gaps = 7/75 (9%)

Query: 10  SNLFEVYLKPYFLEAYRPVHKDDLFIVRG----GMRAVEFKIVDTDPAPYC-IVAADTVI 64
               E Y++   +   RP+ + D   V G    G   + FK+V T P+     +  +T I
Sbjct: 113 GEGIEEYVQRALI--RRPMLEQDNISVPGLTLAGQTGLLFKVVKTLPSKVPVEIGEETKI 170

Query: 65  HCEGDPIKREEEEEA 79
               +P     EE  
Sbjct: 171 EIREEPASEVLEEGG 185

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A* Length = 456

 Score = 61.5 bits (149), Expect = 1e-11
 Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 6/85 (7%)

Query: 118 KPPRGILLYGPPGTGKTLIARAVANETGAF--FFLINGPEIMSKLAGESESNLRKAFEEA 175
              R +LL GPPGTGKT +A A+A E G+   F  + G E+ S    ++E  L + F  A
Sbjct: 61  MAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTE-VLMENFRRA 119

Query: 176 DKN---SPSIIFIDELDAIAPKREK 197
                     ++  E+  + P   +
Sbjct: 120 IGLRIKETKEVYEGEVTELTPCETE 144

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 61.0 bits (149), Expect = 2e-11
 Identities = 28/87 (32%), Positives = 42/87 (48%), Gaps = 16/87 (18%)

Query: 105 PLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGES 164
           PL      +AI       ++L+GPPGTGKT +A  +A    A    I+        +G  
Sbjct: 40  PLP-----RAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADVERISA-----VTSGVK 89

Query: 165 ESNLRKAFEEADKN----SPSIIFIDE 187
           E  +R+A E A +N      +I+F+DE
Sbjct: 90  E--IREAIERARQNRNAGRRTILFVDE 114

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 58.2 bits (140), Expect = 1e-10
 Identities = 31/159 (19%), Positives = 55/159 (34%), Gaps = 23/159 (14%)

Query: 47  IVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGCRKQLAQIKEMVELPL 106
           + D   AP    + D     EG   K   EE     +G   +    K   +I+E   L L
Sbjct: 1   MTDAATAPT---SIDLRAEYEGSGAKEVLEELDRELIGLKPV----KD--RIRETAAL-L 50

Query: 107 RHPSLFKAIGVKPP---RGILLYGPPGTGKTLIARAVANETGAF-------FFLINGPEI 156
                 + +G+        +   G PGTGKT +A  +A                +   ++
Sbjct: 51  LVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDL 110

Query: 157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           + +  G +    ++  + A      ++FIDE   +    
Sbjct: 111 VGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPD 146

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 516

 Score = 51.0 bits (122), Expect = 5e-08
 Identities = 26/125 (20%), Positives = 44/125 (35%), Gaps = 16/125 (12%)

Query: 85  YDDIGGCRKQLAQIKEMVEL-PLRHPSLFKAIGVKPP---RGILLYGPPGTGKTLIARAV 140
              + G +  + ++K  +        + FK  G       R  +LYGPPG GKT  A  V
Sbjct: 38  LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLV 97

Query: 141 ANETGAFFFLIN-----GPEIMSKLAGESESN-------LRKAFEEADKNSPSIIFIDEL 188
           A E G      N        +++     +  N             +       +I +DE+
Sbjct: 98  AQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEV 157

Query: 189 DAIAP 193
           D ++ 
Sbjct: 158 DGMSG 162

>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 = 51.0 bits (121), Expect = 7e-08
 Identities = 38/236 (16%), Positives = 75/236 (31%), Gaps = 67/236 (28%)

Query: 7   GEM----SNLFEVYLKPY--------FLEAYRPVHK----DDLF---------------I 35
           GE      ++  V+   +          +  + +      D +                +
Sbjct: 12  GEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL 71

Query: 36  VRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIGGCRKQL 95
           +      V+  + +     Y  +           PIK E+ + +     Y +    R +L
Sbjct: 72  LSKQEEMVQKFVEEVLRINYKFLM---------SPIKTEQRQPSMMTRMYIE---QRDRL 119

Query: 96  AQ-----IKEMVELPLRHPSLFKAI-GVKPPRGILLYGPPGTGKTLIARAVANETG---A 146
                   K  V     +  L +A+  ++P + +L+ G  G+GKT +A  V         
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179

Query: 147 FFFLI--------NGP----EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA 190
             F I        N P    E++ KL  + + N       +D +S   + I  + A
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT---SRSDHSSNIKLRIHSIQA 232

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 46.2 bits (110), Expect = 1e-06
 Identities = 17/79 (21%), Positives = 35/79 (44%), Gaps = 12/79 (15%)

Query: 117 VKPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMSKL----AGESESNLR 169
            K  +G+ L+G  G GKT +  A+ANE         ++  PE+  +L      ++ +   
Sbjct: 51  GKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKL 110

Query: 170 KAFEEADKNSPSIIFIDEL 188
              ++       ++ +D+L
Sbjct: 111 DYIKKVP-----VLMLDDL 124

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20 Length = 389

 Score = 47.1 bits (111), Expect = 1e-06
 Identities = 24/127 (18%), Positives = 40/127 (31%), Gaps = 30/127 (23%)

Query: 91  CR-KQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE------ 143
            R +QL Q+  ++       +  +  G   PR   L G PGTGKT+  R +         
Sbjct: 21  HREQQLQQLDILLG------NWLRNPGHHYPR-ATLLGRPGTGKTVTLRKLWELYKDKTT 73

Query: 144 --------------TGAFFFLINGPEIMSKLAGESESNLRKAFEEA--DKNSPSIIFIDE 187
                         T     +     I     G S         E   +++    + +D+
Sbjct: 74  ARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDD 133

Query: 188 LDAIAPK 194
              +AP 
Sbjct: 134 AFNLAPD 140

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C* Length = 324

 Score = 46.8 bits (112), Expect = 1e-06
 Identities = 26/65 (40%), Positives = 37/65 (56%), Gaps = 7/65 (10%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSI 182
           +LL+GPPG GKT +A  +A+E G    + +GP I     G+  + L  + EE D     I
Sbjct: 41  LLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILANSLEEGD-----I 93

Query: 183 IFIDE 187
           +FIDE
Sbjct: 94  LFIDE 98

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 46.8 bits (111), Expect = 1e-06
 Identities = 16/87 (18%), Positives = 33/87 (37%), Gaps = 13/87 (14%)

Query: 110 SLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLINGPEIMSKL----A 161
              +       +G+ LYG  G GK+ +  A+A+E     G    L++ P     +    +
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAIS 201

Query: 162 GESESNLRKAFEEADKNSPSIIFIDEL 188
             S      A +        ++ +D++
Sbjct: 202 NGSVKEEIDAVKNVP-----VLILDDI 223

>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* Length = 180

 Score = 45.4 bits (108), Expect = 2e-06
 Identities = 14/79 (17%), Positives = 31/79 (39%), Gaps = 13/79 (16%)

Query: 118 KPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLINGPEIMSKLAGE----SESNLR 169
           +  +G+   G PG GKT +A A         G   +  +  +++ +L        ++   
Sbjct: 36  EEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEGKDTKFL 95

Query: 170 KAFEEADKNSPSIIFIDEL 188
           K    +      ++ +D+L
Sbjct: 96  KTVLNSP-----VLVLDDL 109

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli} Length = 500

 Score = 44.3 bits (105), Expect = 1e-05
 Identities = 21/80 (26%), Positives = 30/80 (37%), Gaps = 21/80 (26%)

Query: 123 ILLYGPPGTGKTLIARAVAN--ETGAFF------FL----INGPEIMSKLAGESESNLRK 170
           + L GPPG  K+LIAR +    +    F      F     + GP  +  L  E       
Sbjct: 44  VFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALKDEGR----- 98

Query: 171 AFEEADKNSP---SIIFIDE 187
            +E           I+F+DE
Sbjct: 99  -YERLTSGYLPEAEIVFLDE 117

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 386

 Score = 43.9 bits (103), Expect = 1e-05
 Identities = 26/130 (20%), Positives = 45/130 (34%), Gaps = 34/130 (26%)

Query: 91  CR-KQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE------ 143
            R  Q+ +I  ++               + P  I +YG  GTGKT + + V ++      
Sbjct: 24  HREDQIRKIASILA---------PLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFL 74

Query: 144 ----------------TGAFFFLINGPEIMSKLAGESESNLRKAFEEA--DKNSPSIIFI 185
                                 L+   ++     G S + L +   +A  D  S  +I +
Sbjct: 75  GKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVL 134

Query: 186 DELDAIAPKR 195
           DE+DA   K 
Sbjct: 135 DEIDAFVKKY 144

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 384

 Score = 43.6 bits (102), Expect = 1e-05
 Identities = 21/137 (15%), Positives = 40/137 (29%), Gaps = 39/137 (28%)

Query: 91  CR-KQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE------ 143
            R   L      +   +++               L  G  GTGKT +++ + NE      
Sbjct: 24  FREDILRDAAIAIRYFVKNEV---------KFSNLFLGLTGTGKTFVSKYIFNEIEEVKK 74

Query: 144 -----TGAFFFLINGPEIMSKL------------------AGESESNLRKAFEEADKNSP 180
                       +N  E+                       G +        +   +N  
Sbjct: 75  EDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIR 134

Query: 181 SIIFIDELDAIAPKREK 197
           +II++DE+D +  +R  
Sbjct: 135 AIIYLDEVDTLVKRRGG 151

>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* Length = 310

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 29/88 (32%), Positives = 41/88 (46%), Gaps = 13/88 (14%)

Query: 119 PPRGILLYGPPGTGKTLIARAVANETGAFF----------FLINGPEIMSKLAGESESNL 168
            P+ IL+ GP G GKT IAR +A    A F              G E+ S +  +   + 
Sbjct: 49  TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIR-DLTDSA 107

Query: 169 RKAFEEADKNSPSIIFIDELDAIAPKRE 196
             A +  ++N   I+FIDE+D I  K E
Sbjct: 108 GGAIDAVEQN--GIVFIDEIDKICKKGE 133

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp} Length = 338

 Score = 43.3 bits (103), Expect = 1e-05
 Identities = 24/67 (35%), Positives = 29/67 (43%), Gaps = 12/67 (17%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESNLRKAFEEADKNSP 180
           IL  GP G GKT +A  ++ E  A       P I     LA    +NL     E D    
Sbjct: 58  ILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSGDLAA-ILTNL----SEGD---- 108

Query: 181 SIIFIDE 187
            I+FIDE
Sbjct: 109 -ILFIDE 114

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A* Length = 334

 Score = 42.9 bits (102), Expect = 2e-05
 Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 12/67 (17%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK--LAGESESNLRKAFEEADKNSP 180
           +LL GPPG GKT +A  +A+E      + +GP ++ +  +A    ++L    E  D    
Sbjct: 54  VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAA-ILTSL----ERGD---- 104

Query: 181 SIIFIDE 187
            ++FIDE
Sbjct: 105 -VLFIDE 110

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus} Length = 193

 Score = 41.5 bits (97), Expect = 5e-05
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 116 GVKPPRGILLYGPPGTGKTLIARAVANETGAFFF 149
           G++ P  I++ G P TGKT +++A+A        
Sbjct: 1   GMQTPALIIVTGHPATGKTTLSQALATGLRLPLL 34

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus} Length = 226

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 12/21 (57%), Positives = 15/21 (71%)

Query: 123 ILLYGPPGTGKTLIARAVANE 143
           +L  GPPGTGKT  A A+A +
Sbjct: 41  LLFSGPPGTGKTATAIALARD 61

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A Length = 319

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 12/21 (57%), Positives = 15/21 (71%)

Query: 123 ILLYGPPGTGKTLIARAVANE 143
           +L  GPPGTGKT  A A+A +
Sbjct: 41  LLFSGPPGTGKTATAIALARD 61

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20 Length = 327

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 12/21 (57%), Positives = 14/21 (66%)

Query: 123 ILLYGPPGTGKTLIARAVANE 143
           +L  GPPG GKT  A A+A E
Sbjct: 49  LLFAGPPGVGKTTAALALARE 69

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25 Length = 191

 Score = 39.3 bits (91), Expect = 3e-04
 Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL-AGESESNLRKAFEE 174
              +LL G PG+GK+ IA A+AN  G      +  ++   +  G  +  L ++ ++
Sbjct: 9   GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDLWGYIKHGRIDPWLPQSHQQ 64

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae} Length = 318

 Score = 39.1 bits (90), Expect = 5e-04
 Identities = 11/125 (8%), Positives = 34/125 (27%), Gaps = 31/125 (24%)

Query: 99  KEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE----------TGAFF 148
           ++   +      ++ ++     +   +     + K  +   V +E              +
Sbjct: 27  EDFTRI---FLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDY 83

Query: 149 FLING----------PEIMSKLAGE------SESNLRKAFEEADKNS--PSIIFIDELDA 190
             I+            +I   ++ E      S   L        K     ++I I   + 
Sbjct: 84  IHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPEN 143

Query: 191 IAPKR 195
           +  ++
Sbjct: 144 LLSEK 148

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A* Length = 178

 Score = 38.2 bits (88), Expect = 5e-04
 Identities = 11/58 (18%), Positives = 22/58 (37%)

Query: 119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAD 176
             R I+L G    GK+ I R + +     +       ++  +  + +S       +AD
Sbjct: 2   TTRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDAD 59

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti} Length = 202

 Score = 38.5 bits (89), Expect = 6e-04
 Identities = 10/32 (31%), Positives = 17/32 (53%)

Query: 118 KPPRGILLYGPPGTGKTLIARAVANETGAFFF 149
           + P  I++ G  G+GK+ +  A+A   G  F 
Sbjct: 16  RFPGSIVVMGVSGSGKSSVGEAIAEACGYPFI 47

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli} Length = 145

 Score = 37.5 bits (88), Expect = 6e-04
 Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 15/69 (21%)

Query: 123 ILLYGPPGTGKTLIARAV----ANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKN 178
           + LYG PGTG+   AR +     N  G F        +  +L  ++   L      A   
Sbjct: 27  VWLYGAPGTGRMTGARYLHQFGRNAQGEF--------VYRELTPDNAPQLNDFIALAQGG 78

Query: 179 SPSIIFIDE 187
           +   + +  
Sbjct: 79  T---LVLSH 84

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	197
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.96
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.95
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.95
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.95
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.95
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.95
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.95
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.93
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.9
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.88
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.88
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.88
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.86
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.86
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.85
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.85
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.84
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.83
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.83
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.83
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.82
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.82
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.81
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.78
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.76
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.75
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.72
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.72
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.7
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.67
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.64
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.58
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.58
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.57
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.56
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.53
3co5_A	143	Putative two-component system transcriptional RES	99.53
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.53
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.52
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.52
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.49
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.49
3pvs_A	447	Replication-associated recombination protein A; ma	99.48
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.47
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.47
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.45
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.44
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.43
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.41
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.4
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.38
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.38
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.37
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.35
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.34
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.33
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.32
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.32
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.31
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.3
3bos_A	242	Putative DNA replication factor; P-loop containing	99.29
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.27
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.27
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.26
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.25
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.24
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.24
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.24
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.24
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.24
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.22
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.22
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.18
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.17
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.15
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.12
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.12
2qgz_A	308	Helicase loader, putative primosome component; str	99.11
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.11
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.05
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.02
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.01
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.91
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.81
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.8
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.77
3qwz_A	211	Transitional endoplasmic reticulum ATPase; UBX, P9	98.75
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.7
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.7
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.69
2fna_A	357	Conserved hypothetical protein; structural genomic	98.64
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	98.63
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.62
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.6
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.59
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.48
2cvh_A	220	DNA repair and recombination protein RADB; filamen	98.3
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.29
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	98.26
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	98.25
1xp8_A	366	RECA protein, recombinase A; recombination, radior	98.23
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	98.23
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.23
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	98.21
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	98.19
1u94_A	356	RECA protein, recombinase A; homologous recombinat	98.18
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.17
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.17
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	98.16
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.14
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	98.12
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	98.07
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	98.04
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	98.03
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.02
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	98.02
2z43_A	324	DNA repair and recombination protein RADA; archaea	98.0
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.0
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.99
3io5_A	333	Recombination and repair protein; storage dimer, i	97.97
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.97
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.97
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.96
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.96
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.95
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.94
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.93
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.93
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.92
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.91
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.9
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.89
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.89
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.89
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.89
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.89
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.89
1via_A	175	Shikimate kinase; structural genomics, transferase	97.88
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.88
3tiw_A	187	Transitional endoplasmic reticulum ATPase; beta-ba	97.86
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.85
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.84
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.84
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.83
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.81
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.8
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.79
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.79
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.78
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.78
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.78
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.77
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.77
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.76
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.75
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.75
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.74
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.73
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.72
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.72
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.72
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.71
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.71
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.71
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.71
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.7
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.7
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.7
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.7
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.7
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.69
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.69
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.69
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.68
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.68
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.67
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.67
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.66
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.66
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.66
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.64
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.64
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.63
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.63
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.61
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.6
3f8t_A	506	Predicted ATPase involved in replication control,	97.6
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.59
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.59
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.57
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.57
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.57
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.55
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.54
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.54
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.54
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.53
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.53
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.53
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.52
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	97.51
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.49
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.48
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	97.47
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	97.45
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.45
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	97.44
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	97.42
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.41
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.4
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	97.4
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.39
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.38
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.38
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	97.38
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.37
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.37
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.36
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.36
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.34
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	97.34
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	97.33
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.32
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.32
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	97.29
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.27
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.27
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.27
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	97.27
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.27
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.25
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.25
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.25
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.23
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	97.23
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	97.23
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	97.22
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.21
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.21
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.2
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.19
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.18
2jv2_A	83	Putative uncharacterized protein PH1500; AAA ATPas	97.18
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	97.17
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.16
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	97.15
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	97.15
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.14
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.14
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.14
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	97.12
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	97.12
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.12
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.09
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.09
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	97.09
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.07
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	97.05
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.03
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	97.03
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.02
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.0
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.98
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	96.97
2xxa_A	433	Signal recognition particle protein; protein trans	96.96
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.95
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.95
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.95
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	96.93
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.93
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.92
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.88
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.87
2og2_A	359	Putative signal recognition particle receptor; nuc	96.84
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.83
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.82
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.8
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	96.79
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.78
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.76
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.76
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.73
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	96.73
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.73
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	96.72
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.72
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	96.72
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.7
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	96.68
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	96.68
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.68
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.67
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.65
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.65
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.65
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.63
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.63
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.59
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.59
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.58
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.57
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.55
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.54
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.52
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.52
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.52
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.52
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.5
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.5
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	96.49
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.49
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.49
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	96.48
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.47
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	96.47
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.47
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.47
1g6h_A	257	High-affinity branched-chain amino acid transport	96.46
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.45
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.45
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.43
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.43
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.43
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.43
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.42
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.41
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.41
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.41
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.41
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	96.4
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.39
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.39
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.39
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	96.37
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.37
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.36
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	96.36
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.36
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.36
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.32
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.31
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.31
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.29
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.28
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.28
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.27
3h1t_A	590	Type I site-specific restriction-modification syst	96.27
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	96.26
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.26
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	96.24
1cz4_A	185	VCP-like ATPase; double-PSI beta-barrel, beta-CLAM	96.22
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.2
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.2
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.19
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.17
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	96.16
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.15
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.13
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.12
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.12
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.1
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	96.09
1nrj_B	218	SR-beta, signal recognition particle receptor beta	96.08
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	96.07
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.07
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	96.07
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	96.05
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.04
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.01
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.01
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	96.01
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	96.0
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.0
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.95
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	95.95
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.93
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	95.93
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.92
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	95.89
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.89
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	95.88
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.88
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.87
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.87
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.85
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.85
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	95.85
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.84
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.83
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	95.82
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.79
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.79
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.77
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.76
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.76
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.76
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.76
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.75
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	95.74
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.74
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.73
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.71
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.71
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.71
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.68
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.67
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.67
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	95.67
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.66
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	95.64
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.63
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	95.63
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.63
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	95.63
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.62
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.61
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.61
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	95.58
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.57
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	95.56
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.56
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.55
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.53
3ice_A	422	Transcription termination factor RHO; transcriptio	95.51
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.5
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.5
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.49
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.49
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.49
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.47
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.47
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.47
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.47
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.46
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.45
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.44
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.41
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.41
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.39
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.39
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.38
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	95.38
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	95.38
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.37
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.37
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.35
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.34
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	95.33
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.31
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.3
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.3
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.3
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	95.3
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	95.3
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.28
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.27
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	95.27
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	95.27
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.26
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	95.26
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.24
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.24
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.23
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.23
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.23
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	95.22
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.22
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.22
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	95.21
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	95.21
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.21
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.2
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.19
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.18
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	95.18
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	95.17
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.17
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	95.16
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.16
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	95.15
4gl2_A	699	Interferon-induced helicase C domain-containing P;	95.15
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.14
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.14
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	95.12
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.09
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.09
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.08
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.07
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.07
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	95.07
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	95.06
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.04
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	95.04
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	95.04
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.03
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.01
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.99
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.98

>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=100.00  E-value=1.2e-32  Score=245.91  Aligned_cols=189  Identities=89%  Similarity=1.430  Sum_probs=176.8

Q ss_pred             cchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCCCccc
Q psy6208           8 EMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDD   87 (197)
Q Consensus         8 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (197)
                      .....+..++++||.+.++++..|+.+.+......+.|+|+.++|.+.+.+...|.+.+...+..........+.++|+|
T Consensus       126 ~~~~~~~~~l~~~~~~~~~~v~~gd~~~v~~~~~~~~f~V~~~~P~~~~~v~~~T~i~~~~~~~~~~~~~~~~~~v~~~d  205 (806)
T 3cf2_A          126 ITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDD  205 (806)
T ss_dssp             CCSCHHHHTHHHHHTTTCCEEETTCEEEECCTTSCEEEEEEEESSSSEEECCTTSBCCBCSCCBCCCTTSCCSSSCCGGG
T ss_pred             cchhHHHHHHHHHHHhcCCcccCCCEEEEecCCcEEEEEEEEEeCCCCeEECCCcEEEEeccccCcccccccCCCCChhh
Confidence            34567888999999999999999999999999999999999999999999999999998887776655555667899999


Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHH
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESN  167 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~  167 (197)
                      |+|+++++++|++.+..++.+|+.|..+|+.++++||||||||||||++|+++|++++.+++.++++++.+.+.++++..
T Consensus       206 IgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~gese~~  285 (806)
T 3cf2_A          206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESN  285 (806)
T ss_dssp             CCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccchHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         168 LRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       168 ~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      ++.+|+.|...+|+||||||+|.|+++|+
T Consensus       286 lr~lF~~A~~~~PsIIfIDEiDal~~~r~  314 (806)
T 3cf2_A          286 LRKAFEEAEKNAPAIIFIDELDAIAPKRE  314 (806)
T ss_dssp             HHHHHHHHTTSCSEEEEEESGGGTCCTTT
T ss_pred             HHHHHHHHHHcCCeEEEEehhcccccccC
Confidence            99999999999999999999999999875

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

Probab=99.96  E-value=2.1e-29  Score=209.39  Aligned_cols=119  Identities=47%  Similarity=0.872  Sum_probs=115.0

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      ...|.++|+||+|+++++++|++.+.+|+.+|+.|+.+|+.+++|+|||||||||||++|+|+|++++.+++.++++++.
T Consensus       140 ~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~  219 (405)
T 4b4t_J          140 EKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELV  219 (405)
T ss_dssp             ECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGS
T ss_pred             cCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhh
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+.|+++..++.+|..|+..+||||||||+|.++++|.
T Consensus       220 sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~  258 (405)
T 4b4t_J          220 QKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRV  258 (405)
T ss_dssp             CSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCS
T ss_pred             ccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCC
Confidence            999999999999999999999999999999999999874

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

Probab=99.95  E-value=2.9e-27  Score=202.47  Aligned_cols=189  Identities=88%  Similarity=1.423  Sum_probs=174.1

Q ss_pred             cchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCCCccc
Q psy6208           8 EMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDD   87 (197)
Q Consensus         8 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (197)
                      ...+.++.+.++|..+.++++..++.+.+.+..+.+.+++....+.....+.+.+.+.+.+.+..........+.++|++
T Consensus       126 ~~~ga~d~~~Kp~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~  205 (489)
T 3hu3_A          126 ITGNLFEVYLKPYFLEAYRPIRKGDIFLVHGGMRAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDD  205 (489)
T ss_dssp             CCSCHHHHTHHHHHTTTCEEEETTCEEEEEETTEEEEEEEEEEESSSEEEECTTCEEECCSSCBCHHHHHHHHTCCCGGG
T ss_pred             ccchhHHHHhHHHHhhcCcccccCCEEEecCCCceEEEEEEeecCCCceEEcCCeEEEEccCcccccccccccCCCCHHH
Confidence            34578999999999999999999999999999999999999999989888999999999888776655555566789999


Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHH
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESN  167 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~  167 (197)
                      |+|++.+++++.+.+..++..++.+..+++..+.++||+||||||||++|++++++++.+++.++|+++.+.+.++.+..
T Consensus       206 i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~~~~~  285 (489)
T 3hu3_A          206 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESN  285 (489)
T ss_dssp             CCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhcchhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         168 LRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       168 ~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      ++.+|+.+....|++|||||||.|+++++
T Consensus       286 ~~~~f~~A~~~~p~iLfLDEId~l~~~~~  314 (489)
T 3hu3_A          286 LRKAFEEAEKNAPAIIFIDELDAIAPKRE  314 (489)
T ss_dssp             HHHHHHHHHHTCSEEEEEESHHHHCBCTT
T ss_pred             HHHHHHHHHhcCCcEEEecchhhhccccc
Confidence            99999999999999999999999998764

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

Probab=99.95  E-value=2.8e-28  Score=203.43  Aligned_cols=120  Identities=52%  Similarity=0.895  Sum_probs=115.8

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+..+.++|+||+|+++++++|++.+.+|+.+|+.|+.+|+.+++|+|||||||||||++|+|+|++++.+|+.++++++
T Consensus       173 ~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l  252 (437)
T 4b4t_I          173 MDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSEL  252 (437)
T ss_dssp             EESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGG
T ss_pred             eccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHh
Confidence            44577899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      .+.+.|+++..++.+|..|+..+||||||||+|.++++|.
T Consensus       253 ~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~  292 (437)
T 4b4t_I          253 IQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRY  292 (437)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCS
T ss_pred             hhccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCC
Confidence            9999999999999999999999999999999999999884

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

Probab=99.95  E-value=5e-28  Score=203.63  Aligned_cols=119  Identities=45%  Similarity=0.859  Sum_probs=114.9

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      ...+.++|+||+|+++++++|++.+.+|+.+|+.|..+|+.+++|+|||||||||||++|+|+|++++.+++.++++++.
T Consensus       173 ~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~  252 (437)
T 4b4t_L          173 FEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIV  252 (437)
T ss_dssp             EESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTC
T ss_pred             ccCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhc
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+.|+++..++.+|..|+...||||||||+|.++++|.
T Consensus       253 sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~  291 (437)
T 4b4t_L          253 DKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRF  291 (437)
T ss_dssp             CSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCS
T ss_pred             cccchHHHHHHHHHHHHHHhcCCceeeeecccccccccc
Confidence            999999999999999999999999999999999999873

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

Probab=99.95  E-value=5.9e-28  Score=203.16  Aligned_cols=119  Identities=50%  Similarity=0.877  Sum_probs=115.0

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      +..|.++|+||+|+++++++|++.+.+++.+|+.|+.+|+.+++|+|||||||||||++|+|+|++++.+|+.++++++.
T Consensus       201 ~e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~  280 (467)
T 4b4t_H          201 EEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELV  280 (467)
T ss_dssp             ESSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGC
T ss_pred             cCCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhh
Confidence            34678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.++|+++..++.+|..|+..+||||||||+|.++++|.
T Consensus       281 sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~  319 (467)
T 4b4t_H          281 QKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARF  319 (467)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCS
T ss_pred             cccCCHHHHHHHHHHHHHHhcCCceEeeccccccccccc
Confidence            999999999999999999999999999999999999874

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

Probab=99.95  E-value=5e-28  Score=203.51  Aligned_cols=120  Identities=43%  Similarity=0.790  Sum_probs=115.3

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+..+.++|+||+|+++++++|++.+.+|+.+|+.|+.+|+.+++|+|||||||||||++|+|+|++++.+++.++++++
T Consensus       172 ~~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l  251 (434)
T 4b4t_M          172 VDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQL  251 (434)
T ss_dssp             EESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGG
T ss_pred             cCCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhh
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      .+.+.|+++..++.+|..|+..+||||||||+|.++++|.
T Consensus       252 ~~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~  291 (434)
T 4b4t_M          252 VQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRF  291 (434)
T ss_dssp             CSSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCS
T ss_pred             hhcccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccC
Confidence            9999999999999999999999999999999999998874

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

Probab=99.95  E-value=1.7e-27  Score=200.04  Aligned_cols=119  Identities=51%  Similarity=0.860  Sum_probs=114.7

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      ...+.++|+||+|+++++++|.+.+.+++.+|+.|..+|+.+++|+|||||||||||++|+|+|++++.+++.++++++.
T Consensus       164 ~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~  243 (428)
T 4b4t_K          164 NEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFV  243 (428)
T ss_dssp             ESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTC
T ss_pred             CCCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhh
Confidence            44678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         158 SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+.|+++..++.+|..|+..+||||||||+|.++++|.
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~  282 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRF  282 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCS
T ss_pred             ccccchhHHHHHHHHHHHHHcCCCeeechhhhhhhcccc
Confidence            999999999999999999999999999999999998873

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

Probab=99.90  E-value=2.9e-24  Score=192.06  Aligned_cols=117  Identities=44%  Similarity=0.854  Sum_probs=110.2

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++++|+++.++++.+.+.+++.+++.|..+|..++.++|||||||||||++|+++|++++.+++.++++++.+.
T Consensus       471 ~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~  550 (806)
T 3cf2_A          471 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM  550 (806)
T ss_dssp             CCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTT
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhcc
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |+|++++.++.+|+.|+...||||||||+|.++++|+
T Consensus       551 ~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~  587 (806)
T 3cf2_A          551 WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG  587 (806)
T ss_dssp             TCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC----
T ss_pred             ccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccC
Confidence            9999999999999999999999999999999999874

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

Probab=99.88  E-value=6.1e-23  Score=165.85  Aligned_cols=116  Identities=45%  Similarity=0.864  Sum_probs=109.5

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++|+|++.+++++.+.+.+++.+++.+..+++.++.+++|+||||||||++|+++|++++.+++.++|+++.+.
T Consensus         9 ~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~   88 (301)
T 3cf0_A            9 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM   88 (301)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHH
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhh
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+..+..++.+|..+....|++|||||+|.+++++
T Consensus        89 ~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~  124 (301)
T 3cf0_A           89 WFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR  124 (301)
T ss_dssp             HHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHH
T ss_pred             hcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhcc
Confidence            999888899999999998889999999999987654

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

Probab=99.88  E-value=2.6e-22  Score=163.70  Aligned_cols=116  Identities=44%  Similarity=0.751  Sum_probs=106.6

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-CCeEEEEechhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-GAFFFLINGPEIMS  158 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-~~~~~~v~~~~~~~  158 (197)
                      .+.++|+||+|++.+++.+.+.+.+++.+++.+... ..+++++||+||||||||++|+++|+++ +.+++.++++++.+
T Consensus         6 ~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~-~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~   84 (322)
T 1xwi_A            6 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS   84 (322)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTT-CCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCC
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCC-CCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHh
Confidence            457899999999999999999999999999888743 4567899999999999999999999999 88999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      .+.+..+..++.+|..+....|+||||||+|.++++|+
T Consensus        85 ~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~  122 (322)
T 1xwi_A           85 KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS  122 (322)
T ss_dssp             SSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSS
T ss_pred             hhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccc
Confidence            99999999999999999988999999999999988764

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

Probab=99.88  E-value=2.5e-22  Score=163.66  Aligned_cols=115  Identities=45%  Similarity=0.789  Sum_probs=106.2

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++|+|++.+++++.+.+..++..+..+.. +..++.++||+||||||||++|+++|++++.+++.++++++.+.
T Consensus        12 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~   90 (322)
T 3eie_A           12 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK   90 (322)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTT
T ss_pred             CCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhc
Confidence            56789999999999999999999999988888776 34667899999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+..+..++.+|..+....|+||||||+|.|.+++
T Consensus        91 ~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~  126 (322)
T 3eie_A           91 WMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTR  126 (322)
T ss_dssp             TGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC-
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccC
Confidence            999999999999999999999999999999999865

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

Probab=99.86  E-value=1.1e-21  Score=156.61  Aligned_cols=116  Identities=57%  Similarity=0.997  Sum_probs=109.3

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++++|++.+++++.+.+..++..++.+..++...+.++||+||||||||++|+++++.++.+++.+++.++...
T Consensus        11 ~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~   90 (285)
T 3h4m_A           11 RPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKK   90 (285)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCC
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHh
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+.....+..+|..+....|+||||||+|.+.+++
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~  126 (285)
T 3h4m_A           91 FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKR  126 (285)
T ss_dssp             STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCC
T ss_pred             ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccC
Confidence            999888899999999999899999999999997654

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

Probab=99.86  E-value=1.2e-21  Score=161.80  Aligned_cols=116  Identities=45%  Similarity=0.782  Sum_probs=101.5

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ..+.++|++|+|++.+++.+.+.+.+++..+..+.. +..++.++||+||||||||++|+++|++++.+++.++++++..
T Consensus        44 ~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~  122 (355)
T 2qp9_X           44 EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS  122 (355)
T ss_dssp             ---CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHS
T ss_pred             cCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhh
Confidence            356789999999999999999999999999888876 4567789999999999999999999999999999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.+..+..++.+|..+....|+||||||+|.|.++|
T Consensus       123 ~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r  159 (355)
T 2qp9_X          123 KWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTR  159 (355)
T ss_dssp             CC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC--
T ss_pred             hhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccC
Confidence            9999999999999999988889999999999999865

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

Probab=99.85  E-value=4.3e-21  Score=151.15  Aligned_cols=113  Identities=39%  Similarity=0.758  Sum_probs=92.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      .++|++++|++..++++.+.+.. +..+..+..+|...+.++||+||||||||++|+++|++++.+++.++++++...+.
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~   80 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIG   80 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHH-HHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSST
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhcc
Confidence            57899999999999999998876 67778888888889999999999999999999999999999999999999988888


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.....+..+|..+....|++|||||+|.+..++
T Consensus        81 ~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~  114 (262)
T 2qz4_A           81 GLGAARVRSLFKEARARAPCIVYIDEIDAVGKKR  114 (262)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEECC-------
T ss_pred             ChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccc
Confidence            8888888999999988889999999999997654

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

Probab=99.85  E-value=1.1e-20  Score=161.01  Aligned_cols=116  Identities=44%  Similarity=0.834  Sum_probs=105.7

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|+||+|.+++++++.+.+.. +..+..+..++...+.+++|+||||||||++++++|.+.+.+++.++++++...
T Consensus        10 ~~~~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~   88 (476)
T 2ce7_A           10 NKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVEL   88 (476)
T ss_dssp             SCCCCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTC
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHH
Confidence            3468999999999999999998876 667888889998999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+.....++.+|+.+....|+||||||+|.++++|+
T Consensus        89 ~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~  125 (476)
T 2ce7_A           89 FVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRG  125 (476)
T ss_dssp             CTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC--
T ss_pred             HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcc
Confidence            9888888899999999998999999999999988763

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

Probab=99.84  E-value=5.9e-21  Score=152.35  Aligned_cols=116  Identities=43%  Similarity=0.814  Sum_probs=99.8

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|+||+|++++++++.+.+.+++..+..++.+++..+.+++|+||||||||+|+++++..++..++.+++.++.+.
T Consensus         4 ~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~   83 (274)
T 2x8a_A            4 VPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNM   83 (274)
T ss_dssp             --------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSS
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhh
Confidence            35789999999999999999999999999999999999999999999999999999999999999999999999998888


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.++.+..+..+|+.+....|+++++||+|.+.+.|
T Consensus        84 ~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r  119 (274)
T 2x8a_A           84 YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR  119 (274)
T ss_dssp             TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC--
T ss_pred             hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhccc
Confidence            777788889999999877789999999999988754

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

Probab=99.83  E-value=1.7e-20  Score=147.93  Aligned_cols=116  Identities=43%  Similarity=0.806  Sum_probs=100.5

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+..+|++|+|.+.+++++.+.+.. +..+..+..++...+.+++|+||||||||++++++++.++.+++.++++++...
T Consensus         6 ~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~   84 (257)
T 1lv7_A            6 QIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM   84 (257)
T ss_dssp             SSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTS
T ss_pred             CCCCCHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHH
Confidence            4578999999999999999988765 667777777777888899999999999999999999999999999999999888


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+.....+..+|+.+....|+++||||+|.+.++++
T Consensus        85 ~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~  121 (257)
T 1lv7_A           85 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG  121 (257)
T ss_dssp             CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCS
T ss_pred             hhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCC
Confidence            8888888999999999888899999999999988653

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

Probab=99.83  E-value=2.6e-20  Score=149.58  Aligned_cols=116  Identities=43%  Similarity=0.721  Sum_probs=104.3

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+..+|++++|++.+++.+.+.+..+..+++.+..++ .++.+++|+||||||||++|+++|++++.+++.++|+++...
T Consensus        15 ~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~   93 (297)
T 3b9p_A           15 GAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSK   93 (297)
T ss_dssp             SSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhc
Confidence            4578999999999999999999998888888777655 457899999999999999999999999999999999999998


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      +.+..+..++.+|..+....|++|||||+|.+..+++
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~  130 (297)
T 3b9p_A           94 YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERS  130 (297)
T ss_dssp             SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-
T ss_pred             ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccc
Confidence            8888888899999999888899999999999987653

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

Probab=99.83  E-value=9e-21  Score=160.77  Aligned_cols=116  Identities=44%  Similarity=0.751  Sum_probs=96.4

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-CCeEEEEechhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-GAFFFLINGPEIMS  158 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-~~~~~~v~~~~~~~  158 (197)
                      .+.++|++|+|++.+++.+.+.+.+++.++..+... ..++.++||+||||||||++|+++|+++ +.+++.++++++.+
T Consensus       128 ~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~-~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~  206 (444)
T 2zan_A          128 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS  206 (444)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGG-GCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC----
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhcc-CCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHh
Confidence            567899999999999999999999998888877642 3567899999999999999999999999 88999999999999


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      .+.+..+..++.+|..+....|+||||||+|.+.++|.
T Consensus       207 ~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~  244 (444)
T 2zan_A          207 KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS  244 (444)
T ss_dssp             -----CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSS
T ss_pred             hhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCC
Confidence            99888888899999999888899999999999987653

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

Probab=99.82  E-value=2.9e-20  Score=153.52  Aligned_cols=115  Identities=43%  Similarity=0.804  Sum_probs=104.1

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+..+|++|+|++.+++++.+.+.+++..+..+...+ ..+.++||+||||||||++|+++|++++.+++.++++++...
T Consensus        78 ~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~  156 (357)
T 3d8b_A           78 GPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSK  156 (357)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhcc
Confidence            4678999999999999999999998888888776654 567899999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+..+..++.+|..+....|++|||||+|.|.+++
T Consensus       157 ~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~  192 (357)
T 3d8b_A          157 WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR  192 (357)
T ss_dssp             STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC-
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccC
Confidence            988888889999999988889999999999998765

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

Probab=99.82  E-value=3.8e-20  Score=154.36  Aligned_cols=115  Identities=44%  Similarity=0.747  Sum_probs=96.6

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++|+|++.+++.+.+++..+...++.+..++ .++.++||+||||||||++|+++|++++.+++.++|.++...
T Consensus       109 ~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~  187 (389)
T 3vfd_A          109 GTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSK  187 (389)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-CCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC---
T ss_pred             CCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccC-CCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhcc
Confidence            4567899999999999999999998888888777665 457899999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+..+..+..+|..+....|+||||||||.|..++
T Consensus       188 ~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~  223 (389)
T 3vfd_A          188 YVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCER  223 (389)
T ss_dssp             ----CHHHHHHHHHHHHHSSSEEEEEETGGGGC---
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccC
Confidence            999999999999999999889999999999997654

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

Probab=99.81  E-value=8.8e-21  Score=150.21  Aligned_cols=115  Identities=43%  Similarity=0.763  Sum_probs=101.3

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++++|.+.+++++.+.+.. +..+..+..++...+.+++|+||||||||++|+++|++++.+++.+++..+...
T Consensus         5 ~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~   83 (268)
T 2r62_A            5 KPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEM   83 (268)
T ss_dssp             CCCCCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTS
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHh
Confidence            4568899999999999999998775 778888888888889999999999999999999999999999999999998888


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+.....++.+|+.+....|++|||||+|.|.+++
T Consensus        84 ~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~  119 (268)
T 2r62_A           84 FVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR  119 (268)
T ss_dssp             CSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC--
T ss_pred             hcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccc
Confidence            777766667778888888789999999999998764

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

Probab=99.78  E-value=6.7e-19  Score=150.73  Aligned_cols=115  Identities=40%  Similarity=0.767  Sum_probs=103.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  160 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~  160 (197)
                      +.++|+|++|++.++.++.+.+.. +..+..+..++...+.+++|+||||||||+|++++|...+.+++.++++++...+
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~-l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~  104 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF  104 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSC
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHH-hhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhh
Confidence            578999999999999999998775 5677788888888899999999999999999999999999999999999998888


Q ss_pred             cCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         161 AGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       161 ~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      .+.....++.+|+.+....|+++||||+|.+..+++
T Consensus       105 ~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~  140 (499)
T 2dhr_A          105 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG  140 (499)
T ss_dssp             TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSS
T ss_pred             hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhc
Confidence            888888888999988777799999999999987653

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

Probab=99.76  E-value=5.1e-18  Score=133.42  Aligned_cols=115  Identities=40%  Similarity=0.773  Sum_probs=99.6

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|++++|.+..+.++++.... +..+..+..++...+.+++|+||||||||+++++++..++..++.+++.++...
T Consensus        10 ~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~   88 (254)
T 1ixz_A           10 APKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM   88 (254)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHH
Confidence            4678999999999999999987765 456677888888888899999999999999999999999999999999988877


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.+.....+..+|+.+....|+++++||+|.+..++
T Consensus        89 ~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~  124 (254)
T 1ixz_A           89 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR  124 (254)
T ss_dssp             CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC--
T ss_pred             HhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhccc
Confidence            777777788889999877779999999999887654

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.75  E-value=1.5e-18  Score=147.48  Aligned_cols=109  Identities=28%  Similarity=0.360  Sum_probs=93.2

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEI  156 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~~  156 (197)
                      ..+...|++++|++.+++.+..++....        .+..++.++||+||||||||++|+++|++++  .+++.++++++
T Consensus        30 ~~~~~~~~~iiG~~~~~~~l~~~~~~~~--------~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~  101 (456)
T 2c9o_A           30 GLAKQAASGLVGQENAREACGVIVELIK--------SKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEV  101 (456)
T ss_dssp             SCBCSEETTEESCHHHHHHHHHHHHHHH--------TTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGG
T ss_pred             cChhhchhhccCHHHHHHHHHHHHHHHH--------hCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHH
Confidence            3456778999999999999988776432        1345668899999999999999999999998  89999999999


Q ss_pred             hhhccCccHHHHHHHHHHH---hcCCCeEEEEcccCccCcccC
Q psy6208         157 MSKLAGESESNLRKAFEEA---DKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a---~~~~~~vl~lDeid~l~~~r~  196 (197)
                      .+.+.++.+. +...|+.+   +...|++|||||+|.++++|.
T Consensus       102 ~~~~~~~~~~-~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~  143 (456)
T 2c9o_A          102 YSTEIKKTEV-LMENFRRAIGLRIKETKEVYEGEVTELTPCET  143 (456)
T ss_dssp             CCSSSCHHHH-HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--
T ss_pred             HHHhhhhhHH-HHHHHHHHHhhhhcCCcEEEEechhhcccccC
Confidence            9999998886 89999998   677899999999999998774

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

Probab=99.72  E-value=4.1e-17  Score=130.04  Aligned_cols=114  Identities=40%  Similarity=0.776  Sum_probs=98.8

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  160 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~  160 (197)
                      +.++|++++|.+..+.++.+.... +..+..+..++...+.+++|+||||||||+|+++++..++..++.+++.++...+
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~  113 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF  113 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHST
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHH
Confidence            578999999999999999987765 4566777788888888899999999999999999999999999999999888777


Q ss_pred             cCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 AGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 ~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+.....+..+|+.+....|+++++||+|.+...+
T Consensus       114 ~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~  148 (278)
T 1iy2_A          114 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR  148 (278)
T ss_dssp             TTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC-
T ss_pred             hhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhccc
Confidence            77777778889999887779999999999886543

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

Probab=99.70  E-value=1.7e-17  Score=133.47  Aligned_cols=80  Identities=29%  Similarity=0.420  Sum_probs=65.7

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHH----hcCCCeEEEEcccCcc
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA----DKNSPSIIFIDELDAI  191 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a----~~~~~~vl~lDeid~l  191 (197)
                      +...+.++||+||||||||++|+++|++++.+++.++++++.+.+.|..+..++..|+.+    +...|+||||||||.+
T Consensus        32 ~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~  111 (293)
T 3t15_A           32 NIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAG  111 (293)
T ss_dssp             TCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC--
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhhh
Confidence            356788999999999999999999999999999999999999999999998999999888    4677999999999999


Q ss_pred             Cccc
Q psy6208         192 APKR  195 (197)
Q Consensus       192 ~~~r  195 (197)
                      .+++
T Consensus       112 ~~~~  115 (293)
T 3t15_A          112 AGRM  115 (293)
T ss_dssp             ----
T ss_pred             cCCC
Confidence            8854

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=99.67  E-value=9.7e-17  Score=135.83  Aligned_cols=172  Identities=15%  Similarity=0.211  Sum_probs=72.4

Q ss_pred             ccCCCcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCC
Q psy6208           3 LVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNA   82 (197)
Q Consensus         3 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (197)
                      ...+.....++|.|..+|+.++|.......+..+.+....+.|.+....+ ..    ..... ....+  ......+++.
T Consensus        30 ~~~~~~~~~~p~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~----~~~~~-~~~~~--~~~~~~l~~~  101 (440)
T 2z4s_A           30 IEGNKVVFSVGNLFIKEWLEKKYYSVLSKAVKVVLGNDATFEITYEAFEP-HS----SYSEP-LVKKR--AVLLTPLNPD  101 (440)
T ss_dssp             --------------------------------------------------------------------------CCCCTT
T ss_pred             eeCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHcCCCeeEEEEeCCCCC-Cc----cCccc-ccCCC--CccccCCCCC
Confidence            34567888999999999999999988888777766666666665532110 00    00000 00000  0012346678


Q ss_pred             CCccccc-CcH--HHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEech
Q psy6208          83 VGYDDIG-GCR--KQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGP  154 (197)
Q Consensus        83 ~~~~~i~-g~~--~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~  154 (197)
                      ++|++++ |.+  .....+......+           .. ..+++|+||||+|||||++++++.+     +.+++++++.
T Consensus       102 ~tfd~fv~g~~n~~a~~~~~~~a~~~-----------~~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~  169 (440)
T 2z4s_A          102 YTFENFVVGPGNSFAYHAALEVAKHP-----------GR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE  169 (440)
T ss_dssp             CSGGGCCCCTTTHHHHHHHHHHHHST-----------TS-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH
T ss_pred             CChhhcCCCCchHHHHHHHHHHHhCC-----------CC-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH
Confidence            8999976 533  3333444433322           11 5689999999999999999999988     7889999998


Q ss_pred             hhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         155 EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      .+...+...........|.......+++|||||+|.+..+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~  209 (440)
T 2z4s_A          170 KFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGK  209 (440)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSC
T ss_pred             HHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCC
Confidence            8765543322221122344444436899999999999864

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

Probab=99.64  E-value=1.3e-15  Score=122.62  Aligned_cols=105  Identities=21%  Similarity=0.351  Sum_probs=86.0

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCC---CCCceEEECCCCCcHHHHHHHHHHHh-------CCeEEEEechhh
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVK---PPRGILLYGPPGTGKTLIARAVANET-------GAFFFLINGPEI  156 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~---~~~~ill~G~~GtGKT~la~ala~~~-------~~~~~~v~~~~~  156 (197)
                      +++|++.+++++.+.+..... +......|+.   ...++||+||||||||++|+++++.+       ..+++.+++.++
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l  110 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLV-ERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDL  110 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHH-HHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGT
T ss_pred             HccChHHHHHHHHHHHHHHHh-HHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHh
Confidence            799999999999998876542 4444555543   34469999999999999999999887       338999999999


Q ss_pred             hhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         157 MSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ...+.+.....+...|+.+   .+++|||||+|.|.+.+
T Consensus       111 ~~~~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~  146 (309)
T 3syl_A          111 VGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPD  146 (309)
T ss_dssp             CCSSTTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC
T ss_pred             hhhcccccHHHHHHHHHhc---CCCEEEEEChhhhccCC
Confidence            9999988888888888877   35799999999997554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.58  E-value=9.1e-15  Score=108.46  Aligned_cols=101  Identities=21%  Similarity=0.395  Sum_probs=77.8

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEE
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFL  150 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~  150 (197)
                      .+..|++++|.+..++.+.+.+..             ....+++|+||+|||||++++++++.+          +.++++
T Consensus        17 ~~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~   83 (187)
T 2p65_A           17 RAGKLDPVIGRDTEIRRAIQILSR-------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVS   83 (187)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEE
T ss_pred             hccccchhhcchHHHHHHHHHHhC-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEE
Confidence            356789999999999988887643             345689999999999999999999987          778899


Q ss_pred             Eechhhhhh--ccCccHHHHHHHHHHHhcC-CCeEEEEcccCccCcc
Q psy6208         151 INGPEIMSK--LAGESESNLRKAFEEADKN-SPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~~--~~~~~~~~~~~~~~~a~~~-~~~vl~lDeid~l~~~  194 (197)
                      +++..+...  +.+.....+..++..+... .+.+|+|||+|.+.+.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~  130 (187)
T 2p65_A           84 LDLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGA  130 (187)
T ss_dssp             ECHHHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSS
T ss_pred             EeHHHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhccc
Confidence            988777533  2233344566666655443 6789999999999844

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.58  E-value=1.2e-14  Score=108.06  Aligned_cols=101  Identities=23%  Similarity=0.409  Sum_probs=77.9

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEE
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFL  150 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~  150 (197)
                      .+..|+++.|.++.++++.+.+..             ..+.+++|+||+|+|||++++++++.+          +.++++
T Consensus        17 ~~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~   83 (195)
T 1jbk_A           17 EQGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLA   83 (195)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEE
T ss_pred             hhccccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEE
Confidence            356789999999999998887643             345679999999999999999999986          688999


Q ss_pred             Eechhhhh--hccCccHHHHHHHHHHHh-cCCCeEEEEcccCccCcc
Q psy6208         151 INGPEIMS--KLAGESESNLRKAFEEAD-KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~--~~~~~~~~~~~~~~~~a~-~~~~~vl~lDeid~l~~~  194 (197)
                      +++..+..  .+.+.....+..++.... ...+.+|+|||+|.+.++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~  130 (195)
T 1jbk_A           84 LDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGA  130 (195)
T ss_dssp             ECHHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT-
T ss_pred             eeHHHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhcc
Confidence            99887763  233334455666666543 355789999999999754

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.57  E-value=1.7e-15  Score=124.97  Aligned_cols=109  Identities=25%  Similarity=0.352  Sum_probs=79.1

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhh-hC-CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh-ccCc
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKA-IG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK-LAGE  163 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~-~~-~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~-~~~~  163 (197)
                      .++|++.+++.+...+............ .. ..++.++||+||||||||++|+++|+.++.+++.++|.++... +.|.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~   95 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE   95 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccc
Confidence            3799999999999888533221110000 01 1256789999999999999999999999999999999987643 5554


Q ss_pred             c-HHHHHHHHHHH----hcCCCeEEEEcccCccCccc
Q psy6208         164 S-ESNLRKAFEEA----DKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       164 ~-~~~~~~~~~~a----~~~~~~vl~lDeid~l~~~r  195 (197)
                      . ...+..++..+    ....+++|||||+|.+.+++
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~  132 (363)
T 3hws_A           96 DVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKS  132 (363)
T ss_dssp             HHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCS
T ss_pred             cHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccc
Confidence            3 34556666554    22346899999999998874

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.56  E-value=3.2e-15  Score=108.02  Aligned_cols=88  Identities=16%  Similarity=0.221  Sum_probs=68.1

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCc
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGE  163 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~  163 (197)
                      +++|.+..++++.+.+...           .....+++|+||||||||++|+++++..   +.+++ ++|..+...    
T Consensus         2 ~iiG~s~~~~~~~~~~~~~-----------a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~----   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQL-----------SETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA----   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHH-----------TTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS----
T ss_pred             CceeCCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc----
Confidence            5789999999998888654           2456789999999999999999999987   67888 999877544    


Q ss_pred             cHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         164 SESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       164 ~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                        ......++.+.   .++|||||+|.+.+..
T Consensus        66 --~~~~~~~~~a~---~g~l~ldei~~l~~~~   92 (145)
T 3n70_A           66 --PQLNDFIALAQ---GGTLVLSHPEHLTREQ   92 (145)
T ss_dssp             --SCHHHHHHHHT---TSCEEEECGGGSCHHH
T ss_pred             --hhhhcHHHHcC---CcEEEEcChHHCCHHH
Confidence              23345566654   3589999999998653

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.53  E-value=2.3e-14  Score=116.29  Aligned_cols=104  Identities=21%  Similarity=0.302  Sum_probs=73.2

Q ss_pred             hcCCCCccccc-C--cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208          79 ASNAVGYDDIG-G--CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus        79 ~~~~~~~~~i~-g--~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      +++.++|++++ |  .......+...+..+           .....+++|+||||||||++++++++.+   +.++++++
T Consensus         4 l~~~~~f~~fv~g~~~~~a~~~~~~~~~~~-----------~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~   72 (324)
T 1l8q_A            4 LNPKYTLENFIVGEGNRLAYEVVKEALENL-----------GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS   72 (324)
T ss_dssp             CCTTCCSSSCCCCTTTHHHHHHHHHHHHTT-----------TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCCCcccCCCCCcHHHHHHHHHHHHhCc-----------CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            45678999986 4  444555555555432           1245689999999999999999999988   88999999


Q ss_pred             chhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         153 GPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +.++...+.+.........|..... .+++|||||+|.+..+
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~vL~iDEi~~l~~~  113 (324)
T 1l8q_A           73 ADDFAQAMVEHLKKGTINEFRNMYK-SVDLLLLDDVQFLSGK  113 (324)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHH-TCSEEEEECGGGGTTC
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHhc-CCCEEEEcCcccccCC
Confidence            9888665543322222223333333 3789999999999864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.53  E-value=2e-15  Score=108.93  Aligned_cols=87  Identities=14%  Similarity=0.226  Sum_probs=67.5

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHH
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES  166 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~  166 (197)
                      +++|.+..++++.+.+...           .....+++|+||||||||++|+++++... +++.++|..+...+      
T Consensus         5 ~~iG~s~~~~~l~~~~~~~-----------~~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~~------   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAA-----------AKRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLIDM------   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHH-----------HTCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHHC------
T ss_pred             CceeCCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChHh------
Confidence            5789999999998888754           13456899999999999999999999888 99999998875543      


Q ss_pred             HHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         167 NLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       167 ~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                       ....++.+.   .++|||||+|.+.++.
T Consensus        67 -~~~~~~~a~---~~~l~lDei~~l~~~~   91 (143)
T 3co5_A           67 -PMELLQKAE---GGVLYVGDIAQYSRNI   91 (143)
T ss_dssp             -HHHHHHHTT---TSEEEEEECTTCCHHH
T ss_pred             -hhhHHHhCC---CCeEEEeChHHCCHHH
Confidence             345566553   4689999999997653

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

Probab=99.53  E-value=5.8e-14  Score=111.25  Aligned_cols=104  Identities=26%  Similarity=0.371  Sum_probs=74.7

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCcc
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGES  164 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~  164 (197)
                      .+.+.|.+..++++.......   .......+...+.++||+||||||||++|+++|+..+.+++.+++++.   +.+..
T Consensus        32 ~~~~i~~~~~~~~i~~~~~~l---~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~---~~g~~  105 (272)
T 1d2n_A           32 MNGIIKWGDPVTRVLDDGELL---VQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDK---MIGFS  105 (272)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHH---HHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGG---CTTCC
T ss_pred             hcCCCCccHHHHHHHHHHHHH---HHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHH---hcCCc
Confidence            356778887777766632111   011112223567789999999999999999999999999999988753   23322


Q ss_pred             ----HHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         165 ----ESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       165 ----~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                          ...+..+|+.+....+++|||||+|.|.+.
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~  139 (272)
T 1d2n_A          106 ETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDY  139 (272)
T ss_dssp             HHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhcc
Confidence                245677888887777899999999998543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.52  E-value=7e-14  Score=113.89  Aligned_cols=100  Identities=22%  Similarity=0.340  Sum_probs=77.2

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  158 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~  158 (197)
                      ...+.+|++++|.+..++++..++......        .....++||+||||||||++|+++++.++.+++.++|..+. 
T Consensus        22 ~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~--------~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~-   92 (338)
T 3pfi_A           22 SLRPSNFDGYIGQESIKKNLNVFIAAAKKR--------NECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIE-   92 (338)
T ss_dssp             -CCCCSGGGCCSCHHHHHHHHHHHHHHHHT--------TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCC-
T ss_pred             ccCCCCHHHhCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhcc-
Confidence            345668999999999999999988754211        23566899999999999999999999999999999997652 


Q ss_pred             hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         159 KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                           ....+...+..  ...+++|||||+|.+.+.
T Consensus        93 -----~~~~~~~~~~~--~~~~~vl~lDEi~~l~~~  121 (338)
T 3pfi_A           93 -----KSGDLAAILTN--LSEGDILFIDEIHRLSPA  121 (338)
T ss_dssp             -----SHHHHHHHHHT--CCTTCEEEEETGGGCCHH
T ss_pred             -----chhHHHHHHHh--ccCCCEEEEechhhcCHH
Confidence                 23344444433  245789999999998754

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.52  E-value=2e-14  Score=115.35  Aligned_cols=110  Identities=28%  Similarity=0.412  Sum_probs=77.7

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhh-CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-hccCc
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAI-GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-KLAGE  163 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~-~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-~~~~~  163 (197)
                      ++++|++.+++.+...+..+.........+ ....+.+++|+||||||||++|+++++.++.+++.++|+.+.. .+.+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            458999999999998886533222111111 0134678999999999999999999999999999999988765 34432


Q ss_pred             c-HHHHHHHHHHH-----hcCCCeEEEEcccCccCccc
Q psy6208         164 S-ESNLRKAFEEA-----DKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       164 ~-~~~~~~~~~~a-----~~~~~~vl~lDeid~l~~~r  195 (197)
                      . ...+..++..+     ....+++|||||+|.+.++.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~  132 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKG  132 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCS
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccc
Confidence            2 23455554422     01136799999999998764

>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=99.49  E-value=1.3e-14  Score=125.16  Aligned_cols=120  Identities=23%  Similarity=0.292  Sum_probs=81.4

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccC-hhhHhhhCC---CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRH-PSLFKAIGV---KPPRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~-~~~~~~~~~---~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +.+...+.+|++++|++..++++.+++...... +..+...|.   ....++||+||||||||++|+++|++++.+++++
T Consensus        29 W~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~i  108 (516)
T 1sxj_A           29 WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQ  108 (516)
T ss_dssp             HHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEE
T ss_pred             cccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEE
Confidence            445567789999999999999999998753211 111222222   2457899999999999999999999999999999


Q ss_pred             echhhhhhccCccH-------HHHHHHHHHH-----hcCCCeEEEEcccCccCccc
Q psy6208         152 NGPEIMSKLAGESE-------SNLRKAFEEA-----DKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       152 ~~~~~~~~~~~~~~-------~~~~~~~~~a-----~~~~~~vl~lDeid~l~~~r  195 (197)
                      +|++..........       ..+...|..+     ....+.||||||+|.+....
T Consensus       109 n~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~  164 (516)
T 1sxj_A          109 NASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD  164 (516)
T ss_dssp             CTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS
T ss_pred             eCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhh
Confidence            99876432110000       0011122222     22467899999999998754

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.49  E-value=1.3e-13  Score=114.09  Aligned_cols=108  Identities=26%  Similarity=0.351  Sum_probs=71.5

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHh-----------------hhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFK-----------------AIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~-----------------~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      .++|++.+++.+...+...........                 .-......+++|+||||||||++|+++|+.++.+++
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            589999999999988753322211100                 011235678999999999999999999999999999


Q ss_pred             EEechhhh-hhccCcc-HHHHHHHHHHHh----cCCCeEEEEcccCccCcc
Q psy6208         150 LINGPEIM-SKLAGES-ESNLRKAFEEAD----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       150 ~v~~~~~~-~~~~~~~-~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~  194 (197)
                      .++|..+. ..+.+.. +..+..++..+.    ...+++|||||+|.+.++
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~  152 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRL  152 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC---
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhh
Confidence            99998765 2343332 334455554322    224689999999999876

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.48  E-value=2.7e-13  Score=114.83  Aligned_cols=98  Identities=24%  Similarity=0.375  Sum_probs=73.4

Q ss_pred             hhcCCCCcccccCcHHHH---HHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208          78 EASNAVGYDDIGGCRKQL---AQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~---~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      +...+.+|++++|++..+   ..+...+..             ....+++|+||||||||++|+++++.++.+++.+++.
T Consensus        18 ~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~-------------~~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~   84 (447)
T 3pvs_A           18 ARMRPENLAQYIGQQHLLAAGKPLPRAIEA-------------GHLHSMILWGPPGTGKTTLAEVIARYANADVERISAV   84 (447)
T ss_dssp             HHTCCCSTTTCCSCHHHHSTTSHHHHHHHH-------------TCCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETT
T ss_pred             HHhCCCCHHHhCCcHHHHhchHHHHHHHHc-------------CCCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEec
Confidence            345567899999999999   677777764             2336899999999999999999999999999999875


Q ss_pred             hhhhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCccc
Q psy6208         155 EIMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~r  195 (197)
                      ..       ....++..+..+.    ...+.+|||||+|.|..+.
T Consensus        85 ~~-------~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~  122 (447)
T 3pvs_A           85 TS-------GVKEIREAIERARQNRNAGRRTILFVDEVHRFNKSQ  122 (447)
T ss_dssp             TC-------CHHHHHHHHHHHHHHHHTTCCEEEEEETTTCC----
T ss_pred             cC-------CHHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCHHH
Confidence            43       2334455554443    3568899999999998754

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.47  E-value=8.3e-14  Score=112.61  Aligned_cols=100  Identities=26%  Similarity=0.473  Sum_probs=75.4

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      ..+.+|++++|.+..++.+.+.+......        ...+.+++|+||||||||++|+++++.++.+++.++|+.+.  
T Consensus         6 ~~p~~~~~~ig~~~~~~~l~~~l~~~~~~--------~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~--   75 (324)
T 1hqc_A            6 LRPKTLDEYIGQERLKQKLRVYLEAAKAR--------KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIE--   75 (324)
T ss_dssp             CCCCSTTTCCSCHHHHHHHHHHHHHHHHH--------CSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCC--
T ss_pred             cCcccHHHhhCHHHHHHHHHHHHHHHHcc--------CCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccC--
Confidence            44668999999999999998887643110        13457899999999999999999999999999999987652  


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                          ....+...+..+ ...+++|||||+|.+.+.
T Consensus        76 ----~~~~l~~~l~~~-~~~~~~l~lDEi~~l~~~  105 (324)
T 1hqc_A           76 ----KPGDLAAILANS-LEEGDILFIDEIHRLSRQ  105 (324)
T ss_dssp             ----SHHHHHHHHTTT-CCTTCEEEETTTTSCCHH
T ss_pred             ----ChHHHHHHHHHh-ccCCCEEEEECCcccccc
Confidence                223333333331 135789999999998754

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.47  E-value=2.5e-13  Score=110.07  Aligned_cols=99  Identities=24%  Similarity=0.279  Sum_probs=76.6

Q ss_pred             hHHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208          75 EEEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus        75 ~~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      ...+...+.+|++++|++..++.+.+++...            ..+..+|++||||||||++++++++.++.++++++++
T Consensus        15 ~~~~k~rP~~~~~ivg~~~~~~~l~~~l~~~------------~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~   82 (324)
T 3u61_B           15 ILEQKYRPSTIDECILPAFDKETFKSITSKG------------KIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGS   82 (324)
T ss_dssp             SHHHHSCCCSTTTSCCCHHHHHHHHHHHHTT------------CCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETT
T ss_pred             hHHHhhCCCCHHHHhCcHHHHHHHHHHHHcC------------CCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEccc
Confidence            3455567789999999999999999988732            3455678889999999999999999999999999986


Q ss_pred             hhhhhccCccHHHHHHHHHHHhc-----CCCeEEEEcccCccC
Q psy6208         155 EIMSKLAGESESNLRKAFEEADK-----NSPSIIFIDELDAIA  192 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~-----~~~~vl~lDeid~l~  192 (197)
                      ...       ...++..+..+..     +.+.+|||||+|.+.
T Consensus        83 ~~~-------~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~  118 (324)
T 3u61_B           83 DCK-------IDFVRGPLTNFASAASFDGRQKVIVIDEFDRSG  118 (324)
T ss_dssp             TCC-------HHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGG
T ss_pred             ccC-------HHHHHHHHHHHHhhcccCCCCeEEEEECCcccC
Confidence            642       3344443333222     257899999999997

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.45  E-value=1.2e-13  Score=113.58  Aligned_cols=71  Identities=30%  Similarity=0.370  Sum_probs=54.3

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC--eEEEEechhh
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA--FFFLINGPEI  156 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~--~~~~v~~~~~  156 (197)
                      ..+..+|++++|++..++.+..+......        +..++.++||+||||||||++|+++++.++.  +++.+++..+
T Consensus        37 ~~p~~~~~~ivG~~~~~~~l~~l~~~~~~--------~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~  108 (368)
T 3uk6_A           37 LEPRQASQGMVGQLAARRAAGVVLEMIRE--------GKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEI  108 (368)
T ss_dssp             SCBCSEETTEESCHHHHHHHHHHHHHHHT--------TCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGG
T ss_pred             cCcCcchhhccChHHHHHHHHHHHHHHHc--------CCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhh
Confidence            34556699999999999887665543211        1234578999999999999999999999964  7888887664


Q ss_pred             h
Q psy6208         157 M  157 (197)
Q Consensus       157 ~  157 (197)
                      .
T Consensus       109 ~  109 (368)
T 3uk6_A          109 F  109 (368)
T ss_dssp             S
T ss_pred             h
Confidence            3

>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=99.44  E-value=2.2e-13  Score=107.47  Aligned_cols=98  Identities=24%  Similarity=0.329  Sum_probs=64.5

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEechhhhhh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGPEIMSK  159 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~~~~~~  159 (197)
                      .+|++++|.+..+..+.+.+...           ...+.+++|+||||||||++|+++++.+.   .++++++|+.+...
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~-----------~~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~   71 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHL-----------APLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNEN   71 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHH-----------TTSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHH
T ss_pred             cccccceeCCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChh
Confidence            57889999999999998877653           23457899999999999999999999874   68999999876332


Q ss_pred             -----ccCccHHHH-------HHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 -----LAGESESNL-------RKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 -----~~~~~~~~~-------~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                           +.|......       ...++.+   ..++|||||+|.+.+.
T Consensus        72 ~~~~~l~g~~~~~~~g~~~~~~~~l~~a---~~~~l~lDEi~~l~~~  115 (265)
T 2bjv_A           72 LLDSELFGHEAGAFTGAQKRHPGRFERA---DGGTLFLDELATAPMM  115 (265)
T ss_dssp             HHHHHHHCCC---------CCCCHHHHT---TTSEEEEESGGGSCHH
T ss_pred             HHHHHhcCCcccccccccccccchhhhc---CCcEEEEechHhcCHH
Confidence                 112111100       1122222   3569999999998764

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.43  E-value=6.2e-13  Score=120.79  Aligned_cols=102  Identities=24%  Similarity=0.397  Sum_probs=74.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEE
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFL  150 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~  150 (197)
                      .+..+++++|.+..++++.+.+..             ....+++|+||||||||++++++|+.+          +.++++
T Consensus       165 r~~~ld~viGr~~~i~~l~~~l~~-------------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~  231 (854)
T 1qvr_A          165 AEGKLDPVIGRDEEIRRVIQILLR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVS  231 (854)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHHC-------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEE
T ss_pred             hcCCCcccCCcHHHHHHHHHHHhc-------------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEE
Confidence            456889999999999998887753             345689999999999999999999987          789999


Q ss_pred             Eechhhh--hhccCccHHHHHHHHHHHhcC-CCeEEEEcccCccCccc
Q psy6208         151 INGPEIM--SKLAGESESNLRKAFEEADKN-SPSIIFIDELDAIAPKR  195 (197)
Q Consensus       151 v~~~~~~--~~~~~~~~~~~~~~~~~a~~~-~~~vl~lDeid~l~~~r  195 (197)
                      +++..+.  ..+.+..+..+..++..+... .++||||||+|.+.+.+
T Consensus       232 l~~~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~  279 (854)
T 1qvr_A          232 LQMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAG  279 (854)
T ss_dssp             ECC-----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------
T ss_pred             eehHHhhccCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccC
Confidence            9998886  456677788888898888764 68999999999998543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.41  E-value=1.2e-12  Score=117.55  Aligned_cols=101  Identities=25%  Similarity=0.407  Sum_probs=82.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEE
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLI  151 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v  151 (197)
                      .-.+++++|.+..++++.+.+..             ....+++|+||||||||++++++++.+          +..++.+
T Consensus       182 ~~~~d~~iGr~~~i~~l~~~l~~-------------~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~  248 (758)
T 1r6b_X          182 VGGIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL  248 (758)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEEC
T ss_pred             cCCCCCccCCHHHHHHHHHHHhc-------------cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEE
Confidence            45789999999999998887753             356789999999999999999999886          6678888


Q ss_pred             echhhh--hhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         152 NGPEIM--SKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       152 ~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ++..+.  ..+.+..+..+..+++.+....+++|||||+|.+.+++
T Consensus       249 ~~~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~  294 (758)
T 1r6b_X          249 DIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAG  294 (758)
T ss_dssp             CCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSC
T ss_pred             cHHHHhccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcC
Confidence            877765  35667788889999998887778999999999997653

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.40  E-value=5.7e-13  Score=107.99  Aligned_cols=96  Identities=13%  Similarity=0.115  Sum_probs=73.4

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEEechhhh
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLINGPEIM  157 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v~~~~~~  157 (197)
                      +.+.+++++++..++...+..         ..+.+++|+||||||||++++++++++          ...+++++|..+.
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~---------~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~   92 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMS---------SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELA   92 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHT---------TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC
T ss_pred             cCCHHHHHHHHHHHHHHHhcC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccC
Confidence            788899999998888765432         567889999999999999999999988          3468899986543


Q ss_pred             h----------hcc------CccHHHHHHHHHHH--hcCCCeEEEEcccCccC
Q psy6208         158 S----------KLA------GESESNLRKAFEEA--DKNSPSIIFIDELDAIA  192 (197)
Q Consensus       158 ~----------~~~------~~~~~~~~~~~~~a--~~~~~~vl~lDeid~l~  192 (197)
                      +          .+.      +.....+...|...  ....+.|++|||+|.|.
T Consensus        93 t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A           93 GMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             --HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             CHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            2          221      23455677777764  34567899999999997

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.38  E-value=1.3e-12  Score=107.55  Aligned_cols=109  Identities=24%  Similarity=0.267  Sum_probs=77.5

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCe
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---------GAF  147 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~  147 (197)
                      ..+.+.+.++++.|.+..++++..++.....         ...+.+++|+||||||||++++++++.+         +..
T Consensus        10 ~~l~~~~~p~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~   80 (387)
T 2v1u_A           10 WVLLPDYVPDVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVK   80 (387)
T ss_dssp             HHHSTTCCCSCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             HhcCCccCCCCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeE
Confidence            3445667779999999999999988754322         1456789999999999999999999988         788


Q ss_pred             EEEEechhhhhh----------------ccCccHHH-HHHHHHHHh-cCCCeEEEEcccCccCcc
Q psy6208         148 FFLINGPEIMSK----------------LAGESESN-LRKAFEEAD-KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       148 ~~~v~~~~~~~~----------------~~~~~~~~-~~~~~~~a~-~~~~~vl~lDeid~l~~~  194 (197)
                      +++++|....+.                ..+..... +..++.... .+.+.+|+|||+|.+...
T Consensus        81 ~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~  145 (387)
T 2v1u_A           81 PIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKR  145 (387)
T ss_dssp             EEEEETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHS
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhccc
Confidence            999998653211                01222222 334444433 234789999999998754

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=99.38  E-value=5.1e-13  Score=115.76  Aligned_cols=103  Identities=24%  Similarity=0.370  Sum_probs=70.3

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh------
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS------  158 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~------  158 (197)
                      .++++|+++++..+.+.+........       .++..++|+||||||||++++++|..++.++..+++..+..      
T Consensus        80 ~~di~G~~~vk~~i~~~~~l~~~~~~-------~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g  152 (543)
T 3m6a_A           80 DEEHHGLEKVKERILEYLAVQKLTKS-------LKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRG  152 (543)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHHHHSSS-------CCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC---------
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhccc-------CCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhh
Confidence            45689999999999877654321111       14567999999999999999999999999999998876533      


Q ss_pred             ---hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         159 ---KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       159 ---~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                         .+.+.....+...|..+....| ++||||+|.+.+++
T Consensus       153 ~~~~~ig~~~~~~~~~~~~a~~~~~-vl~lDEid~l~~~~  191 (543)
T 3m6a_A          153 HRRTYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKMSSDF  191 (543)
T ss_dssp             -----------CHHHHHHTTCSSSE-EEEEEESSSCC---
T ss_pred             HHHHHhccCchHHHHHHHHhhccCC-EEEEhhhhhhhhhh
Confidence               3444445555666776655544 99999999998874

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.37  E-value=5.5e-12  Score=95.58  Aligned_cols=98  Identities=30%  Similarity=0.401  Sum_probs=70.3

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEe
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLIN  152 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~  152 (197)
                      +...+..|++++|.+..++.+.+++...             ...+++|+||+|+|||++++++++.+     ...++.++
T Consensus         9 ~~~~p~~~~~~~g~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~   75 (226)
T 2chg_A            9 EKYRPRTLDEVVGQDEVIQRLKGYVERK-------------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (226)
T ss_dssp             HHTSCSSGGGCCSCHHHHHHHHHHHHTT-------------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEE
T ss_pred             HhcCCCCHHHHcCcHHHHHHHHHHHhCC-------------CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEec
Confidence            3455678999999999999999988642             23459999999999999999999876     34577777


Q ss_pred             chhhhhhccCccHHHHHHHHHHHh------cCCCeEEEEcccCccCcc
Q psy6208         153 GPEIMSKLAGESESNLRKAFEEAD------KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~a~------~~~~~vl~lDeid~l~~~  194 (197)
                      +.....      ...+...+....      ...+.+|+|||+|.+.+.
T Consensus        76 ~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  117 (226)
T 2chg_A           76 ASDERG------IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTAD  117 (226)
T ss_dssp             TTCTTC------HHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCHH
T ss_pred             cccccC------hHHHHHHHHHHhcccCCCccCceEEEEeChhhcCHH
Confidence            754321      122222222221      246889999999998653

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

Probab=99.35  E-value=7.5e-13  Score=111.55  Aligned_cols=102  Identities=25%  Similarity=0.314  Sum_probs=77.8

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCC-CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhh-hccCc
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGV-KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS-KLAGE  163 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~-~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~-~~~~~  163 (197)
                      ++|+|++.+++.+..++..+..++..+..+.. .++.++||+||||||||++|+++|..++.+++.++++.+.. .|.|.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            46899999999999988776554444443332 24678999999999999999999999999999999998887 48885


Q ss_pred             -cHHHHHHHHHHHhcCCCeEEEEcccCcc
Q psy6208         164 -SESNLRKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       164 -~~~~~~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                       .+..++.+|+.+...    +++||++.+
T Consensus        95 d~e~~lr~lf~~a~~~----~~~De~d~~  119 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKL----VRQQEIAKN  119 (444)
T ss_dssp             CTHHHHHHHHHHHHHH----HHHHHHHSC
T ss_pred             cHHHHHHHHHHHHHhc----chhhhhhhh
Confidence             788888888877543    345665544

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.34  E-value=1.1e-12  Score=124.82  Aligned_cols=116  Identities=17%  Similarity=0.233  Sum_probs=84.4

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccC----------hhhHhh------hC------------CCCCCceEEECCCCC
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRH----------PSLFKA------IG------------VKPPRGILLYGPPGT  131 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~----------~~~~~~------~~------------~~~~~~ill~G~~Gt  131 (197)
                      .+.++|++++|++..+..+.+.+.+++..          ++.++.      .|            .+..+.+++||||||
T Consensus      1014 ~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~ 1093 (1706)
T 3cmw_A         1014 ASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESS 1093 (1706)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTS
T ss_pred             cCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCC
Confidence            34578999999999999999999988733          334443      11            223344999999999


Q ss_pred             cHHHHHHHHHHHh---CCeEEEEechhhh------------hhccCc----cHHHHHHHHHHHhcCCCeEEEEcccCccC
Q psy6208         132 GKTLIARAVANET---GAFFFLINGPEIM------------SKLAGE----SESNLRKAFEEADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       132 GKT~la~ala~~~---~~~~~~v~~~~~~------------~~~~~~----~~~~~~~~~~~a~~~~~~vl~lDeid~l~  192 (197)
                      |||+||++++.+.   +.+.++++..+..            .++.++    +++.++.+|..++...||++++|+++.|.
T Consensus      1094 GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~al~ 1173 (1706)
T 3cmw_A         1094 GKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALT 1173 (1706)
T ss_dssp             SHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCC
T ss_pred             ChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHhcC
Confidence            9999999998766   6778888876644            445555    78899999998999999999999999999


Q ss_pred             ccc
Q psy6208         193 PKR  195 (197)
Q Consensus       193 ~~r  195 (197)
                      |.+
T Consensus      1174 ~~~ 1176 (1706)
T 3cmw_A         1174 PKA 1176 (1706)
T ss_dssp             CHH
T ss_pred             ccc
Confidence            974

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.33  E-value=7.9e-13  Score=106.70  Aligned_cols=95  Identities=24%  Similarity=0.407  Sum_probs=68.8

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh---
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK---  159 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~---  159 (197)
                      ++++|.+..++++.+.+...           .....++||+||||||||++|+++++.+   +.+++.++|..+...   
T Consensus         2 ~~iig~s~~~~~~~~~~~~~-----------a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~   70 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMV-----------APSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLE   70 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHH-----------CSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHH-----------hCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHH
Confidence            36889999999998888754           2456789999999999999999999976   578999999876432   


Q ss_pred             --ccCccH-------HHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 --LAGESE-------SNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 --~~~~~~-------~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                        ++|...       ......|+.+.   .++||||||+.++..
T Consensus        71 ~~lfg~~~g~~tg~~~~~~g~~~~a~---~g~L~LDEi~~l~~~  111 (304)
T 1ojl_A           71 SELFGHEKGAFTGADKRREGRFVEAD---GGTLFLDEIGDISPL  111 (304)
T ss_dssp             HHHTCCCSSCCC---CCCCCHHHHHT---TSEEEEESCTTCCHH
T ss_pred             HHhcCccccccCchhhhhcCHHHhcC---CCEEEEeccccCCHH
Confidence              122110       01123445543   358999999998764

>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=99.32  E-value=3.3e-12  Score=105.34  Aligned_cols=101  Identities=22%  Similarity=0.298  Sum_probs=72.3

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----------CCeEEEEe
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----------GAFFFLIN  152 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----------~~~~~~v~  152 (197)
                      ..++++|.+..++++.+++......         ..+.+++|+||||+|||++++++++.+           +.++++++
T Consensus        18 ~p~~l~gr~~~~~~l~~~l~~~~~~---------~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~   88 (384)
T 2qby_B           18 VFKEIPFREDILRDAAIAIRYFVKN---------EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN   88 (384)
T ss_dssp             HCSSCTTCHHHHHHHHHHHHHHHTT---------CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcC---------CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE
Confidence            3478999999999999888654221         345689999999999999999999987           88999999


Q ss_pred             chhhh-h----------hc-------cCcc-HHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         153 GPEIM-S----------KL-------AGES-ESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       153 ~~~~~-~----------~~-------~~~~-~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      |.... +          .+       .+.. ...+..++...... +.+|+|||+|.+...
T Consensus        89 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~-~~vlilDEi~~l~~~  148 (384)
T 2qby_B           89 CREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNI-RAIIYLDEVDTLVKR  148 (384)
T ss_dssp             HHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSS-CEEEEEETTHHHHHS
T ss_pred             CccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccC-CCEEEEECHHHhccC
Confidence            87643 1          11       1111 22334444444333 349999999998754

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.32  E-value=3.5e-12  Score=108.63  Aligned_cols=91  Identities=27%  Similarity=0.449  Sum_probs=69.4

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEE
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFF  149 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~  149 (197)
                      ..+-.+++++|.+..++.+.+.+..             ....++||+||||||||++|+++|+.+          +.+++
T Consensus       174 ~r~~~ld~iiGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~  240 (468)
T 3pxg_A          174 AKEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVM  240 (468)
T ss_dssp             TTSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEE
T ss_pred             HhcCCCCCccCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEE
Confidence            3456789999999999999888764             345689999999999999999999996          77888


Q ss_pred             EEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEc
Q psy6208         150 LINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFID  186 (197)
Q Consensus       150 ~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lD  186 (197)
                      .+++.   ..+.|..+..+..+|..+....+.|||||
T Consensus       241 ~l~~~---~~~~g~~e~~~~~~~~~~~~~~~~iLfiD  274 (468)
T 3pxg_A          241 TLDMG---TKYRGEFEDRLKKVMDEIRQAGNIILFID  274 (468)
T ss_dssp             CC-------------CTTHHHHHHHHHTCCCCEEEEC
T ss_pred             EeeCC---ccccchHHHHHHHHHHHHHhcCCeEEEEe
Confidence            88887   55566666677888888887788999999

>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=99.31  E-value=8.6e-12  Score=102.41  Aligned_cols=108  Identities=26%  Similarity=0.361  Sum_probs=76.3

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh------CCeEEEE
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET------GAFFFLI  151 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~------~~~~~~v  151 (197)
                      .+.+.+.+++++|.+..++.+.+++......         ..+..++|+||+|+|||++++++++.+      +..++++
T Consensus        12 ~l~~~~~p~~~~gr~~e~~~l~~~l~~~~~~---------~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i   82 (386)
T 2qby_A           12 YLLPDYIPDELPHREDQIRKIASILAPLYRE---------EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYI   82 (386)
T ss_dssp             GGSSSCCCSCCTTCHHHHHHHHHSSGGGGGT---------CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEE
T ss_pred             hCCCccCCCCCCChHHHHHHHHHHHHHHHcC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEE
Confidence            3455677789999999999998887643221         346689999999999999999999988      8899999


Q ss_pred             echhhhh------hc----------cCccHHH-HHHHHHHHhc-CCCeEEEEcccCccCcc
Q psy6208         152 NGPEIMS------KL----------AGESESN-LRKAFEEADK-NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       152 ~~~~~~~------~~----------~~~~~~~-~~~~~~~a~~-~~~~vl~lDeid~l~~~  194 (197)
                      +|.....      ..          .+..... ...+++.... ..|.+|+|||++.+...
T Consensus        83 ~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~  143 (386)
T 2qby_A           83 NTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKK  143 (386)
T ss_dssp             EHHHHCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHS
T ss_pred             ECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhcc
Confidence            9864321      10          1111222 3344443333 34899999999998754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.30  E-value=5.1e-12  Score=113.42  Aligned_cols=101  Identities=21%  Similarity=0.327  Sum_probs=72.5

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccC
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAG  162 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~  162 (197)
                      ++++|++.+++.+.+.+.........    ...+..++||+||||||||++|+++|+.+   +.+++.++|+++...+..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~----~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~  566 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKD----PKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHST  566 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSC----TTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCC
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCC----CCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhccccccc
Confidence            46899999999999888753211000    00122369999999999999999999997   678999999999877654


Q ss_pred             ccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         163 ESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       163 ~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      . ..   .+....+...++||||||||.+.+.
T Consensus       567 ~-~~---~l~~~~~~~~~~vl~lDEi~~~~~~  594 (758)
T 3pxi_A          567 S-GG---QLTEKVRRKPYSVVLLDAIEKAHPD  594 (758)
T ss_dssp             C-------CHHHHHHCSSSEEEEECGGGSCHH
T ss_pred             c-cc---hhhHHHHhCCCeEEEEeCccccCHH
Confidence            4 11   2223334456789999999988653

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.29  E-value=1.2e-11  Score=95.26  Aligned_cols=91  Identities=20%  Similarity=0.222  Sum_probs=66.0

Q ss_pred             CCCCcccccC---cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208          81 NAVGYDDIGG---CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus        81 ~~~~~~~i~g---~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      +..+|+++.+   ....++.+..++..             ....+++|+||||||||++++++++.+   +.++.++++.
T Consensus        23 ~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~   89 (242)
T 3bos_A           23 DDETFTSYYPAAGNDELIGALKSAASG-------------DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLG   89 (242)
T ss_dssp             TTCSTTTSCC--CCHHHHHHHHHHHHT-------------CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             CCCChhhccCCCCCHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            3467888775   34666666666543             246789999999999999999999887   4788999998


Q ss_pred             hhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         155 EIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ++.......        +...  ..+.+|+|||++.+..+
T Consensus        90 ~~~~~~~~~--------~~~~--~~~~vliiDe~~~~~~~  119 (242)
T 3bos_A           90 IHASISTAL--------LEGL--EQFDLICIDDVDAVAGH  119 (242)
T ss_dssp             GGGGSCGGG--------GTTG--GGSSEEEEETGGGGTTC
T ss_pred             HHHHHHHHH--------HHhc--cCCCEEEEeccccccCC
Confidence            876543211        1111  34789999999998764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.27  E-value=1.4e-11  Score=98.96  Aligned_cols=105  Identities=20%  Similarity=0.315  Sum_probs=68.2

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc--
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL--  160 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~--  160 (197)
                      ++++|++.+++.+...+........   . ...+..+++|+||||||||++|+++|+.+   +.+++.++|+.+....  
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~---~-~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~   92 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLK---D-PNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV   92 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCS---C-TTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCC---C-CCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccH
Confidence            4688999999999988875311100   0 01233579999999999999999999988   5579999987664321  


Q ss_pred             ---cCccH-----HHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         161 ---AGESE-----SNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       161 ---~~~~~-----~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                         .+...     .....+.........++|||||+|.+.+.
T Consensus        93 ~~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~  134 (311)
T 4fcw_A           93 SRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPD  134 (311)
T ss_dssp             HHHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCHH
T ss_pred             HHhcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCHH
Confidence               11000     00011222233344589999999998754

>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=99.27  E-value=1.8e-11  Score=98.62  Aligned_cols=104  Identities=28%  Similarity=0.313  Sum_probs=70.8

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC-----CeEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG-----AFFFL  150 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~-----~~~~~  150 (197)
                      ..+...+.+|++++|++..++.+.+++...             ...+++|+||+|+|||++++++++.+.     ..++.
T Consensus        15 ~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~   81 (327)
T 1iqp_A           15 WVEKYRPQRLDDIVGQEHIVKRLKHYVKTG-------------SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLE   81 (327)
T ss_dssp             HHHHTCCCSTTTCCSCHHHHHHHHHHHHHT-------------CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEE
T ss_pred             hhhccCCCCHHHhhCCHHHHHHHHHHHHcC-------------CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEE
Confidence            344566788999999999999999887642             233599999999999999999999863     24777


Q ss_pred             EechhhhhhccCccHHHHHHHHHH--HhcCCCeEEEEcccCccCcc
Q psy6208         151 INGPEIMSKLAGESESNLRKAFEE--ADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~~~~~~~~~~~~~~~~~--a~~~~~~vl~lDeid~l~~~  194 (197)
                      +++++.....  .....+......  .....+.+|+|||+|.+.++
T Consensus        82 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  125 (327)
T 1iqp_A           82 LNASDERGIN--VIREKVKEFARTKPIGGASFKIIFLDEADALTQD  125 (327)
T ss_dssp             EETTCHHHHH--TTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHH
T ss_pred             eeccccCchH--HHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHH
Confidence            7776542210  111112111110  11145789999999998653

>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=99.26  E-value=1.8e-11  Score=98.37  Aligned_cols=98  Identities=18%  Similarity=0.285  Sum_probs=71.7

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEE
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLI  151 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v  151 (197)
                      .+...+..|++++|++..++.+.+++..             ....+++|+||+|+|||++++++++.+     +..++++
T Consensus        12 ~~~~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   78 (323)
T 1sxj_B           12 VEKYRPQVLSDIVGNKETIDRLQQIAKD-------------GNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLEL   78 (323)
T ss_dssp             HHHTCCSSGGGCCSCTHHHHHHHHHHHS-------------CCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEE
T ss_pred             HHhcCCCCHHHHHCCHHHHHHHHHHHHc-------------CCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEe
Confidence            3445677899999999999999998764             122349999999999999999999986     3457777


Q ss_pred             echhhhhhccCccHHHHHHHHHHHh-------cCCCeEEEEcccCccCc
Q psy6208         152 NGPEIMSKLAGESESNLRKAFEEAD-------KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~a~-------~~~~~vl~lDeid~l~~  193 (197)
                      ++++..      ....++..++...       .+.+.+|+|||+|.+..
T Consensus        79 ~~~~~~------~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~  121 (323)
T 1sxj_B           79 NASDDR------GIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA  121 (323)
T ss_dssp             CTTSCC------SHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH
T ss_pred             cCcccc------ChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCH
Confidence            765421      1234444444433       33478999999999865

>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=99.25  E-value=7.7e-11  Score=97.07  Aligned_cols=105  Identities=25%  Similarity=0.237  Sum_probs=71.5

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCC--ceEEECCCCCcHHHHHHHHHHHh----CCeEEEEe
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPR--GILLYGPPGTGKTLIARAVANET----GAFFFLIN  152 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~--~ill~G~~GtGKT~la~ala~~~----~~~~~~v~  152 (197)
                      +.+.+.++++.|.+..++++.+++......         ..+.  .++|+||+|+|||+++++++..+    +..+++++
T Consensus        10 l~~~~~p~~l~gr~~~~~~l~~~l~~~~~~---------~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~   80 (389)
T 1fnn_A           10 FSPSYVPKRLPHREQQLQQLDILLGNWLRN---------PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN   80 (389)
T ss_dssp             GSTTCCCSCCTTCHHHHHHHHHHHHHHHHS---------TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE
T ss_pred             cCCccCCCCCCChHHHHHHHHHHHHHHHcC---------CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEe
Confidence            344566789999999999999988753221         2234  79999999999999999999988    56889999


Q ss_pred             chhhhh------h----c------cCccHHHHH-HHHHHHh-cCCCeEEEEcccCccC
Q psy6208         153 GPEIMS------K----L------AGESESNLR-KAFEEAD-KNSPSIIFIDELDAIA  192 (197)
Q Consensus       153 ~~~~~~------~----~------~~~~~~~~~-~~~~~a~-~~~~~vl~lDeid~l~  192 (197)
                      |.....      .    +      .+.....+. .+..... ...|.+|+|||+|.+.
T Consensus        81 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~  138 (389)
T 1fnn_A           81 GFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA  138 (389)
T ss_dssp             TTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC
T ss_pred             CccCCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccc
Confidence            765321      0    0      111122222 2222221 2458899999999883

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.24  E-value=1.5e-11  Score=110.34  Aligned_cols=91  Identities=27%  Similarity=0.442  Sum_probs=70.2

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEE
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFF  149 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~  149 (197)
                      ...-.+++++|.+..++++.+.+..             ....++||+||||||||++|+++|+.+          +.+++
T Consensus       174 ~~~~~ld~iiG~~~~i~~l~~~l~~-------------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~  240 (758)
T 3pxi_A          174 AKEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVM  240 (758)
T ss_dssp             TTSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEE
T ss_pred             HhhCCCCCccCchHHHHHHHHHHhC-------------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEE
Confidence            3456788999999999999888764             345689999999999999999999997          77888


Q ss_pred             EEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEc
Q psy6208         150 LINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFID  186 (197)
Q Consensus       150 ~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lD  186 (197)
                      .+++   ...+.|+.+..++.+|..+....++|||||
T Consensus       241 ~~~~---g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD  274 (758)
T 3pxi_A          241 TLDM---GTKYRGEFEDRLKKVMDEIRQAGNIILFID  274 (758)
T ss_dssp             CC-------------CTTHHHHHHHHHTCCCCEEEEC
T ss_pred             Eecc---cccccchHHHHHHHHHHHHHhcCCEEEEEc
Confidence            8877   445667777788899999888889999999

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.24  E-value=8e-12  Score=101.88  Aligned_cols=100  Identities=23%  Similarity=0.308  Sum_probs=69.5

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC------CeEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG------AFFF  149 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~------~~~~  149 (197)
                      ..+...+.+|++++|++..++.+..++..             ....+++|+||||+|||++++++++.++      ..+.
T Consensus        27 ~~~k~~p~~~~~i~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~   93 (353)
T 1sxj_D           27 WVEKYRPKNLDEVTAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRIL   93 (353)
T ss_dssp             HHHHTCCSSTTTCCSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEE
T ss_pred             HHHhcCCCCHHHhhCCHHHHHHHHHHHhc-------------CCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceE
Confidence            34556778999999999999998887653             2224599999999999999999998863      4577


Q ss_pred             EEechhhhhhccCccHHHHHHHHHHH----------------hcCCCeEEEEcccCccCcc
Q psy6208         150 LINGPEIMSKLAGESESNLRKAFEEA----------------DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       150 ~v~~~~~~~~~~~~~~~~~~~~~~~a----------------~~~~~~vl~lDeid~l~~~  194 (197)
                      .+++++...      ...+...+...                ....+.+|+|||+|.+.++
T Consensus        94 ~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~  148 (353)
T 1sxj_D           94 ELNASDERG------ISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTAD  148 (353)
T ss_dssp             EECSSSCCC------HHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHH
T ss_pred             EEccccccc------hHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHH
Confidence            787765311      11111111111                1134579999999998764

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.24  E-value=4.3e-11  Score=91.57  Aligned_cols=98  Identities=19%  Similarity=0.304  Sum_probs=67.2

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------  147 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------  147 (197)
                      +...+..+++++|.+..++.+.+.+...            ..+..++|+||+|+|||++++++++.+...          
T Consensus        15 ~~~~p~~~~~~~g~~~~~~~l~~~l~~~------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~   82 (250)
T 1njg_A           15 RKWRPQTFADVVGQEHVLTALANGLSLG------------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGV   82 (250)
T ss_dssp             HHTCCCSGGGCCSCHHHHHHHHHHHHHT------------CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSC
T ss_pred             hccCCccHHHHhCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcc
Confidence            3455678899999999999999888642            334579999999999999999999887431          


Q ss_pred             --------------EEEEechhhhhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         148 --------------FFLINGPEIMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 --------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                                    ++.++...      ......+..+++...    ...+.+|+|||+|.+.+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~  140 (250)
T 1njg_A           83 CDNCREIEQGRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR  140 (250)
T ss_dssp             SHHHHHHHTTCCSSEEEEETTC------GGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCH
T ss_pred             cHHHHHHhccCCcceEEecCcc------cccHHHHHHHHHHhhhchhcCCceEEEEECcccccH
Confidence                          12222111      012233445554432    23578999999999764

>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=99.24  E-value=5.7e-12  Score=93.73  Aligned_cols=99  Identities=18%  Similarity=0.275  Sum_probs=62.3

Q ss_pred             CCCCcccccC----cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEe
Q psy6208          81 NAVGYDDIGG----CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLIN  152 (197)
Q Consensus        81 ~~~~~~~i~g----~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~  152 (197)
                      ...+|+++.+    +..+++.+.+++...          ....+.+++|+||+|+|||+|+++++..+    +..+++++
T Consensus         5 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~   74 (180)
T 3ec2_A            5 WNANLDTYHPKNVSQNRALLTIRVFVHNF----------NPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFD   74 (180)
T ss_dssp             TTCCSSSCCCCSHHHHHHHHHHHHHHHSC----------CGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEE
T ss_pred             hhCccccccCCCHHHHHHHHHHHHHHHhc----------cccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEE
Confidence            3567888765    334444444444332          12346789999999999999999999876    66788888


Q ss_pred             chhhhhhccCccHHH-HHHHHHHHhcCCCeEEEEcccCcc
Q psy6208         153 GPEIMSKLAGESESN-LRKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       153 ~~~~~~~~~~~~~~~-~~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                      +.++...+....... ....++...  .|++|+|||++..
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~llilDE~~~~  112 (180)
T 3ec2_A           75 TKDLIFRLKHLMDEGKDTKFLKTVL--NSPVLVLDDLGSE  112 (180)
T ss_dssp             HHHHHHHHHHHHHHTCCSHHHHHHH--TCSEEEEETCSSS
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHhc--CCCEEEEeCCCCC
Confidence            877764432111000 001222222  4789999999854

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.24  E-value=2.1e-11  Score=109.42  Aligned_cols=100  Identities=22%  Similarity=0.393  Sum_probs=70.0

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCC----CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh---
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGV----KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK---  159 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~----~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~---  159 (197)
                      +++|++.+++.+.+.+....        .|.    .+..++||+||||||||++|+++|+.++.+++.++|+++...   
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~--------~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~  530 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMAR--------AGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTV  530 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHH--------TTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCC
T ss_pred             hccCHHHHHHHHHHHHHHHh--------cccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhH
Confidence            47888888888887765421        111    233469999999999999999999999999999999987643   


Q ss_pred             --ccCcc----H-HHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 --LAGES----E-SNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 --~~~~~----~-~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                        ++|..    . ..-..+....+...++||||||+|.+.++
T Consensus       531 ~~l~g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~  572 (758)
T 1r6b_X          531 SRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPD  572 (758)
T ss_dssp             SSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHH
T ss_pred             hhhcCCCCCCcCccccchHHHHHHhCCCcEEEEeCccccCHH
Confidence              22211    1 01112233444455789999999988653

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=99.22  E-value=1.1e-11  Score=99.48  Aligned_cols=101  Identities=28%  Similarity=0.375  Sum_probs=69.1

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEec
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLING  153 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~  153 (197)
                      ...+.+|++++|++..++.+.+++..             ....+++|+||+|+|||++++++++.+     +.+++.+++
T Consensus        10 k~~p~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   76 (319)
T 2chq_A           10 KYRPRTLDEVVGQDEVIQRLKGYVER-------------KNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNA   76 (319)
T ss_dssp             TTSCSSGGGSCSCHHHHHHHHTTTTT-------------TCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEET
T ss_pred             hcCCCCHHHHhCCHHHHHHHHHHHhC-------------CCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeC
Confidence            35567899999999999988877653             223349999999999999999999986     335778887


Q ss_pred             hhhhhhccCccHHHHHHHHHHH--hcCCCeEEEEcccCccCcc
Q psy6208         154 PEIMSKLAGESESNLRKAFEEA--DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~a--~~~~~~vl~lDeid~l~~~  194 (197)
                      ++..+.  ......+.......  ....+.+|+|||+|.+...
T Consensus        77 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  117 (319)
T 2chq_A           77 SDERGI--DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTAD  117 (319)
T ss_dssp             TSTTCT--TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHH
T ss_pred             ccccCh--HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHH
Confidence            654321  11112222221111  1245789999999998653

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.22  E-value=8e-12  Score=94.46  Aligned_cols=101  Identities=22%  Similarity=0.305  Sum_probs=61.9

Q ss_pred             CCCcccccCcHH----HHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208          82 AVGYDDIGGCRK----QLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus        82 ~~~~~~i~g~~~----~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      ..+|+++.+.+.    +++.+.+++.....         ...+.+++|+||+|||||++++++++.+   +.++++++++
T Consensus        21 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~   91 (202)
T 2w58_A           21 RASLSDVDLNDDGRIKAIRFAERFVAEYEP---------GKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVP   91 (202)
T ss_dssp             CCCTTSSCCSSHHHHHHHHHHHHHHHHCCS---------SCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHH
T ss_pred             cCCHhhccCCChhHHHHHHHHHHHHHHhhh---------ccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhH
Confidence            567888876543    33334444332100         0123789999999999999999999987   6788899998


Q ss_pred             hhhhhccCccH-HHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         155 EIMSKLAGESE-SNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       155 ~~~~~~~~~~~-~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ++...+..... ......+.....  +++|+|||++....
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~lilDei~~~~~  129 (202)
T 2w58_A           92 ELFRELKHSLQDQTMNEKLDYIKK--VPVLMLDDLGAEAM  129 (202)
T ss_dssp             HHHHHHHHC---CCCHHHHHHHHH--SSEEEEEEECCC--
T ss_pred             HHHHHHHHHhccchHHHHHHHhcC--CCEEEEcCCCCCcC
Confidence            77654321110 011222333332  46999999977543

>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=99.18  E-value=4.9e-11  Score=97.90  Aligned_cols=98  Identities=19%  Similarity=0.304  Sum_probs=67.8

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe----------
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----------  147 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~----------  147 (197)
                      +...+.+|++++|++..++.+.+.+...            ..+..++|+||+|+|||++++++++.+++.          
T Consensus         8 ~k~rp~~~~~~vg~~~~~~~L~~~l~~~------------~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~   75 (373)
T 1jr3_A            8 RKWRPQTFADVVGQEHVLTALANGLSLG------------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGV   75 (373)
T ss_dssp             HHTCCCSTTTSCSCHHHHHHHHHHHHHT------------CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSS
T ss_pred             HhhCCCchhhccCcHHHHHHHHHHHHhC------------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcc
Confidence            3455678999999999999999988642            334578999999999999999999988542          


Q ss_pred             --------------EEEEechhhhhhccCccHHHHHHHHHHHh----cCCCeEEEEcccCccCc
Q psy6208         148 --------------FFLINGPEIMSKLAGESESNLRKAFEEAD----KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 --------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~  193 (197)
                                    ++.++...      ......++.+++.+.    .+.+.+|+|||+|.+..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~  133 (373)
T 1jr3_A           76 CDNCREIEQGRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR  133 (373)
T ss_dssp             SHHHHHHHTSCCSSCEEEETTC------SCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCH
T ss_pred             cHHHHHHhccCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcH
Confidence                          12222111      011123445555543    23468999999999864

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.17  E-value=2.8e-11  Score=98.59  Aligned_cols=54  Identities=22%  Similarity=0.243  Sum_probs=41.9

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .+.++|++++|.+..++.+......             ....++||+||||||||++|+++++.++.
T Consensus        18 ~~~~~f~~i~G~~~~~~~l~~~~~~-------------~~~~~vLl~G~~GtGKT~la~~la~~~~~   71 (350)
T 1g8p_A           18 RPVFPFSAIVGQEDMKLALLLTAVD-------------PGIGGVLVFGDRGTGKSTAVRALAALLPE   71 (350)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHC-------------GGGCCEEEECCGGGCTTHHHHHHHHHSCC
T ss_pred             CCCCCchhccChHHHHHHHHHHhhC-------------CCCceEEEECCCCccHHHHHHHHHHhCcc
Confidence            4578999999999977665433321             12346999999999999999999998863

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.15  E-value=4.2e-11  Score=108.81  Aligned_cols=104  Identities=23%  Similarity=0.342  Sum_probs=70.0

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh--
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK--  159 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~--  159 (197)
                      +++++|++.+++.+...+........   . .-.+..++||+||||||||++|+++|+.+   +.+++.++|+++...  
T Consensus       557 ~~~viG~~~a~~~l~~~i~~~~~g~~---~-~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~  632 (854)
T 1qvr_A          557 HKRVVGQDEAIRAVADAIRRARAGLK---D-PNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA  632 (854)
T ss_dssp             HHHSCSCHHHHHHHHHHHHHHGGGCS---C-SSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGG
T ss_pred             hcccCCcHHHHHHHHHHHHHHhcccC---C-CCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhH
Confidence            35789999999999888865311000   0 00123479999999999999999999998   779999999876543  


Q ss_pred             ---cc-------CccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 ---LA-------GESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ---~~-------~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                         +.       |..+  ...+........+++|||||++.+.+.
T Consensus       633 ~s~l~g~~~~~~G~~~--~g~l~~~~~~~~~~vl~lDEi~~l~~~  675 (854)
T 1qvr_A          633 VSRLIGAPPGYVGYEE--GGQLTEAVRRRPYSVILFDEIEKAHPD  675 (854)
T ss_dssp             GGGC----------------CHHHHHHHCSSEEEEESSGGGSCHH
T ss_pred             HHHHcCCCCCCcCccc--cchHHHHHHhCCCeEEEEecccccCHH
Confidence               12       2111  112233334455689999999988653

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=99.12  E-value=4e-10  Score=91.87  Aligned_cols=96  Identities=22%  Similarity=0.377  Sum_probs=67.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      ..+++++.|.+..++.+...+.....       . -..+..++|+||||+|||||+++++..++.++...+++.+.    
T Consensus        21 ~~~l~~~~g~~~~~~~l~~~i~~~~~-------~-~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~----   88 (334)
T 1in4_A           21 PKSLDEFIGQENVKKKLSLALEAAKM-------R-GEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV----   88 (334)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHH-------H-TCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCC----
T ss_pred             CccHHHccCcHHHHHHHHHHHHHHHh-------c-CCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhc----
Confidence            45788899999888888777653210       0 12446799999999999999999999999888777654331    


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                        ....+...+...  ...+|++|||++.+.+
T Consensus        89 --~~~~l~~~~~~~--~~~~v~~iDE~~~l~~  116 (334)
T 1in4_A           89 --KQGDMAAILTSL--ERGDVLFIDEIHRLNK  116 (334)
T ss_dssp             --SHHHHHHHHHHC--CTTCEEEEETGGGCCH
T ss_pred             --CHHHHHHHHHHc--cCCCEEEEcchhhcCH
Confidence              122333333322  2467999999999865

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.12  E-value=3e-11  Score=98.09  Aligned_cols=92  Identities=22%  Similarity=0.252  Sum_probs=62.7

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech------hhh
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGP------EIM  157 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~------~~~  157 (197)
                      .++++.|++..++.+...+..               +.+++|+||||||||++|+++++.++.++..+++.      ++.
T Consensus        25 ~~~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~   89 (331)
T 2r44_A           25 VGKVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLI   89 (331)
T ss_dssp             HTTTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHH
T ss_pred             hccceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcC
Confidence            456899999998888776643               35899999999999999999999999999988873      122


Q ss_pred             hhccCccHHHHHHHHHHHhcC--CCeEEEEcccCccCcc
Q psy6208         158 SKLAGESESNLRKAFEEADKN--SPSIIFIDELDAIAPK  194 (197)
Q Consensus       158 ~~~~~~~~~~~~~~~~~a~~~--~~~vl~lDeid~l~~~  194 (197)
                      +.......   ...+. ...+  ..++|||||++.+.++
T Consensus        90 g~~~~~~~---~~~~~-~~~g~l~~~vl~iDEi~~~~~~  124 (331)
T 2r44_A           90 GTMIYNQH---KGNFE-VKKGPVFSNFILADEVNRSPAK  124 (331)
T ss_dssp             EEEEEETT---TTEEE-EEECTTCSSEEEEETGGGSCHH
T ss_pred             CceeecCC---CCceE-eccCcccccEEEEEccccCCHH
Confidence            11110000   00000 0011  1269999999998764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=99.11  E-value=9.5e-11  Score=94.67  Aligned_cols=100  Identities=20%  Similarity=0.369  Sum_probs=60.7

Q ss_pred             CCCcccccCcH----HHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208          82 AVGYDDIGGCR----KQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus        82 ~~~~~~i~g~~----~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      ..+|+++.+..    .+...+.+++...          .-....+++|+||||||||+||.++++.+    +.+++++++
T Consensus       120 ~~tfd~f~~~~~~~~~~~~~~~~~i~~~----------~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~  189 (308)
T 2qgz_A          120 HIHLSDIDVNNASRMEAFSAILDFVEQY----------PSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHF  189 (308)
T ss_dssp             SCCGGGSCCCSHHHHHHHHHHHHHHHHC----------SCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEH
T ss_pred             hCCHhhCcCCChHHHHHHHHHHHHHHhc----------cccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEH
Confidence            46888876533    2333334444321          11125789999999999999999999865    478899999


Q ss_pred             hhhhhhccCcc-HHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         154 PEIMSKLAGES-ESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       154 ~~~~~~~~~~~-~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      +++...+.... .......+....  .+++|||||++....
T Consensus       190 ~~l~~~l~~~~~~~~~~~~~~~~~--~~~lLiiDdig~~~~  228 (308)
T 2qgz_A          190 PSFAIDVKNAISNGSVKEEIDAVK--NVPVLILDDIGAEQA  228 (308)
T ss_dssp             HHHHHHHHCCCC----CCTTHHHH--TSSEEEEETCCC---
T ss_pred             HHHHHHHHHHhccchHHHHHHHhc--CCCEEEEcCCCCCCC
Confidence            88766543321 111122222222  357999999976543

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.11  E-value=5.5e-10  Score=91.07  Aligned_cols=99  Identities=24%  Similarity=0.367  Sum_probs=68.8

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC-----eEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFL  150 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~-----~~~~  150 (197)
                      ..+...+.+|+++.|++.+++.+...+..             ....+++|+||||+|||++++++++.+..     .+..
T Consensus        15 ~~~k~rp~~~~~~~g~~~~~~~L~~~i~~-------------g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~   81 (340)
T 1sxj_C           15 WVEKYRPETLDEVYGQNEVITTVRKFVDE-------------GKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLE   81 (340)
T ss_dssp             HHHHTCCSSGGGCCSCHHHHHHHHHHHHT-------------TCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEE
T ss_pred             hHHHhCCCcHHHhcCcHHHHHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEE
Confidence            34456778999999999999999888764             12234999999999999999999998632     3566


Q ss_pred             EechhhhhhccCccHHHHHHHHHHHh------cCCCeEEEEcccCccCc
Q psy6208         151 INGPEIMSKLAGESESNLRKAFEEAD------KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       151 v~~~~~~~~~~~~~~~~~~~~~~~a~------~~~~~vl~lDeid~l~~  193 (197)
                      +++++..      ....++..+....      ...+.+++|||+|.+..
T Consensus        82 ~~~~~~~------~~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~  124 (340)
T 1sxj_C           82 LNASDDR------GIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN  124 (340)
T ss_dssp             ECTTSCC------SHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH
T ss_pred             EcCcccc------cHHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCH
Confidence            6654321      1223333332221      12368999999998864

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.05  E-value=1.1e-10  Score=100.07  Aligned_cols=93  Identities=20%  Similarity=0.281  Sum_probs=58.6

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEech-----hhhh
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGP-----EIMS  158 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~-----~~~~  158 (197)
                      ..+.|.+..++.+...+..               ..++||+||||||||++|+++|+.++  .++..+++.     ++.+
T Consensus        22 ~~ivGq~~~i~~l~~al~~---------------~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G   86 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALS---------------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFG   86 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHH---------------TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHC
T ss_pred             hhhHHHHHHHHHHHHHHhc---------------CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcC
Confidence            3578999888877666532               45899999999999999999999884  456666553     2222


Q ss_pred             hccCccHHHHHHHHHHHhcC---CCeEEEEcccCccCcc
Q psy6208         159 KLAGESESNLRKAFEEADKN---SPSIIFIDELDAIAPK  194 (197)
Q Consensus       159 ~~~~~~~~~~~~~~~~a~~~---~~~vl~lDeid~l~~~  194 (197)
                      .+.+... .-...|..+..+   .++|||||||+.+.++
T Consensus        87 ~~~~~~~-~~~g~~~~~~~g~l~~~~IL~IDEI~r~~~~  124 (500)
T 3nbx_X           87 PLSIQAL-KDEGRYERLTSGYLPEAEIVFLDEIWKAGPA  124 (500)
T ss_dssp             CBC-----------CBCCTTSGGGCSEEEEESGGGCCHH
T ss_pred             cccHHHH-hhchhHHhhhccCCCcceeeeHHhHhhhcHH
Confidence            2211111 012223322222   4679999999987754

>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=99.02  E-value=2.7e-10  Score=92.98  Aligned_cols=54  Identities=20%  Similarity=0.321  Sum_probs=43.1

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHH-HhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMV-ELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v-~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +...+.+|++++|++..++.+.+++ ..             ....+++|+||+|+|||+++++++..+
T Consensus         6 ~kyrP~~~~~~vg~~~~~~~l~~~~~~~-------------~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E            6 DKYRPKSLNALSHNEELTNFLKSLSDQP-------------RDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             TTTCCCSGGGCCSCHHHHHHHHTTTTCT-------------TCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             hccCCCCHHHhcCCHHHHHHHHHHHhhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3456778999999999998887776 32             122339999999999999999999964

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.01  E-value=3.5e-10  Score=81.92  Aligned_cols=61  Identities=15%  Similarity=0.264  Sum_probs=47.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ....++|+||+|+|||+|+++++...   +..+++++..++...               +....+++|+|||++.+...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~---------------~~~~~~~lLilDE~~~~~~~   98 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT---------------DAAFEAEYLAVDQVEKLGNE   98 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC---------------GGGGGCSEEEEESTTCCCSH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH---------------HHHhCCCEEEEeCccccChH
Confidence            35679999999999999999999887   677888888766433               11224789999999987653

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.91  E-value=3.8e-09  Score=87.61  Aligned_cols=108  Identities=14%  Similarity=0.173  Sum_probs=69.3

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHH-HhcccChhhHhhhCCCCCCceEE--ECCCCCcHHHHHHHHHHHh---------CC
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMV-ELPLRHPSLFKAIGVKPPRGILL--YGPPGTGKTLIARAVANET---------GA  146 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v-~~~~~~~~~~~~~~~~~~~~ill--~G~~GtGKT~la~ala~~~---------~~  146 (197)
                      +.+.+..++++|.+..++++.+.+ .......       ...+..++|  +||+|+|||++++++++..         +.
T Consensus        15 ~~~~~~p~~l~gR~~el~~l~~~l~~~~~~~~-------~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~   87 (412)
T 1w5s_A           15 FDENYIPPELRVRRGEAEALARIYLNRLLSGA-------GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTV   87 (412)
T ss_dssp             GSTTCCCSSCSSSCHHHHHHHHHHHHHHHTSS-------CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCE
T ss_pred             cCCccCCCCCCChHHHHHHHHHHHhHHHhcCC-------CCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCce
Confidence            344556688999999999999887 5421110       023457899  9999999999999998876         45


Q ss_pred             eEEEEechhh------hhhc----------cCccHHH-HHHHHHHH-hcCCCeEEEEcccCccCc
Q psy6208         147 FFFLINGPEI------MSKL----------AGESESN-LRKAFEEA-DKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       147 ~~~~v~~~~~------~~~~----------~~~~~~~-~~~~~~~a-~~~~~~vl~lDeid~l~~  193 (197)
                      .+++++|...      ...+          .+..... ...+.+.. ....+.+|+|||+|.+..
T Consensus        88 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~  152 (412)
T 1w5s_A           88 KQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLS  152 (412)
T ss_dssp             EEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhh
Confidence            7888887432      1110          0111112 22222222 124588999999999864

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=98.81  E-value=3.4e-09  Score=88.08  Aligned_cols=96  Identities=23%  Similarity=0.306  Sum_probs=68.5

Q ss_pred             cccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEechhhhhh--
Q psy6208          85 YDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGPEIMSK--  159 (197)
Q Consensus        85 ~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~~~~~~--  159 (197)
                      ++.+.|.+..++++.+.+...           .....+++|+|++||||+++|++++....   .+|+.++|..+...  
T Consensus       136 ~~~~ig~s~~m~~l~~~i~~~-----------a~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~  204 (387)
T 1ny5_A          136 EEEYVFESPKMKEILEKIKKI-----------SCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIF  204 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHH-----------TTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHH
T ss_pred             chhhhhccHHhhHHHHHHHHh-----------cCCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHH
Confidence            456788888888887777653           24566799999999999999999998873   68999999876432  


Q ss_pred             ---ccCccH-------HHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 ---LAGESE-------SNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ---~~~~~~-------~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                         ++|...       ....+.|+.+..   .+||||||+.|++.
T Consensus       205 ~~elfg~~~g~~tga~~~~~g~~~~a~~---gtlfldei~~l~~~  246 (387)
T 1ny5_A          205 EAELFGYEKGAFTGAVSSKEGFFELADG---GTLFLDEIGELSLE  246 (387)
T ss_dssp             HHHHHCBCTTSSTTCCSCBCCHHHHTTT---SEEEEESGGGCCHH
T ss_pred             HHHhcCCCCCCCCCcccccCCceeeCCC---cEEEEcChhhCCHH
Confidence               122111       012244555544   48999999999864

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=98.80  E-value=2.9e-09  Score=86.09  Aligned_cols=75  Identities=16%  Similarity=0.147  Sum_probs=49.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEec--hhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLING--PEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~--~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      .....++|+||||+|||+|+.+++...+.++.+++.  .+..+.+....+..+..+.+...+..  +|+||+++.+...
T Consensus       121 ~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~--LLVIDsI~aL~~~  197 (331)
T 2vhj_A          121 YASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR--VIVIDSLKNVIGA  197 (331)
T ss_dssp             EESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS--EEEEECCTTTC--
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC--EEEEecccccccc
Confidence            445568999999999999999999876555455554  33333333334444555555555543  9999999998654

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.77  E-value=2.4e-08  Score=80.45  Aligned_cols=87  Identities=11%  Similarity=0.178  Sum_probs=59.0

Q ss_pred             CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh------CCeEEEEechhhhhhccCc
Q psy6208          90 GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET------GAFFFLINGPEIMSKLAGE  163 (197)
Q Consensus        90 g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~------~~~~~~v~~~~~~~~~~~~  163 (197)
                      |++++++.+.+.+...             ..+.+||+||+|+|||++++++++..      ...+..++++.-     ..
T Consensus         1 g~~~~~~~L~~~i~~~-------------~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~-----~~   62 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS-------------EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE-----NI   62 (305)
T ss_dssp             ---CHHHHHHHHHHTC-------------SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS-----CB
T ss_pred             ChHHHHHHHHHHHHCC-------------CCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcC-----CC
Confidence            5667777888877642             24579999999999999999999863      235666664310     12


Q ss_pred             cHHHHHHHHHHHhcC----CCeEEEEcccCccCcc
Q psy6208         164 SESNLRKAFEEADKN----SPSIIFIDELDAIAPK  194 (197)
Q Consensus       164 ~~~~~~~~~~~a~~~----~~~vl~lDeid~l~~~  194 (197)
                      .-..++.+.+.+...    ...|+||||+|.|...
T Consensus        63 ~id~ir~li~~~~~~p~~~~~kvviIdead~lt~~   97 (305)
T 2gno_A           63 GIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQ   97 (305)
T ss_dssp             CHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCHH
T ss_pred             CHHHHHHHHHHHhhccccCCceEEEeccHHHhCHH
Confidence            334566777766532    3579999999998653

>3qwz_A Transitional endoplasmic reticulum ATPase; UBX, P97 binding, transport protein; HET: MLY; 2.00A {Homo sapiens} PDB: 2pjh_B

Probab=98.75  E-value=1.5e-08  Score=77.19  Aligned_cols=81  Identities=80%  Similarity=1.442  Sum_probs=63.8

Q ss_pred             hhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHHhhcCCCCccccc
Q psy6208          10 SNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEEEASNAVGYDDIG   89 (197)
Q Consensus        10 ~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   89 (197)
                      .+.+..|++++|.+.++++..|+.+.+...++.++|+|+.++|.+.+++.+.|.+.+.++|..++..+...+.++|+|||
T Consensus       131 ~~~~~~~lk~~l~~~~rPV~~GD~i~v~~~~~~v~f~Vv~t~P~g~viV~~~T~I~~~~~pv~~~~~e~~~~~VtYeDIG  210 (211)
T 3qwz_A          131 GNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFXVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDIG  210 (211)
T ss_dssp             SCHHHHTTHHHHTTCCEEEETTCEEECCCTTSCCEEEEEEEESSSEEEECTTCEEECCSCCBCCCGGGSCCC--------
T ss_pred             chhHHHHHHHHHhhCCceeecCCEEEEccCCcEEEEEEEeecCCCCEEECCCcEEEEcCcccccccccccCCCcceeCCC
Confidence            34688999999998899999999999998889999999999999999999999999999988765544456789999998


Q ss_pred             C
Q psy6208          90 G   90 (197)
Q Consensus        90 g   90 (197)
                      |
T Consensus       211 G  211 (211)
T 3qwz_A          211 G  211 (211)
T ss_dssp             -
T ss_pred             C
Confidence            7

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.70  E-value=8.9e-08  Score=77.90  Aligned_cols=88  Identities=9%  Similarity=0.208  Sum_probs=56.7

Q ss_pred             cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe-----------------------
Q psy6208          91 CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----------------------  147 (197)
Q Consensus        91 ~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~-----------------------  147 (197)
                      ++..++.+.+.+..-            ..++.+||+||+|+|||++|+++++.+.+.                       
T Consensus         7 ~~~~~~~l~~~i~~~------------~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~   74 (334)
T 1a5t_A            7 LRPDFEKLVASYQAG------------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHP   74 (334)
T ss_dssp             GHHHHHHHHHHHHTT------------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCT
T ss_pred             hHHHHHHHHHHHHcC------------CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            355666666666531            345679999999999999999999987542                       


Q ss_pred             -EEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCc
Q psy6208         148 -FFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAP  193 (197)
Q Consensus       148 -~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~  193 (197)
                       +..++..+-   -.......++.+.+.+..    +.+.|++|||+|.|..
T Consensus        75 d~~~~~~~~~---~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~  122 (334)
T 1a5t_A           75 DYYTLAPEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTD  122 (334)
T ss_dssp             TEEEECCCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCH
T ss_pred             CEEEEecccc---CCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCH
Confidence             222222100   001123456666666543    3468999999999875

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.70  E-value=1.3e-07  Score=76.29  Aligned_cols=56  Identities=29%  Similarity=0.253  Sum_probs=45.8

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      ...+.+.|.+..++++.+.+..               ...++|+||+|+|||+|++.+++..+  ++++++..
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~---------------~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~~   64 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLEN---------------YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDCRE   64 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHH---------------CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhc---------------CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEeec
Confidence            3446789999999999888753               15799999999999999999998875  67777654

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=98.69  E-value=2e-08  Score=82.96  Aligned_cols=96  Identities=25%  Similarity=0.427  Sum_probs=65.8

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe--EEEEechhhhhhc---
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF--FFLINGPEIMSKL---  160 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~--~~~v~~~~~~~~~---  160 (197)
                      ..+.|.+..+.++.+.+...           ......++++|++||||+.+|++++...+..  ++.++|..+....   
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~-----------a~~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~  197 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKI-----------AKSKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAES  197 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHH-----------HTSCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHH
T ss_pred             ccccccchHHHHHHhhhhhh-----------hccchhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHH
Confidence            35677777777777666543           1345679999999999999999999988543  9999998764322   


Q ss_pred             --cCccH-------HHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 --AGESE-------SNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 --~~~~~-------~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                        +|...       ....+.|+.+..   .+||||||+.|++.-
T Consensus       198 ~lfg~~~g~~tga~~~~~g~~~~a~~---gtlfldei~~l~~~~  238 (368)
T 3dzd_A          198 ELFGHEKGAFTGALTRKKGKLELADQ---GTLFLDEVGELDQRV  238 (368)
T ss_dssp             HHHEECSCSSSSCCCCEECHHHHTTT---SEEEEETGGGSCHHH
T ss_pred             HhcCccccccCCcccccCChHhhcCC---CeEEecChhhCCHHH
Confidence              11100       011234565544   479999999998653

>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=98.64  E-value=2.3e-07  Score=75.07  Aligned_cols=56  Identities=20%  Similarity=0.208  Sum_probs=46.0

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      ...+.+.|.+..++.+.+ +.              .  ..++|+||+|+|||+|++.+++..+..++++++..
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~--------------~--~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~   65 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LR--------------A--PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRK   65 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TC--------------S--SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             CCHHHhcChHHHHHHHHH-hc--------------C--CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchh
Confidence            445678999999888877 52              1  47999999999999999999998877778888754

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=98.63  E-value=2.4e-08  Score=87.48  Aligned_cols=53  Identities=28%  Similarity=0.381  Sum_probs=44.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ...++..|++++|++.+++.+...+..               ...++|+||||||||+++++++..+.
T Consensus        33 ~~~rp~~l~~i~G~~~~l~~l~~~i~~---------------g~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           33 IEVPEKLIDQVIGQEHAVEVIKTAANQ---------------KRHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SCCCSSHHHHCCSCHHHHHHHHHHHHT---------------TCCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ccccccccceEECchhhHhhccccccC---------------CCEEEEEeCCCCCHHHHHHHHhccCC
Confidence            345567889999999999888777652               45899999999999999999999874

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.62  E-value=8.8e-08  Score=92.71  Aligned_cols=85  Identities=26%  Similarity=0.393  Sum_probs=62.3

Q ss_pred             hhHhhhC---CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc----------------cCccHHH
Q psy6208         110 SLFKAIG---VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL----------------AGESESN  167 (197)
Q Consensus       110 ~~~~~~~---~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~----------------~~~~~~~  167 (197)
                      .+-..+|   +.++.+++|+||||||||+||.+++.+.   +..+.+++..+.....                ....+..
T Consensus      1414 ~LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~ 1493 (2050)
T 3cmu_A         1414 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQA 1493 (2050)
T ss_dssp             HHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHH
T ss_pred             HHHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHH
Confidence            3344455   7788899999999999999999997765   6678888876432111                1233455


Q ss_pred             HHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         168 LRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       168 ~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +..++..++..+|++|+||+++.+.+.
T Consensus      1494 l~~~~~lvr~~~~~lVVIDsi~al~p~ 1520 (2050)
T 3cmu_A         1494 LEICDALARSGAVDVIVVDSVAALTPK 1520 (2050)
T ss_dssp             HHHHHHHHHHTCCSEEEESCGGGCCCH
T ss_pred             HHHHHHHHhcCCCCEEEEcChhHhccc
Confidence            666666777788999999999988773

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.60  E-value=3.4e-08  Score=74.89  Aligned_cols=33  Identities=15%  Similarity=0.269  Sum_probs=27.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      ++..++++|+||||||||++|.++++.+...++
T Consensus        55 iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~   87 (212)
T 1tue_A           55 TPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVI   87 (212)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHHTCEEC
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhCCCee
Confidence            344567999999999999999999999865543

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.59  E-value=2.2e-09  Score=93.94  Aligned_cols=103  Identities=18%  Similarity=0.199  Sum_probs=56.1

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE----echhhhhhccC
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLI----NGPEIMSKLAG  162 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v----~~~~~~~~~~~  162 (197)
                      .+.|++.+++.+...+.... ...... .......++||+||||||||++|+++|+.++...+..    ++..+......
T Consensus       296 ~I~G~e~vk~al~~~l~~g~-~~~~~~-~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~  373 (595)
T 3f9v_A          296 SIYGHWELKEALALALFGGV-PKVLED-TRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVR  373 (595)
T ss_dssp             TTSCCHHHHHHHTTTTTCCC-CEETTT-TEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSS
T ss_pred             hhcChHHHHHHHHHHHhCCC-cccccC-CCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeee
Confidence            47788776655533222110 000000 1122334899999999999999999999887655432    22222222111


Q ss_pred             ccHH----HHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         163 ESES----NLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       163 ~~~~----~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ....    ...+.+..+.   .+++||||+|.+.++
T Consensus       374 ~~~~g~~~~~~G~l~~A~---~gil~IDEid~l~~~  406 (595)
T 3f9v_A          374 EKGTGEYYLEAGALVLAD---GGIAVIDEIDKMRDE  406 (595)
T ss_dssp             GGGTSSCSEEECHHHHHS---SSEECCTTTTCCCSH
T ss_pred             ccccccccccCCeeEecC---CCcEEeehhhhCCHh
Confidence            0000    0011233332   469999999999875

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.48  E-value=7.2e-08  Score=72.99  Aligned_cols=73  Identities=26%  Similarity=0.349  Sum_probs=45.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH--------hC-CeEEEEechhhhhhcc-------------Cc--cHHHHHHHHHHHhc
Q psy6208         122 GILLYGPPGTGKTLIARAVANE--------TG-AFFFLINGPEIMSKLA-------------GE--SESNLRKAFEEADK  177 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~--------~~-~~~~~v~~~~~~~~~~-------------~~--~~~~~~~~~~~a~~  177 (197)
                      -.+++|+||+|||++|.+++..        .| +++++.++.++.....             .+  ....+...+.. ..
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~-~~   85 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKK-PE   85 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTS-GG
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhc-cc
Confidence            5789999999999999886543        24 6666677665532221             11  11122222111 23


Q ss_pred             CCCeEEEEcccCccCccc
Q psy6208         178 NSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~~r  195 (197)
                      +..++|+|||++.+.+.+
T Consensus        86 ~~~~vliIDEAq~l~~~~  103 (199)
T 2r2a_A           86 NIGSIVIVDEAQDVWPAR  103 (199)
T ss_dssp             GTTCEEEETTGGGTSBCC
T ss_pred             cCceEEEEEChhhhccCc
Confidence            347899999999997654

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=98.30  E-value=2.6e-06  Score=64.38  Aligned_cols=39  Identities=23%  Similarity=0.287  Sum_probs=32.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      +..+.-++|.||||+|||+++..++...+..+++++...
T Consensus        17 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           17 FAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             BCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            556667899999999999999999886677888887643

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.29  E-value=1.6e-06  Score=64.37  Aligned_cols=26  Identities=31%  Similarity=0.632  Sum_probs=22.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAF  147 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~  147 (197)
                      .+.|.||+|+|||||++.++..++..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i~   27 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCc
Confidence            47899999999999999999887543

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=98.26  E-value=2e-06  Score=70.48  Aligned_cols=77  Identities=27%  Similarity=0.390  Sum_probs=49.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh----ccC------------ccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK----LAG------------ESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~----~~~------------~~~~~~~~~~~~a~~  177 (197)
                      +.....++|+||||+|||+|+..++...   +..+++++...-...    ..+            ..+..+..+...+..
T Consensus        58 l~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~  137 (349)
T 2zr9_A           58 LPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRS  137 (349)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTT
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhc
Confidence            4556668999999999999999997654   667888875432111    011            112222222223335


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ..|++|+||++..+.+
T Consensus       138 ~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          138 GALDIIVIDSVAALVP  153 (349)
T ss_dssp             TCCSEEEEECGGGCCC
T ss_pred             CCCCEEEEcChHhhcc
Confidence            5699999999999874

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=98.25  E-value=2.2e-06  Score=70.36  Aligned_cols=77  Identities=22%  Similarity=0.331  Sum_probs=50.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh-------------c---cCccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-------------L---AGESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~-------------~---~~~~~~~~~~~~~~a~~  177 (197)
                      +.+..-++|+||||+|||+|+..++...   +..+++++.......             +   ....+..+..+......
T Consensus        58 i~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~  137 (356)
T 3hr8_A           58 YPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVRS  137 (356)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHT
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhh
Confidence            4455668999999999999999998764   667888886542210             0   01122222222222334


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ..+++++||.+..+.+
T Consensus       138 ~~~dlvVIDSi~~l~~  153 (356)
T 3hr8_A          138 GVVDLIVVDSVAALVP  153 (356)
T ss_dssp             SCCSEEEEECTTTCCC
T ss_pred             cCCCeEEehHhhhhcC
Confidence            6789999999998876

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=98.23  E-value=2.8e-06  Score=70.03  Aligned_cols=77  Identities=21%  Similarity=0.404  Sum_probs=50.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc----cC-----------ccHHHHHHHHHH-Hhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL----AG-----------ESESNLRKAFEE-ADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~----~~-----------~~~~~~~~~~~~-a~~  177 (197)
                      +.....++|+|+||+|||+|+..++...   +.++++++...-....    .+           .....+....+. ...
T Consensus        71 l~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~  150 (366)
T 1xp8_A           71 IPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRS  150 (366)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTT
T ss_pred             ccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhc
Confidence            4556668999999999999999987654   6788888865322111    00           111222223332 334


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ..+++|+||.+..+.+
T Consensus       151 ~~~~lVVIDsl~~l~~  166 (366)
T 1xp8_A          151 GAIDVVVVDSVAALTP  166 (366)
T ss_dssp             TCCSEEEEECTTTCCC
T ss_pred             CCCCEEEEeChHHhcc
Confidence            5689999999999975

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=98.23  E-value=2e-06  Score=65.44  Aligned_cols=37  Identities=27%  Similarity=0.348  Sum_probs=28.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      +..+..++|.||+|+|||+|++.++...   +..+++++.
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~   59 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTT   59 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEES
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEc
Confidence            4556678999999999999999998654   556666653

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.23  E-value=2.1e-06  Score=85.52  Aligned_cols=70  Identities=26%  Similarity=0.367  Sum_probs=46.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH-HhCCeEEEEechhhhhhccCccHHHHHHHHHHHh---------------cCCCeE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN-ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAD---------------KNSPSI  182 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~---------------~~~~~v  182 (197)
                      ...++||+||||||||++|+.+.. ..+..++.++++...+      ...+...++...               .+.+.|
T Consensus      1266 ~~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts------~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~V 1339 (2695)
T 4akg_A         1266 SKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTT------TEHILSALHRHTNYVTTSKGLTLLPKSDIKNLV 1339 (2695)
T ss_dssp             HTCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCC------HHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCC------HHHHHHHHHHHhhhccccCCccccCCCCCceEE
Confidence            356899999999999999955544 4467788888765532      233444444321               234579


Q ss_pred             EEEcccCccCcc
Q psy6208         183 IFIDELDAIAPK  194 (197)
Q Consensus       183 l~lDeid~l~~~  194 (197)
                      |||||++.-..+
T Consensus      1340 lFiDEinmp~~d 1351 (2695)
T 4akg_A         1340 LFCDEINLPKLD 1351 (2695)
T ss_dssp             EEEETTTCSCCC
T ss_pred             EEeccccccccc
Confidence            999999864443

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=98.21  E-value=1.7e-06  Score=73.34  Aligned_cols=55  Identities=16%  Similarity=0.367  Sum_probs=34.3

Q ss_pred             HHhhcCCCCccccc-CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          76 EEEASNAVGYDDIG-GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        76 ~~~~~~~~~~~~i~-g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+...+.+|+++- ++..++..+...+..              ....++|.|++|||||+++.+++..+
T Consensus        14 ~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~--------------~~~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           14 LVPRGSHMTFDDLTEGQKNAFNIVMKAIKE--------------KKHHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             -------CCSSCCCHHHHHHHHHHHHHHHS--------------SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CccccCCCccccCCHHHHHHHHHHHHHHhc--------------CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34445567787764 444455544444432              23389999999999999999998876

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=98.19  E-value=1.9e-06  Score=63.18  Aligned_cols=35  Identities=23%  Similarity=0.279  Sum_probs=30.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      ..|+|.|+||+|||+++++++..++.+++.++...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D~   38 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDS   38 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeEEeccch
Confidence            46899999999999999999999988887766543

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=98.18  E-value=4e-06  Score=68.82  Aligned_cols=77  Identities=21%  Similarity=0.408  Sum_probs=51.0

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc----cC-----------ccHHHHHHHHHH-Hhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL----AG-----------ESESNLRKAFEE-ADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~----~~-----------~~~~~~~~~~~~-a~~  177 (197)
                      +.....++|+|+||+|||+||..++...   +.++++++...-....    .+           .....+...++. ...
T Consensus        60 l~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~  139 (356)
T 1u94_A           60 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS  139 (356)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhc
Confidence            4566678999999999999999998654   6688888864321110    00           112223333332 234


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ..+++|+||.+..+.+
T Consensus       140 ~~~~lVVIDsl~~l~~  155 (356)
T 1u94_A          140 GAVDVIVVDSVAALTP  155 (356)
T ss_dssp             TCCSEEEEECGGGCCC
T ss_pred             cCCCEEEEcCHHHhcc
Confidence            6689999999999875

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.17  E-value=1.5e-06  Score=84.25  Aligned_cols=79  Identities=24%  Similarity=0.391  Sum_probs=55.7

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhcc----------------CccHHHHHHHHHHHh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLA----------------GESESNLRKAFEEAD  176 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~----------------~~~~~~~~~~~~~a~  176 (197)
                      ++..+..++++||||||||+|+.+++.+.   |.++.+++..+....+.                ...+....-.....+
T Consensus      1077 gi~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~ 1156 (2050)
T 3cmu_A         1077 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1156 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHHHHcCCChhHheeecCcchHHHHHHHHHHHH
Confidence            46778889999999999999999997654   78899998876543332                011122222222333


Q ss_pred             cCCCeEEEEcccCccCcc
Q psy6208         177 KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~~~  194 (197)
                      ...|++|+||++..|.+.
T Consensus      1157 ~~~~dlvVIDsl~~L~~~ 1174 (2050)
T 3cmu_A         1157 SGAVDVIVVDSVAALTPK 1174 (2050)
T ss_dssp             HTCCSEEEESCGGGCCCH
T ss_pred             hCCCCEEEECCccccccc
Confidence            467999999999999664

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=98.17  E-value=3.1e-06  Score=65.07  Aligned_cols=72  Identities=18%  Similarity=0.156  Sum_probs=43.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh-------hhhhccCcc-H----HHHHHHHHHHhc----CCCe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE-------IMSKLAGES-E----SNLRKAFEEADK----NSPS  181 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~-------~~~~~~~~~-~----~~~~~~~~~a~~----~~~~  181 (197)
                      .-++++|++|+|||+++..++...   +..++.++...       +.+.+ |-. .    .....+++.+..    ..++
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srl-G~~~~~~~~~~~~~i~~~i~~~~~~~~~d   91 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRT-GTSLPSVEVESAPEILNYIMSNSFNDETK   91 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCC-CCSSCCEEESSTHHHHHHHHSTTSCTTCC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhc-CCCccccccCCHHHHHHHHHHHhhCCCCC
Confidence            347889999999999998887765   55666664221       11111 100 0    011233333332    4589


Q ss_pred             EEEEcccCccCc
Q psy6208         182 IIFIDELDAIAP  193 (197)
Q Consensus       182 vl~lDeid~l~~  193 (197)
                      +|+|||++.|..
T Consensus        92 vViIDEaQ~l~~  103 (223)
T 2b8t_A           92 VIGIDEVQFFDD  103 (223)
T ss_dssp             EEEECSGGGSCT
T ss_pred             EEEEecCccCcH
Confidence            999999998754

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=98.16  E-value=2e-06  Score=70.58  Aligned_cols=71  Identities=24%  Similarity=0.425  Sum_probs=45.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEech-hhhh---------hccCccHHHHHHHHHHHhcCCCeEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGP-EIMS---------KLAGESESNLRKAFEEADKNSPSIIF  184 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~-~~~~---------~~~~~~~~~~~~~~~~a~~~~~~vl~  184 (197)
                      +...++|.||+|+||||++++++...    +..++.+.-+ ++..         ...+.....+...+..+....|++|+
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~Pdvil  201 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIIL  201 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEe
Confidence            34468999999999999999998765    3444443211 1110         00111112344567788888999999


Q ss_pred             EcccC
Q psy6208         185 IDELD  189 (197)
Q Consensus       185 lDeid  189 (197)
                      +||+-
T Consensus       202 lDEp~  206 (356)
T 3jvv_A          202 VGEMR  206 (356)
T ss_dssp             ESCCC
T ss_pred             cCCCC
Confidence            99974

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.14  E-value=2.6e-06  Score=84.77  Aligned_cols=67  Identities=21%  Similarity=0.311  Sum_probs=54.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ..++++.||+|||||.+++++|+.+|.+++.++|++-+.      ...+..+|..+... .+++++||++.+.+
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld------~~~lg~~~~g~~~~-Gaw~~~DE~nr~~~  711 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFD------YQVLSRLLVGITQI-GAWGCFDEFNRLDE  711 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCC------HHHHHHHHHHHHHH-TCEEEEETTTSSCH
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCC------hhHhhHHHHHHHhc-CCEeeehhhhhcCh
Confidence            457899999999999999999999999999999986543      23456666665543 46899999998765

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=98.12  E-value=4.1e-06  Score=64.23  Aligned_cols=77  Identities=16%  Similarity=0.158  Sum_probs=49.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH--h-------CCeEEEEechhh---------hhhc--------------cCcc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE--T-------GAFFFLINGPEI---------MSKL--------------AGES  164 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~--~-------~~~~~~v~~~~~---------~~~~--------------~~~~  164 (197)
                      +.....++|+||+|+|||+|+..++..  .       +..+++++....         ...+              ....
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~  100 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFN  100 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHHcCCCHHHHhhCeEEEecCC
Confidence            455667899999999999999999884  2       456788875441         0000              0001


Q ss_pred             HHH----HHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         165 ESN----LRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       165 ~~~----~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ...    +..+.+......|.+|+|||+..+..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~lliiD~~~~~~~  133 (243)
T 1n0w_A          101 TDHQTQLLYQASAMMVESRYALLIVDSATALYR  133 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEEeCchHHHH
Confidence            111    12233334446799999999988754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=98.07  E-value=2.6e-06  Score=63.90  Aligned_cols=35  Identities=29%  Similarity=0.381  Sum_probs=29.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .+...|+|.|++|+|||+++++++..++.+++..+
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            44567999999999999999999999998876543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=98.04  E-value=3e-06  Score=62.52  Aligned_cols=33  Identities=27%  Similarity=0.357  Sum_probs=28.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ...|+|.|++|+|||++++.++..++.+++..+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d   37 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSD   37 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            457999999999999999999999998876543

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=98.03  E-value=2.9e-06  Score=63.66  Aligned_cols=69  Identities=23%  Similarity=0.202  Sum_probs=42.5

Q ss_pred             CceEEECCCCCcHH-HHHHHHHHHh--CCeEEEEech---hhhhhccCccH--------HHHHHHHHHHhcCCCeEEEEc
Q psy6208         121 RGILLYGPPGTGKT-LIARAVANET--GAFFFLINGP---EIMSKLAGESE--------SNLRKAFEEADKNSPSIIFID  186 (197)
Q Consensus       121 ~~ill~G~~GtGKT-~la~ala~~~--~~~~~~v~~~---~~~~~~~~~~~--------~~~~~~~~~a~~~~~~vl~lD  186 (197)
                      .-.+++||.|+||| +|++++.+..  +..+++++..   ...........        ....++++.. + ..++|+||
T Consensus        21 ~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~-~-~~DvIlID   98 (195)
T 1w4r_A           21 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEA-L-GVAVIGID   98 (195)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHH-H-TCSEEEES
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccccCccchhhhhhccCCcccceecCCHHHHHHhc-c-CCCEEEEE
Confidence            34789999999999 8999997755  6778777643   11111110000        0011222222 2 36899999


Q ss_pred             ccCcc
Q psy6208         187 ELDAI  191 (197)
Q Consensus       187 eid~l  191 (197)
                      |++.|
T Consensus        99 EaQFf  103 (195)
T 1w4r_A           99 EGQFF  103 (195)
T ss_dssp             SGGGC
T ss_pred             chhhh
Confidence            99998

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=98.02  E-value=1.1e-05  Score=66.74  Aligned_cols=67  Identities=19%  Similarity=0.213  Sum_probs=45.5

Q ss_pred             hCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         115 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       115 ~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      +++..+..++|+||+|+|||+++++++...+..++.++.+.-      .....+.      ...+..++++||++.+..
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~------~~~~~lg------~~~q~~~~l~dd~~~~~~  230 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLD------RLNFELG------VAIDQFLVVFEDVKGTGG  230 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTT------THHHHHG------GGTTCSCEEETTCCCSTT
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccch------hHHHHHH------HhcchhHHHHHHHHHHHH
Confidence            357778889999999999999999999988776655432211      0000111      112335689999998875

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=98.02  E-value=1.3e-05  Score=65.41  Aligned_cols=40  Identities=20%  Similarity=0.316  Sum_probs=31.9

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      |+....-++|+||||+|||+++..++...         +..+++++...
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            35566668999999999999999998862         56788887654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=98.00  E-value=6.9e-06  Score=66.45  Aligned_cols=40  Identities=18%  Similarity=0.299  Sum_probs=32.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      |+.....++|+|+||+|||+++..++...         +..+++++...
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            45566678999999999999999998764         56788888654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.00  E-value=2.3e-06  Score=63.82  Aligned_cols=32  Identities=16%  Similarity=0.094  Sum_probs=23.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      .-++++||+|+|||+++..++...   +.+++.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~   38 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFK   38 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            347899999999999986666543   56665553

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.99  E-value=5.8e-06  Score=61.21  Aligned_cols=34  Identities=29%  Similarity=0.415  Sum_probs=29.0

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ..+..|+|.|+||+||||+++.++..++.+++..
T Consensus         3 ~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~   36 (193)
T 2rhm_A            3 QTPALIIVTGHPATGKTTLSQALATGLRLPLLSK   36 (193)
T ss_dssp             SCCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHcCCeEecH
Confidence            3456789999999999999999999998876654

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.97  E-value=2.5e-05  Score=63.03  Aligned_cols=76  Identities=17%  Similarity=0.284  Sum_probs=48.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEechhhhhh----ccC-----------ccHHHH-HHHHHH-
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPEIMSK----LAG-----------ESESNL-RKAFEE-  174 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~~~~~~----~~~-----------~~~~~~-~~~~~~-  174 (197)
                      +.+. -++|+||||+|||+|+..++...     +..+++++.++-...    ..|           .....+ ..+.+. 
T Consensus        26 l~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           26 MQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             BCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             CcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            3444 57999999999999988776543     678899987542211    000           111122 222222 


Q ss_pred             --HhcCCCeEEEEcccCccCc
Q psy6208         175 --ADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       175 --a~~~~~~vl~lDeid~l~~  193 (197)
                        .....|++|+||-|..|.+
T Consensus       105 ~~i~~~~~~lvVIDSI~aL~~  125 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNLAS  125 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTCBC
T ss_pred             HHhhccCceEEEEeccccccc
Confidence              3456799999999999975

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.97  E-value=6.1e-06  Score=60.67  Aligned_cols=34  Identities=32%  Similarity=0.583  Sum_probs=29.2

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ....|+|+|+||+|||++++.++..++..++..+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~d   43 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKSGLKYINVG   43 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEHH
Confidence            4557999999999999999999999988776543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.97  E-value=9.3e-06  Score=63.81  Aligned_cols=72  Identities=25%  Similarity=0.472  Sum_probs=43.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEech-hh-hh--------hccCccHHHHHHHHHHHhcCCCeEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGP-EI-MS--------KLAGESESNLRKAFEEADKNSPSII  183 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~-~~-~~--------~~~~~~~~~~~~~~~~a~~~~~~vl  183 (197)
                      .+...++|.||+|+||||++++++...    ...+.....+ +. ..        ...+.....++..+..+....|++|
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~~p~il  102 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVI  102 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHHCCSEE
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhhCCCEE
Confidence            455668999999999999999998764    2333332211 00 00        0001011223455566655679999


Q ss_pred             EEcccC
Q psy6208         184 FIDELD  189 (197)
Q Consensus       184 ~lDeid  189 (197)
                      ++||.-
T Consensus       103 llDEp~  108 (261)
T 2eyu_A          103 FVGEMR  108 (261)
T ss_dssp             EESCCC
T ss_pred             EeCCCC
Confidence            999983

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.96  E-value=4.9e-05  Score=59.13  Aligned_cols=39  Identities=38%  Similarity=0.537  Sum_probs=32.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      ..+..++|.|+||+|||++++.++..++..++.++...+
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            345668999999999999999999999866677777655

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.96  E-value=1.8e-05  Score=60.73  Aligned_cols=34  Identities=24%  Similarity=0.217  Sum_probs=27.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ...+++.|++|+||||++-.+|..+   |..++.++.
T Consensus         6 ~l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~   42 (228)
T 2r8r_A            6 RLKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVV   42 (228)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEe
Confidence            3469999999999999999988775   667665554

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.95  E-value=5.1e-05  Score=65.83  Aligned_cols=49  Identities=16%  Similarity=0.155  Sum_probs=38.7

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHH
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      .....++|.+..++++.+.+...           ....+.+.|+|++|+|||+||..+++
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKL-----------KGEPGWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTS-----------TTSCEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CCCCeecccHHHHHHHHHHHhcc-----------cCCCceEEEEcCCCCCHHHHHHHHHh
Confidence            34567999999999999987532           12345689999999999999999864

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.94  E-value=6.6e-06  Score=59.67  Aligned_cols=31  Identities=23%  Similarity=0.138  Sum_probs=27.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|+|.|++|+||||+++.+++.++.+++..+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            4889999999999999999999998876554

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=97.93  E-value=4.7e-05  Score=58.76  Aligned_cols=33  Identities=27%  Similarity=0.303  Sum_probs=27.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      ..++++||+|+|||.++.+++...+.+++.+..
T Consensus       109 ~~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P  141 (237)
T 2fz4_A          109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVP  141 (237)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeC
Confidence            359999999999999999998888766666543

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.93  E-value=2.3e-05  Score=60.07  Aligned_cols=37  Identities=27%  Similarity=0.358  Sum_probs=28.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      +..+..++|.||||+|||+++..++...   +..+++++.
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~   59 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVAL   59 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEc
Confidence            4566678999999999999998886543   567777764

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.92  E-value=3.5e-05  Score=60.25  Aligned_cols=38  Identities=24%  Similarity=0.321  Sum_probs=31.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEechhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIM  157 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~~~  157 (197)
                      +..|+|.|+||+|||++++.++..   .|.+++.++...+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~~   44 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIR   44 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHHH
Confidence            346899999999999999999987   67887767765554

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.90  E-value=1.1e-05  Score=58.72  Aligned_cols=30  Identities=40%  Similarity=0.718  Sum_probs=26.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      +..+.|.|++|+||||+++.++..++..++
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l~~~~i   33 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFY   33 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTTCEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            346999999999999999999999987554

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=97.89  E-value=1.2e-05  Score=66.39  Aligned_cols=73  Identities=25%  Similarity=0.454  Sum_probs=45.0

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEech-hh--------hhh-ccCccHHHHHHHHHHHhcCCCeE
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGP-EI--------MSK-LAGESESNLRKAFEEADKNSPSI  182 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~-~~--------~~~-~~~~~~~~~~~~~~~a~~~~~~v  182 (197)
                      +.++..++|.||+|+||||++++++...    ...++.+..+ ++        ... ..+.....+...+..+.+..|++
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~~~~~~~~~l~~~L~~~pd~  212 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDV  212 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCSHHHHHHHTTSCCSE
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCCCHHHHHHHHHHHhhhCcCE
Confidence            3556678999999999999999998765    2344443321 10        000 00001112344556666678999


Q ss_pred             EEEcccC
Q psy6208         183 IFIDELD  189 (197)
Q Consensus       183 l~lDeid  189 (197)
                      |++||+-
T Consensus       213 illdE~~  219 (372)
T 2ewv_A          213 IFVGEMR  219 (372)
T ss_dssp             EEESCCC
T ss_pred             EEECCCC
Confidence            9999984

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=97.89  E-value=8e-06  Score=60.19  Aligned_cols=31  Identities=32%  Similarity=0.519  Sum_probs=27.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|+|.|+||+|||++++.++..++.+++..+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~D   34 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTD   34 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEeCc
Confidence            5899999999999999999999998876543

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.89  E-value=2.4e-05  Score=62.21  Aligned_cols=38  Identities=34%  Similarity=0.561  Sum_probs=30.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+..++|.||||+||||+++.++..++..++.+++..+
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~D~~   69 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   69 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEechHh
Confidence            34568999999999999999999988555667776444

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=97.89  E-value=1.4e-05  Score=62.90  Aligned_cols=27  Identities=44%  Similarity=0.612  Sum_probs=23.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +..+++|+||||||||+++.++|+...
T Consensus       103 ~~n~~~l~GppgtGKt~~a~ala~~~~  129 (267)
T 1u0j_A          103 KRNTIWLFGPATTGKTNIAEAIAHTVP  129 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHhhhc
Confidence            356799999999999999999999753

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.89  E-value=8.1e-06  Score=60.43  Aligned_cols=40  Identities=33%  Similarity=0.396  Sum_probs=32.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      +..+..+.|.||+|+||||+++.++...+...+.++..++
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~d~~   45 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL   45 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhccCCCeEEEcccch
Confidence            3455678999999999999999999887777777776554

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.89  E-value=8.4e-06  Score=60.38  Aligned_cols=34  Identities=38%  Similarity=0.550  Sum_probs=28.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHH-hCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANE-TGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~-~~~~~~~v~  152 (197)
                      ....|+|+|++|+|||++++.++.. ++.+++..+
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~d   43 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAELDGFQHLEVG   43 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeHH
Confidence            3456999999999999999999999 686665543

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.88  E-value=1.1e-05  Score=59.16  Aligned_cols=30  Identities=33%  Similarity=0.522  Sum_probs=26.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|+||+|||+++++++..++.+++..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            589999999999999999999999876643

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.88  E-value=8.6e-06  Score=59.17  Aligned_cols=33  Identities=18%  Similarity=0.219  Sum_probs=28.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      -.+|+|.|++|||||++++.++..++.+++..+
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg~~~id~D   39 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALKLEVLDTD   39 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            457999999999999999999999998876543

>3tiw_A Transitional endoplasmic reticulum ATPase; beta-barrel alpha-helix, transport protein ATPase ubiquitin ubiquitin, phosphorylation; 1.80A {Homo sapiens} PDB: 3qq8_A 3qq7_A 3qc8_A

Probab=97.86  E-value=4.1e-05  Score=57.07  Aligned_cols=59  Identities=83%  Similarity=1.513  Sum_probs=54.1

Q ss_pred             hhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcC
Q psy6208          10 SNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEG   68 (197)
Q Consensus        10 ~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~   68 (197)
                      .+.+..|+++||.+.++++..|+.+.+...++.++|+|+.++|.+.+++.+.|.+.+.+
T Consensus       128 ~~~~~~~lk~~l~~~~rpV~~GD~i~v~~~~~~v~f~Vv~t~P~~~v~V~~~T~I~~eg  186 (187)
T 3tiw_A          128 GNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCEG  186 (187)
T ss_dssp             CCHHHHTHHHHHTTTCCEEETTCEEEEECSSSEEEEEEEEEESSSEEECCTTCEEECCC
T ss_pred             chhHHHHHHHHhccCCceeeCCCEEEEccCCCEEEEEEEEecCCCCEEECCCcEEEecC
Confidence            34688999999999899999999999998889999999999999999999999998864

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.85  E-value=8.1e-05  Score=62.66  Aligned_cols=74  Identities=16%  Similarity=0.185  Sum_probs=49.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh----------h-----c----c-CccHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS----------K-----L----A-GESESNLRKAFEEAD  176 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~----------~-----~----~-~~~~~~~~~~~~~a~  176 (197)
                      +..+++.|++|+||||++..+|..+   +..+..+++.....          .     .    . ..........++.+.
T Consensus       100 p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a~  179 (443)
T 3dm5_A          100 PTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYFK  179 (443)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHHH
Confidence            5568999999999999999998766   66777776532210          0     0    1 112233455666676


Q ss_pred             cCCCeEEEEcccCccCc
Q psy6208         177 KNSPSIIFIDELDAIAP  193 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~~  193 (197)
                      ...+++++||....+..
T Consensus       180 ~~~~DvVIIDTaGrl~~  196 (443)
T 3dm5_A          180 SKGVDIIIVDTAGRHKE  196 (443)
T ss_dssp             HTTCSEEEEECCCCSSC
T ss_pred             hCCCCEEEEECCCcccc
Confidence            66689999998876653

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=97.84  E-value=5.8e-05  Score=60.63  Aligned_cols=73  Identities=23%  Similarity=0.302  Sum_probs=46.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh-------hc------------cC-ccHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS-------KL------------AG-ESESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~-------~~------------~~-~~~~~~~~~~~~a  175 (197)
                      .+..++|.|++|+||||++..+|..+   +..+..+++.....       .+            .+ .........+..+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al~~a  182 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVAHA  182 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHH
Confidence            45568899999999999999998765   55666665432110       00            01 1111223344555


Q ss_pred             hcCCCeEEEEcccCcc
Q psy6208         176 DKNSPSIIFIDELDAI  191 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l  191 (197)
                      ....+++++||+...+
T Consensus       183 ~~~~~dvvIiDtpg~~  198 (306)
T 1vma_A          183 LARNKDVVIIDTAGRL  198 (306)
T ss_dssp             HHTTCSEEEEEECCCC
T ss_pred             HhcCCCEEEEECCCch
Confidence            5567899999998753

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.84  E-value=1.2e-05  Score=62.74  Aligned_cols=32  Identities=38%  Similarity=0.489  Sum_probs=28.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      .++|.||+|+|||++++++|..++..++..+.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~D~   34 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALDR   34 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEECCS
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEeccH
Confidence            47899999999999999999999988877654

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.83  E-value=4.5e-05  Score=57.26  Aligned_cols=32  Identities=25%  Similarity=0.276  Sum_probs=27.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v  151 (197)
                      ...|++++++|.||||+|-+++.+.   |.++..+
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~v   62 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVV   62 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            4569999999999999999998765   7787777

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.81  E-value=1.2e-05  Score=58.13  Aligned_cols=29  Identities=38%  Similarity=0.644  Sum_probs=25.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|+||+|||++++.+ ..++.+++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            4889999999999999999 8888887654

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.80  E-value=1.6e-05  Score=59.56  Aligned_cols=32  Identities=34%  Similarity=0.465  Sum_probs=27.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|+||+|||++++.++..++.+++..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            34589999999999999999999999876654

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=97.79  E-value=1.4e-05  Score=58.03  Aligned_cols=30  Identities=30%  Similarity=0.435  Sum_probs=26.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|++|+|||++++.++..++.+++..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVDT   33 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEcc
Confidence            589999999999999999999999876543

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.79  E-value=8e-05  Score=62.58  Aligned_cols=73  Identities=25%  Similarity=0.195  Sum_probs=47.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh----------hhc-----c----Cc-cHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM----------SKL-----A----GE-SESNLRKAFEEAD  176 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~----------~~~-----~----~~-~~~~~~~~~~~a~  176 (197)
                      +..+++.|++|+||||++..+|..+   +..+..+++....          ...     .    +. ........+..+.
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a~  176 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIFV  176 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHHH
Confidence            4568899999999999999998766   6677766643110          000     0    01 1112334455555


Q ss_pred             cCCCeEEEEcccCccC
Q psy6208         177 KNSPSIIFIDELDAIA  192 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~  192 (197)
                      ...+++++||....+.
T Consensus       177 ~~~~DvvIIDTaGr~~  192 (433)
T 3kl4_A          177 KNKMDIIIVDTAGRHG  192 (433)
T ss_dssp             TTTCSEEEEEECCCSS
T ss_pred             hcCCCEEEEECCCCcc
Confidence            5578999999987754

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.78  E-value=2.9e-05  Score=58.89  Aligned_cols=38  Identities=21%  Similarity=0.293  Sum_probs=28.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEech
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGP  154 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~  154 (197)
                      +....-+.|.||+|+|||+|++.++...         +...++++..
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~   68 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTE   68 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECC
Confidence            4556678999999999999999998743         3346666653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.78  E-value=1.6e-05  Score=58.91  Aligned_cols=33  Identities=21%  Similarity=0.338  Sum_probs=28.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .+..|+|.|++|+|||++++.+++.++.+++..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   40 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLST   40 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            345799999999999999999999998876544

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.78  E-value=1.5e-05  Score=58.90  Aligned_cols=31  Identities=23%  Similarity=0.420  Sum_probs=26.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      +..|+|.|+||+|||++++.++..++.+++.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~   33 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLS   33 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            3468999999999999999999999877654

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.77  E-value=4.1e-05  Score=59.33  Aligned_cols=34  Identities=21%  Similarity=0.346  Sum_probs=28.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ..+..|+|.|+||+||||+++.+++.++.+++..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            3456799999999999999999999998766544

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.77  E-value=2.2e-05  Score=58.82  Aligned_cols=32  Identities=31%  Similarity=0.527  Sum_probs=27.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|++|+||||+++.++..++..++..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~   49 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEG   49 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeC
Confidence            44689999999999999999999998776553

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.76  E-value=2.6e-05  Score=59.19  Aligned_cols=32  Identities=28%  Similarity=0.416  Sum_probs=27.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|+||+||||+++.+++.++.+++..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            45689999999999999999999999776554

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=97.75  E-value=3.8e-05  Score=62.80  Aligned_cols=40  Identities=23%  Similarity=0.341  Sum_probs=30.9

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      ++....-+.|+||+|+|||+|++.++...         +..+++++..+
T Consensus       127 gi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          127 GIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            35555668999999999999999998876         24667877643

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.75  E-value=1.6e-05  Score=60.68  Aligned_cols=33  Identities=15%  Similarity=0.261  Sum_probs=28.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .+..|+|.|+||+|||++++.+++.++..++..
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            345699999999999999999999998776654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.74  E-value=2.4e-05  Score=57.61  Aligned_cols=30  Identities=33%  Similarity=0.565  Sum_probs=26.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ..|+|.|++|+||||+++.+++.++.+++.
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i~   34 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKLS   34 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            458999999999999999999999876544

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.73  E-value=1.9e-05  Score=57.98  Aligned_cols=30  Identities=30%  Similarity=0.382  Sum_probs=23.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      +..|+|.|+||+|||++++.+++.++.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            346899999999999999999999998876

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.72  E-value=1.8e-05  Score=59.78  Aligned_cols=30  Identities=23%  Similarity=0.416  Sum_probs=26.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|+||+||||+++.+++.++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            478999999999999999999998776654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.72  E-value=2.1e-05  Score=56.89  Aligned_cols=30  Identities=20%  Similarity=0.307  Sum_probs=26.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|++|+|||++++.+++.++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   31 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYDV   31 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            488999999999999999999999877653

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.72  E-value=2e-05  Score=59.54  Aligned_cols=30  Identities=27%  Similarity=0.362  Sum_probs=26.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|+||+||||+++.++..++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            378999999999999999999998877654

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.71  E-value=2.4e-05  Score=57.70  Aligned_cols=32  Identities=22%  Similarity=0.453  Sum_probs=27.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|++|+|||++++.++..++.+++..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            44689999999999999999999998766544

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.71  E-value=2e-05  Score=57.51  Aligned_cols=34  Identities=35%  Similarity=0.522  Sum_probs=25.8

Q ss_pred             CceEEECCCCCcHHHHHHHHHH-HhCCeEEEEechhh
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN-ETGAFFFLINGPEI  156 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~-~~~~~~~~v~~~~~  156 (197)
                      ..|+|.|+||+|||++++.++. ..+.  ..++...+
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~~--~~i~~d~~   37 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPGF--YNINRDDY   37 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTE--EEECHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCCc--EEecHHHH
Confidence            3589999999999999999998 4554  44444333

>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=97.71  E-value=0.00016  Score=67.42  Aligned_cols=50  Identities=18%  Similarity=0.194  Sum_probs=39.2

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      .....++|.+..+++|.+.+...           -...+-+.|+|+.|+|||+||+.+++.
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~~~~~  170 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAEAVRD  170 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHHHTCC
T ss_pred             CCCceeccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHHHhcC
Confidence            34456999999999999988532           123445889999999999999988764

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.71  E-value=1e-05  Score=70.39  Aligned_cols=33  Identities=39%  Similarity=0.484  Sum_probs=26.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      ...++|.|+||||||+++.+++..+   +.+++.+.
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~A  239 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCA  239 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            4578999999999999999998754   56666553

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.70  E-value=2.7e-05  Score=57.35  Aligned_cols=25  Identities=20%  Similarity=0.413  Sum_probs=23.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ..|+|.|+||+||||+++.++..++
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999999886

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.70  E-value=2.3e-05  Score=58.21  Aligned_cols=32  Identities=22%  Similarity=0.348  Sum_probs=27.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|+||+|||++++.++..++.+++..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            44699999999999999999999998766543

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=97.70  E-value=5.1e-05  Score=63.17  Aligned_cols=40  Identities=23%  Similarity=0.264  Sum_probs=29.7

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~~  155 (197)
                      |+....-+.|+||||+|||+|++.++...         +..+++++...
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            45556668999999999999999776432         34577877643

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.70  E-value=3.6e-05  Score=56.12  Aligned_cols=31  Identities=32%  Similarity=0.428  Sum_probs=26.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ...++|.|++|+|||++++.++..++..++.
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            3458999999999999999999988866554

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=97.70  E-value=4e-05  Score=58.81  Aligned_cols=32  Identities=28%  Similarity=0.388  Sum_probs=27.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|++|+||||+++.|++.++..++..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            45699999999999999999999999776554

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.69  E-value=4e-05  Score=57.36  Aligned_cols=31  Identities=48%  Similarity=0.748  Sum_probs=26.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      .+..+.|.||+|+|||++++.++..+|..++
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i   58 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFA   58 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhhCCeEE
Confidence            4556899999999999999999999876544

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.69  E-value=4.3e-05  Score=56.04  Aligned_cols=37  Identities=27%  Similarity=0.424  Sum_probs=31.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      +..+.|.|++|+|||++++.++..+   |.+++.++...+
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~~~   44 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNI   44 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECChHH
Confidence            4568899999999999999999987   888888876544

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.69  E-value=2e-05  Score=59.85  Aligned_cols=31  Identities=26%  Similarity=0.475  Sum_probs=27.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ..|+|.|+||+|||++++.++..++.+++..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            4689999999999999999999999877654

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.68  E-value=4.5e-05  Score=57.11  Aligned_cols=39  Identities=23%  Similarity=0.465  Sum_probs=30.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      .++..+.|.||+|+|||+++++++..+   |...++++...+
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d~~   64 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGDNV   64 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCchh
Confidence            445668999999999999999999987   555556766555

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=97.68  E-value=3e-05  Score=62.95  Aligned_cols=72  Identities=18%  Similarity=0.260  Sum_probs=46.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechh-hh-----hh--ccCccHHHHHHHHHHHhcCCCeEEEEccc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGPE-IM-----SK--LAGESESNLRKAFEEADKNSPSIIFIDEL  188 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~-~~-----~~--~~~~~~~~~~~~~~~a~~~~~~vl~lDei  188 (197)
                      ....++|.||+|+||||++++++....  ...+.++... +.     ..  +........+..+..+....|++|++||.
T Consensus       170 ~g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~ilildE~  249 (330)
T 2pt7_A          170 IGKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGEL  249 (330)
T ss_dssp             HTCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEECCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhCCCEEEEcCC
Confidence            455799999999999999999988762  2344444321 11     00  11001123345566777788999999997


Q ss_pred             Cc
Q psy6208         189 DA  190 (197)
Q Consensus       189 d~  190 (197)
                      -.
T Consensus       250 ~~  251 (330)
T 2pt7_A          250 RS  251 (330)
T ss_dssp             CS
T ss_pred             Ch
Confidence            54

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.67  E-value=3.9e-05  Score=58.61  Aligned_cols=38  Identities=16%  Similarity=0.341  Sum_probs=30.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      ..++-|+|.||||+||+|.|+.|++.++.+.  ++..+++
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g~~h--IstGdll   64 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFHFNH--LSSGDLL   64 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHCCEE--ECHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHCCce--EcHHHHH
Confidence            4456688999999999999999999998654  4554544

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.67  E-value=2.9e-05  Score=59.05  Aligned_cols=32  Identities=16%  Similarity=0.302  Sum_probs=27.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .+..|+|.|+||+|||++++.+++.++..++.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            34579999999999999999999999875543

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.66  E-value=2.9e-05  Score=58.02  Aligned_cols=32  Identities=19%  Similarity=0.304  Sum_probs=27.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|++|+|||++++.+++.++.+++..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~   46 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   46 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeH
Confidence            34589999999999999999999998766554

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.66  E-value=2e-05  Score=64.43  Aligned_cols=30  Identities=27%  Similarity=0.499  Sum_probs=26.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .+++|.|++|+|||+++++++..++.+++.
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            459999999999999999999998876644

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=97.66  E-value=0.00015  Score=60.63  Aligned_cols=94  Identities=16%  Similarity=0.375  Sum_probs=52.3

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEech-hhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGP-EIM  157 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~-~~~  157 (197)
                      ..++++++-.......+...+.              .+...++|.||+|+||||++++++..+.   ..++.+.-+ +..
T Consensus       143 ~~~l~~Lg~~~~~~~~L~~l~~--------------~~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed~ie~~  208 (418)
T 1p9r_A          143 RLDLHSLGMTAHNHDNFRRLIK--------------RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFD  208 (418)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHHT--------------SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSC
T ss_pred             CCCHHHcCCCHHHHHHHHHHHH--------------hcCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEecccchhc
Confidence            3456666544444444444421              2344589999999999999999998773   344443321 110


Q ss_pred             -h-----hccCccHHHHHHHHHHHhcCCCeEEEEcccC
Q psy6208         158 -S-----KLAGESESNLRKAFEEADKNSPSIIFIDELD  189 (197)
Q Consensus       158 -~-----~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid  189 (197)
                       .     .......-.....+..+.+..|++++++|+.
T Consensus       209 ~~~~~q~~v~~~~g~~f~~~lr~~Lrq~pd~i~vgEiR  246 (418)
T 1p9r_A          209 IDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIR  246 (418)
T ss_dssp             CSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCC
T ss_pred             cCCcceEEEccccCcCHHHHHHHHhccCCCeEEEcCcC
Confidence             0     0000000122334455555678999998853

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=97.64  E-value=3.9e-05  Score=61.80  Aligned_cols=40  Identities=23%  Similarity=0.238  Sum_probs=31.0

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------------C----CeEEEEechh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------------G----AFFFLINGPE  155 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------------~----~~~~~v~~~~  155 (197)
                      |+....-++|+|+||+|||+++..++...               +    ..+++++...
T Consensus        94 Gl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~  152 (322)
T 2i1q_A           94 GLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEG  152 (322)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSS
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCC
Confidence            34555668999999999999999998752               2    5788887654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.64  E-value=5e-05  Score=55.88  Aligned_cols=35  Identities=23%  Similarity=0.204  Sum_probs=27.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC---CeEEEEechhh
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG---AFFFLINGPEI  156 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~~~  156 (197)
                      .|+|.|+||+||||+++.+++.++   .++..++..++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~~~~   40 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYGDF   40 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEECChH
Confidence            488999999999999999999875   34566664444

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.63  E-value=8.6e-05  Score=71.46  Aligned_cols=77  Identities=23%  Similarity=0.357  Sum_probs=58.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEechhhhh----------------hccCccHHHHHHHHHHHhcCC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMS----------------KLAGESESNLRKAFEEADKNS  179 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~~~~----------------~~~~~~~~~~~~~~~~a~~~~  179 (197)
                      ..+.+.++||+|+|||+||-.++.+   .|....+++.++-..                ..+...+..+..+....+.+.
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~~e~~~~~~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~~~~s~~ 1509 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGA 1509 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEecCCCCCHHHHHHcCCCHHHeEEeCCCcHHHHHHHHHHHHHcCC
Confidence            3445999999999999999877543   377888888653221                123445667777777788889


Q ss_pred             CeEEEEcccCccCccc
Q psy6208         180 PSIIFIDELDAIAPKR  195 (197)
Q Consensus       180 ~~vl~lDeid~l~~~r  195 (197)
                      +++|++|-+..|.|+.
T Consensus      1510 ~~~vvvDsv~al~~~~ 1525 (1706)
T 3cmw_A         1510 VDVIVVDSVAALTPKA 1525 (1706)
T ss_dssp             CSEEEESCSTTCCCTT
T ss_pred             CCEEEEccHHhCCccc
Confidence            9999999999999875

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.63  E-value=4.7e-05  Score=57.66  Aligned_cols=34  Identities=35%  Similarity=0.645  Sum_probs=27.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      .|+|.||||+||+|.|+.|++.++.+.  ++..+++
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~--istGdll   35 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVH--ISTGDIL   35 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEE--EEHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeE--EcHHHHH
Confidence            378999999999999999999998765  4444443

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.61  E-value=4.9e-05  Score=61.47  Aligned_cols=35  Identities=31%  Similarity=0.511  Sum_probs=30.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      +..++|.||+|+|||++++.+|..++..++.++.-
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds~   39 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADALPCELISVDSA   39 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEEECTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCcEEeccch
Confidence            34689999999999999999999999888777643

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=97.60  E-value=0.00023  Score=61.47  Aligned_cols=44  Identities=16%  Similarity=0.125  Sum_probs=35.2

Q ss_pred             cCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHH
Q psy6208          89 GGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus        89 ~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      .|.+..+++|.+++...-          -.....+.|+|+.|+|||+||+.+++
T Consensus       131 ~GR~~~~~~l~~~L~~~~----------~~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMC----------DLDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHT----------TSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhccc----------CCCceEEEEEcCCCCCHHHHHHHHHH
Confidence            499999999999885320          12345688999999999999999997

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=97.60  E-value=4.2e-05  Score=64.78  Aligned_cols=69  Identities=19%  Similarity=0.135  Sum_probs=40.2

Q ss_pred             CceEEECCCCCcHHHHHHHH-HHHhCCeEEEEec-----hhhhhhccCc-cHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         121 RGILLYGPPGTGKTLIARAV-ANETGAFFFLING-----PEIMSKLAGE-SESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~al-a~~~~~~~~~v~~-----~~~~~~~~~~-~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      .++||.|+||+ ||.+++++ +..+.... ++..     ..+.....+. ....-.+.+..|..   .++|+||++.+.+
T Consensus       240 ihVLL~G~PGt-KS~Lar~i~~~i~pR~~-ft~g~~ss~~gLt~s~r~~tG~~~~~G~l~LAdg---Gvl~lDEIn~~~~  314 (506)
T 3f8t_A          240 LHVLLAGYPVV-CSEILHHVLDHLAPRGV-YVDLRRTELTDLTAVLKEDRGWALRAGAAVLADG---GILAVDHLEGAPE  314 (506)
T ss_dssp             CCEEEESCHHH-HHHHHHHHHHHTCSSEE-EEEGGGCCHHHHSEEEEESSSEEEEECHHHHTTT---SEEEEECCTTCCH
T ss_pred             eeEEEECCCCh-HHHHHHHHHHHhCCCeE-EecCCCCCccCceEEEEcCCCcccCCCeeEEcCC---CeeehHhhhhCCH
Confidence            37999999999 99999999 77664433 3321     1111110000 00000122334433   4999999999876


Q ss_pred             c
Q psy6208         194 K  194 (197)
Q Consensus       194 ~  194 (197)
                      +
T Consensus       315 ~  315 (506)
T 3f8t_A          315 P  315 (506)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.59  E-value=6.4e-05  Score=55.42  Aligned_cols=31  Identities=32%  Similarity=0.342  Sum_probs=27.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      .|.|.|++|+||||+++.+++.+   +.+++..+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            37899999999999999999988   88877664

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.59  E-value=8.8e-05  Score=56.83  Aligned_cols=37  Identities=27%  Similarity=0.265  Sum_probs=28.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH----hCCeEEEEec
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLING  153 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~----~~~~~~~v~~  153 (197)
                      +.++.-++|+|+||+|||+++..++..    .+.++++++.
T Consensus        27 l~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~   67 (251)
T 2zts_A           27 FPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTL   67 (251)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecc
Confidence            456667899999999999999887643    2667777764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.57  E-value=5.8e-05  Score=56.11  Aligned_cols=29  Identities=28%  Similarity=0.547  Sum_probs=25.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .|.|.|++|+||||+++.+++.++..++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            47899999999999999999999886653

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.57  E-value=7.6e-05  Score=56.60  Aligned_cols=30  Identities=27%  Similarity=0.390  Sum_probs=26.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ..|.|.|++|+||||+++.++..++.+++.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            468999999999999999999998876654

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.57  E-value=0.00024  Score=59.93  Aligned_cols=38  Identities=21%  Similarity=0.278  Sum_probs=30.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      |+.++.-++|.|+||+|||+++..++...    +.++++++.
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~  240 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSL  240 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEES
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC
Confidence            46666779999999999999999987653    557877764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.55  E-value=5.8e-05  Score=57.05  Aligned_cols=30  Identities=27%  Similarity=0.324  Sum_probs=26.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|+||+||||+++.++..++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            488999999999999999999998776554

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.54  E-value=5.2e-05  Score=59.17  Aligned_cols=32  Identities=34%  Similarity=0.517  Sum_probs=28.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ...|.|.|++|+|||++++.++..++.+++..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~   79 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFDC   79 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEeC
Confidence            55799999999999999999999999877654

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.54  E-value=7.4e-05  Score=56.99  Aligned_cols=30  Identities=27%  Similarity=0.451  Sum_probs=25.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|+||+||||+++.++..++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            478999999999999999999998765543

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=97.54  E-value=7.3e-05  Score=55.68  Aligned_cols=33  Identities=18%  Similarity=0.157  Sum_probs=27.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh-CCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET-GAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~-~~~~~~v~  152 (197)
                      +..|.|.|++|+||||+++.+++.+ +.+++.+.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~   37 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESIPANTIKYLN   37 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEe
Confidence            4568999999999999999999998 56666654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.53  E-value=9e-05  Score=55.59  Aligned_cols=28  Identities=25%  Similarity=0.421  Sum_probs=24.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ..+..++|.||||+|||++++.++..++
T Consensus        10 ~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           10 ARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            4566799999999999999999998874

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.53  E-value=0.00014  Score=73.50  Aligned_cols=67  Identities=22%  Similarity=0.323  Sum_probs=51.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ..+..+.||+|||||.+++.+|+.+|.+++.++|++-+..      ..+..+|..+... .+..++||++++..
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~------~~~g~i~~G~~~~-GaW~cfDEfNrl~~  670 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDL------QAMSRIFVGLCQC-GAWGCFDEFNRLEE  670 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCH------HHHHHHHHHHHHH-TCEEEEETTTSSCH
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCH------HHHHHHHhhHhhc-CcEEEehhhhcCCH
Confidence            3456899999999999999999999999999999765322      2344555554432 35789999998764

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.52  E-value=5e-05  Score=56.79  Aligned_cols=30  Identities=30%  Similarity=0.433  Sum_probs=25.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|.|.|++|+|||++++.++. ++.+++..+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d   32 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDAD   32 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEcc
Confidence            478999999999999999999 887776544

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=97.51  E-value=5.7e-05  Score=64.82  Aligned_cols=71  Identities=21%  Similarity=0.227  Sum_probs=45.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEechh-hhhh-----------ccCccHHHHHHHHHHHhcCCCeEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG--AFFFLINGPE-IMSK-----------LAGESESNLRKAFEEADKNSPSIIF  184 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~~~-~~~~-----------~~~~~~~~~~~~~~~a~~~~~~vl~  184 (197)
                      .+.+++|.||+|+||||++++++....  ...+.+.... +...           ..+.....+..++..+.+..|++++
T Consensus       259 ~g~~i~I~GptGSGKTTlL~aL~~~i~~~~giitied~~E~~~~~~~~v~~~~r~~~~~~~~~~~~~l~~~LR~~PD~ii  338 (511)
T 2oap_1          259 HKFSAIVVGETASGKTTTLNAIMMFIPPDAKVVSIEDTREIKLYHENWIAEVTRTGMGEGEIDMYDLLRAALRQRPDYII  338 (511)
T ss_dssp             TTCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCCCSSEEEEECBCCSSSCCBCHHHHHHTTGGGCCSEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCCCCCCEEEEcCcccccCCCCCeEEEEeecccccCCcCHHHHHHHhhccCCCeEE
Confidence            455799999999999999999988763  3445544321 2100           0011111344455666667899999


Q ss_pred             EcccC
Q psy6208         185 IDELD  189 (197)
Q Consensus       185 lDeid  189 (197)
                      ++|+-
T Consensus       339 vgEir  343 (511)
T 2oap_1          339 VGEVR  343 (511)
T ss_dssp             ESCCC
T ss_pred             eCCcC
Confidence            99874

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.49  E-value=0.00016  Score=53.19  Aligned_cols=38  Identities=32%  Similarity=0.357  Sum_probs=29.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      .+..++|.|++|+|||++++.++..+   +.++..++...+
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d~~   52 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGDWA   52 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHHHH
Confidence            45568999999999999999999887   455666665544

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=97.48  E-value=6.8e-05  Score=56.12  Aligned_cols=71  Identities=18%  Similarity=0.203  Sum_probs=41.9

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh--------hhhhccCcc-----HHHHHHHHHHHhcCCCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE--------IMSKLAGES-----ESNLRKAFEEADKNSPSIIF  184 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~--------~~~~~~~~~-----~~~~~~~~~~a~~~~~~vl~  184 (197)
                      .-.+++||.|+|||+.+..++...   +..++.+...-        +.+.. +..     -....++++.+. ...++|+
T Consensus         9 ~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~-g~~~~a~~~~~~~~i~~~~~-~~~dvVi   86 (191)
T 1xx6_A            9 WVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHM-GEKEQAVAIKNSREILKYFE-EDTEVIA   86 (191)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTT-SCEEECEEESSSTHHHHHCC-TTCSEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhc-CCceeeEeeCCHHHHHHHHh-ccCCEEE
Confidence            357899999999999888887765   66666554210        11110 100     000123444433 2468999


Q ss_pred             EcccCccCc
Q psy6208         185 IDELDAIAP  193 (197)
Q Consensus       185 lDeid~l~~  193 (197)
                      |||++.+.+
T Consensus        87 IDEaqfl~~   95 (191)
T 1xx6_A           87 IDEVQFFDD   95 (191)
T ss_dssp             ECSGGGSCT
T ss_pred             EECCCCCCH
Confidence            999999864

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=97.47  E-value=9.2e-05  Score=59.47  Aligned_cols=35  Identities=26%  Similarity=0.480  Sum_probs=29.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      +.-++|.||+|+|||+|+..+|+.++..++..+.-
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~   44 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILPVELISVDSA   44 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEECCTT
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCCCcEEecccc
Confidence            44688999999999999999999998777766543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=97.45  E-value=6.1e-05  Score=61.20  Aligned_cols=35  Identities=20%  Similarity=0.221  Sum_probs=29.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      +..|+|.||+|+|||+|+..||+.++..++..+.-
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~   74 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKM   74 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCCCcEEccccc
Confidence            34689999999999999999999998777765543

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=97.45  E-value=0.00012  Score=56.44  Aligned_cols=31  Identities=32%  Similarity=0.539  Sum_probs=26.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      +..+.|.||+|+|||++++.++..++..++.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            4468999999999999999999999876643

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=97.44  E-value=0.0001  Score=55.00  Aligned_cols=30  Identities=30%  Similarity=0.479  Sum_probs=26.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|.|.|++|+|||++++.++..++.+++..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~   33 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSS   33 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceecc
Confidence            588999999999999999999999777653

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=97.42  E-value=9.6e-05  Score=55.33  Aligned_cols=32  Identities=28%  Similarity=0.377  Sum_probs=27.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..|.|+|++|||||++++.++..+|.+++..+
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vid~D   44 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVVNVD   44 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEEECc
Confidence            34789999999999999999998898776543

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.41  E-value=0.00013  Score=56.42  Aligned_cols=30  Identities=27%  Similarity=0.553  Sum_probs=26.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      +..+.|.||+|+||||+++.+++.++....
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            457999999999999999999998876543

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.40  E-value=0.0001  Score=55.04  Aligned_cols=26  Identities=23%  Similarity=0.157  Sum_probs=23.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .-|+|.|+||+||||+++.+++.++.
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            45899999999999999999998866

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=97.40  E-value=0.00047  Score=58.04  Aligned_cols=38  Identities=21%  Similarity=0.215  Sum_probs=30.4

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      |+.++.-++|.|+||+|||+++..++...    +.++++++.
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            46666678999999999999999887643    567888765

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=97.39  E-value=0.00082  Score=57.29  Aligned_cols=34  Identities=35%  Similarity=0.445  Sum_probs=25.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLI  151 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v  151 (197)
                      ..+..+.|.|++|+||||+++.|+..+   +..+...
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~  327 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLA  327 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEe
Confidence            344558899999999999999998765   4445444

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.38  E-value=0.00016  Score=56.20  Aligned_cols=30  Identities=27%  Similarity=0.412  Sum_probs=26.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      ...|.|.||+|+|||++++.++..+|..++
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~   56 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESLNWRLL   56 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCCCcC
Confidence            346889999999999999999999887654

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.38  E-value=0.00016  Score=53.84  Aligned_cols=24  Identities=38%  Similarity=0.671  Sum_probs=21.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.|+|.||+|+|||+|++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            459999999999999999998764

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=97.38  E-value=0.00014  Score=58.60  Aligned_cols=34  Identities=18%  Similarity=0.203  Sum_probs=28.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      .-++|.||+|+|||+|+..+|..++..++..+.-
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~   37 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSM   37 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTTEEEEECCGG
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhCccceeecCcc
Confidence            3578999999999999999999988776665544

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.37  E-value=0.00013  Score=53.68  Aligned_cols=25  Identities=20%  Similarity=0.478  Sum_probs=22.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.-+.|.||+|+|||+|++.++...
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4568999999999999999998865

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=97.37  E-value=0.00017  Score=54.37  Aligned_cols=39  Identities=21%  Similarity=0.342  Sum_probs=31.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEI  156 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~  156 (197)
                      ..+..++|.|++|+|||++++.++..+    |.+++.++...+
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~~   65 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNI   65 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChHH
Confidence            455678999999999999999999876    456777775544

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.36  E-value=0.00051  Score=54.80  Aligned_cols=72  Identities=18%  Similarity=0.202  Sum_probs=44.6

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhh-------hhc---------cCccHHHHHHHHHHHhcC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIM-------SKL---------AGESESNLRKAFEEADKN  178 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~-------~~~---------~~~~~~~~~~~~~~a~~~  178 (197)
                      .+..+.|.|++|+||||++..+|..+    |..+..+++....       ..+         .......+...+..+  .
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~--~  181 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELF--S  181 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHG--G
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHh--c
Confidence            35568899999999999999998654    5567766653210       000         011223344444443  4


Q ss_pred             CCeEEEEcccCccC
Q psy6208         179 SPSIIFIDELDAIA  192 (197)
Q Consensus       179 ~~~vl~lDeid~l~  192 (197)
                      .+++++||-.....
T Consensus       182 ~~dlvIiDT~G~~~  195 (296)
T 2px0_A          182 EYDHVFVDTAGRNF  195 (296)
T ss_dssp             GSSEEEEECCCCCT
T ss_pred             CCCEEEEeCCCCCh
Confidence            57899999665443

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=97.36  E-value=0.00011  Score=55.00  Aligned_cols=28  Identities=32%  Similarity=0.310  Sum_probs=24.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .+.|.|++|+||||+++.++. +|.+++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id   31 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVD   31 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccc
Confidence            478999999999999999987 7777654

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=97.34  E-value=0.00021  Score=55.36  Aligned_cols=38  Identities=16%  Similarity=0.243  Sum_probs=30.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCe--------EEEEechhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAF--------FFLINGPEIM  157 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~--------~~~v~~~~~~  157 (197)
                      +..|.|.|++|+|||++++.++..++.+        +..++..++.
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            4458899999999999999999998865        3456655554

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=97.34  E-value=0.0012  Score=58.15  Aligned_cols=32  Identities=28%  Similarity=0.406  Sum_probs=22.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      -.||+||||||||+++-.+...+   +.+++.+..
T Consensus       207 ~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~  241 (646)
T 4b3f_X          207 LAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAP  241 (646)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcC
Confidence            47999999999998766554443   556655543

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=97.33  E-value=0.00015  Score=53.93  Aligned_cols=31  Identities=26%  Similarity=0.275  Sum_probs=26.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|.|.|++|+|||++++.++.. |.+++..
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~-g~~~id~   38 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW-GYPVLDL   38 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT-TCCEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC-CCEEEcc
Confidence            446899999999999999999998 7776654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=97.33  E-value=0.00063  Score=62.96  Aligned_cols=44  Identities=20%  Similarity=0.297  Sum_probs=35.5

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+|.+..+++|.+.+...            ...+-+.|+|+.|.|||+||+.+++.
T Consensus       130 ~VGRe~eLeeL~elL~~~------------d~~RVV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLEL------------RPAKNVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHC------------CSSCEEEECCSTTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhcc------------CCCeEEEEEcCCCccHHHHHHHHHHh
Confidence            389999999998887531            23456899999999999999999853

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.32  E-value=0.00013  Score=54.43  Aligned_cols=27  Identities=26%  Similarity=0.470  Sum_probs=23.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..+.|.||+|+||||+++.++..+
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            445678999999999999999999876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.32  E-value=5.7e-05  Score=56.66  Aligned_cols=26  Identities=15%  Similarity=0.175  Sum_probs=23.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +..|+|.|++|+||||+++.+++.++
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~   35 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLK   35 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45689999999999999999998864

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=97.29  E-value=0.00024  Score=53.64  Aligned_cols=31  Identities=29%  Similarity=0.302  Sum_probs=26.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|.|.|++|+|||++++.++. +|.+++..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~-lg~~~id~   34 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD-LGINVIDA   34 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH-cCCEEEEc
Confidence            34689999999999999999988 88776654

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.27  E-value=0.00023  Score=52.45  Aligned_cols=34  Identities=26%  Similarity=0.421  Sum_probs=25.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      .+.|.||+|+||||+++.++...+. .++++...+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g-~~~i~~d~~   37 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDN-SAYIEGDII   37 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSS-EEEEEHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC-eEEEcccch
Confidence            4789999999999999999986643 244554443

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.27  E-value=0.0002  Score=53.36  Aligned_cols=26  Identities=27%  Similarity=0.483  Sum_probs=22.6

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.-+.|.||+|+||||+++.++...
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            44568899999999999999999875

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=97.27  E-value=0.00044  Score=51.60  Aligned_cols=23  Identities=35%  Similarity=0.638  Sum_probs=19.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+++.+|+|+|||.++...+..
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~   71 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKD   71 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHH
Confidence            47999999999999988877654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=97.27  E-value=0.00017  Score=58.61  Aligned_cols=33  Identities=24%  Similarity=0.282  Sum_probs=27.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      ..|+|.||+|+|||+++..++..++..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~Ds   40 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISGDS   40 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEECCS
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceecccc
Confidence            358899999999999999999999866655543

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.27  E-value=0.00017  Score=54.37  Aligned_cols=27  Identities=33%  Similarity=0.453  Sum_probs=23.2

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .+.-+.|.||+|+|||++++.++....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            345688999999999999999998763

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=97.25  E-value=0.00012  Score=54.81  Aligned_cols=32  Identities=19%  Similarity=0.172  Sum_probs=25.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh-CCeEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET-GAFFFL  150 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~-~~~~~~  150 (197)
                      .+.-+.|.|++|+|||++++.++..+ +..++.
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~   52 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHLPNCSVIS   52 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTSTTEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcEEEe
Confidence            34457899999999999999999877 554443

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=97.25  E-value=0.00036  Score=58.29  Aligned_cols=30  Identities=23%  Similarity=0.407  Sum_probs=25.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      +.-|+|.|+||+||||+++.++..++..++
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~~~~~i  287 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSAGYVHV  287 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGGTCEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCcEEE
Confidence            345889999999999999999998876544

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.25  E-value=0.0014  Score=52.76  Aligned_cols=36  Identities=28%  Similarity=0.267  Sum_probs=28.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ..+..+++.|++|+|||+++..+|..+   +..+..+++
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~  141 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAA  141 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            345568899999999999999998765   666766654

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.23  E-value=0.00092  Score=54.13  Aligned_cols=35  Identities=29%  Similarity=0.337  Sum_probs=26.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      .++.-+.|.||+|+||||+++.++..+   +..+....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g  164 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAA  164 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEe
Confidence            345568999999999999999998765   44444443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=97.23  E-value=0.00032  Score=53.81  Aligned_cols=33  Identities=24%  Similarity=0.438  Sum_probs=27.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ..+..|.|.|++|+|||++++.++..+|.+++.
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            345568999999999999999999999876654

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=97.23  E-value=0.00034  Score=52.77  Aligned_cols=31  Identities=35%  Similarity=0.500  Sum_probs=27.1

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ..|.|.|++|+|||++++.++..++.+++..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~   34 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVDT   34 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceecC
Confidence            4689999999999999999999998776554

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=97.22  E-value=0.00015  Score=54.65  Aligned_cols=32  Identities=22%  Similarity=0.307  Sum_probs=26.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..+++|.||+|+|||+||..++...+ .++..+
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdD   65 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIADD   65 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEESS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEecc
Confidence            45799999999999999999998865 444433

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.21  E-value=0.0011  Score=49.48  Aligned_cols=35  Identities=17%  Similarity=0.163  Sum_probs=27.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      .+.-+.|.|++|+|||++++.++..+   +.++...+.
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~   58 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHM   58 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEecc
Confidence            34458899999999999999999875   556665543

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.21  E-value=0.00063  Score=57.15  Aligned_cols=35  Identities=37%  Similarity=0.345  Sum_probs=28.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      +..|++.|++|+||||++..+|..+   |.++..+++.
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D  136 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD  136 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Confidence            4578999999999999999998766   5677777654

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.20  E-value=0.00022  Score=53.40  Aligned_cols=26  Identities=23%  Similarity=0.236  Sum_probs=23.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+..|+|.|++|+||||+++.+++.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34568999999999999999999876

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.19  E-value=0.0003  Score=50.95  Aligned_cols=28  Identities=25%  Similarity=0.368  Sum_probs=24.0

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.+...+.|.||.|+|||+|++.++..+
T Consensus        30 i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           30 TEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4555568899999999999999999876

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.18  E-value=0.00024  Score=53.17  Aligned_cols=26  Identities=35%  Similarity=0.709  Sum_probs=21.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ++..+.|.||+|+|||||++.++...
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34568999999999999999998754

>2jv2_A Putative uncharacterized protein PH1500; AAA ATPase NC-domain-like, unknown function; NMR {Pyrococcus horikoshii}

Probab=97.18  E-value=0.0018  Score=41.52  Aligned_cols=56  Identities=20%  Similarity=0.149  Sum_probs=48.9

Q ss_pred             hhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcC
Q psy6208          10 SNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEG   68 (197)
Q Consensus        10 ~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~   68 (197)
                      .+-+..|++++|.+  +++..||.+.+...+..+.|+|++++|. .+.+++.|.+.+..
T Consensus        26 ~~~~~~~lk~~L~g--rPV~~GD~I~i~~~G~~i~F~Vv~t~P~-~V~Vt~~T~I~i~~   81 (83)
T 2jv2_A           26 PPDFVDVIRIKLQG--KTVRTGDVIGISILGKEVKFKVVQAYPS-PLRVEDRTKITLVT   81 (83)
T ss_dssp             CHHHHHHHHHHHTT--SEECTTCEEEEEETTEEEEEEEEEEESS-SEECCTTSEEEECC
T ss_pred             CccHHHHHHHHHCC--CCccCCCEEEEeeCCCEEEEEEEEecCc-cEEECCCcEEEEEe
Confidence            34567899999997  6999999999977779999999999999 99999999998854

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=97.17  E-value=0.00024  Score=59.07  Aligned_cols=33  Identities=18%  Similarity=0.305  Sum_probs=27.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      .-|+|.||+|+|||+|+..++..++..++..+.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~~~iis~Ds   35 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFNGEVINSDS   35 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHTEEEEECCT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCCCeEeecCc
Confidence            357899999999999999999999876665543

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.16  E-value=0.00025  Score=58.15  Aligned_cols=72  Identities=24%  Similarity=0.353  Sum_probs=45.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEEec-hhhhh-----h--ccC-c-------cHHHHHHHHHHHhcCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG--AFFFLING-PEIMS-----K--LAG-E-------SESNLRKAFEEADKNS  179 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v~~-~~~~~-----~--~~~-~-------~~~~~~~~~~~a~~~~  179 (197)
                      .+...++|.||+|+||||++++++....  ...+.++. .++..     .  +.. .       .....+..+..+.+..
T Consensus       173 ~~G~~i~ivG~sGsGKSTll~~l~~~~~~~~g~I~ie~~~e~~~~~~~~~v~~v~~q~~~~~~~~~~t~~~~i~~~l~~~  252 (361)
T 2gza_A          173 QLERVIVVAGETGSGKTTLMKALMQEIPFDQRLITIEDVPELFLPDHPNHVHLFYPSEAKEEENAPVTAATLLRSCLRMK  252 (361)
T ss_dssp             HTTCCEEEEESSSSCHHHHHHHHHTTSCTTSCEEEEESSSCCCCTTCSSEEEEECC----------CCHHHHHHHHTTSC
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHhcCCCCceEEEECCccccCccccCCEEEEeecCccccccccccCHHHHHHHHHhcC
Confidence            4566899999999999999999988763  23444442 11110     0  111 0       1112345566666678


Q ss_pred             CeEEEEcccC
Q psy6208         180 PSIIFIDELD  189 (197)
Q Consensus       180 ~~vl~lDeid  189 (197)
                      |+.++++|+.
T Consensus       253 pd~~l~~e~r  262 (361)
T 2gza_A          253 PTRILLAELR  262 (361)
T ss_dssp             CSEEEESCCC
T ss_pred             CCEEEEcCch
Confidence            9999999975

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=97.15  E-value=0.00068  Score=51.52  Aligned_cols=69  Identities=16%  Similarity=0.163  Sum_probs=38.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhcc-CccHHH------------HHHHHHHHhcCCCeEEEEc
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLA-GESESN------------LRKAFEEADKNSPSIIFID  186 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~-~~~~~~------------~~~~~~~a~~~~~~vl~lD  186 (197)
                      .+++|+.|+|||+.+..++...   +..++.+... +-+.+. +.....            ..++++.+. ...++|+||
T Consensus        31 ~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~-~d~R~ge~~i~s~~g~~~~a~~~~~~~~~~~~~~-~~~dvViID  108 (214)
T 2j9r_A           31 EVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPC-IDNRYSEEDVVSHNGLKVKAVPVSASKDIFKHIT-EEMDVIAID  108 (214)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC------------------CCEEECSSGGGGGGGCC-SSCCEEEEC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEec-cCCcchHHHHHhhcCCeeEEeecCCHHHHHHHHh-cCCCEEEEE
Confidence            5689999999999888776654   6666666522 111110 000000            012222222 246899999


Q ss_pred             ccCccCc
Q psy6208         187 ELDAIAP  193 (197)
Q Consensus       187 eid~l~~  193 (197)
                      |++.|.+
T Consensus       109 EaQF~~~  115 (214)
T 2j9r_A          109 EVQFFDG  115 (214)
T ss_dssp             CGGGSCT
T ss_pred             CcccCCH
Confidence            9999865

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=97.15  E-value=0.00028  Score=55.92  Aligned_cols=34  Identities=35%  Similarity=0.529  Sum_probs=26.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh-CCeEEEEechhh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET-GAFFFLINGPEI  156 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~-~~~~~~v~~~~~  156 (197)
                      ..|+|.|+||+|||++++.++..+ +..  .++...+
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~--~i~~D~~   37 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFY--NINRDDY   37 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEE--EECHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcE--EecccHH
Confidence            358999999999999999999874 544  4444443

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.14  E-value=0.00029  Score=53.50  Aligned_cols=28  Identities=25%  Similarity=0.490  Sum_probs=23.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||+|++.++...
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3456678999999999999999998865

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.14  E-value=0.0017  Score=55.50  Aligned_cols=34  Identities=29%  Similarity=0.282  Sum_probs=27.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      +..|+|.|++|+||||++..++..+   +..+..+++
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~  137 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICA  137 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEec
Confidence            4568999999999999999998765   667777765

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=97.12  E-value=0.00027  Score=55.91  Aligned_cols=31  Identities=26%  Similarity=0.351  Sum_probs=25.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|.|.|++|+|||++++.++ .+|.+++..
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La-~lg~~~id~  105 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK-NLGAYIIDS  105 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH-HHTCEEEEH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH-HCCCcEEeh
Confidence            3458999999999999999999 678776544

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=97.12  E-value=0.00077  Score=57.91  Aligned_cols=75  Identities=28%  Similarity=0.319  Sum_probs=46.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh----hhhh---------------cc---------CccH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE----IMSK---------------LA---------GESE  165 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~----~~~~---------------~~---------~~~~  165 (197)
                      +.+...++|.|++|+|||+|++.++...   +.+++++...+    +...               ..         -...
T Consensus       278 i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~ee~~~~l~~~~~~~g~~~~~~~~~g~~~~~~~~p~~LS~g  357 (525)
T 1tf7_A          278 FFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLE  357 (525)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHHHHcCCCHHHHHhCCCEEEEEeccccCCHH
Confidence            4566678999999999999999998654   44555554321    1100               00         0122


Q ss_pred             HHHHHHHHHHhcCCCeEEEEcccCcc
Q psy6208         166 SNLRKAFEEADKNSPSIIFIDELDAI  191 (197)
Q Consensus       166 ~~~~~~~~~a~~~~~~vl~lDeid~l  191 (197)
                      ...+.++..+....|.+|+||=+..|
T Consensus       358 ~~q~~~~a~~l~~~p~llilDp~~~L  383 (525)
T 1tf7_A          358 DHLQIIKSEINDFKPARIAIDSLSAL  383 (525)
T ss_dssp             HHHHHHHHHHHTTCCSEEEEECHHHH
T ss_pred             HHHHHHHHHHHhhCCCEEEEcChHHH
Confidence            33445556666678999999944333

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.12  E-value=0.00028  Score=53.01  Aligned_cols=27  Identities=26%  Similarity=0.479  Sum_probs=23.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .+.-+.|.||+|+|||||++.|+..+.
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            445688999999999999999998774

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.09  E-value=0.0004  Score=52.18  Aligned_cols=27  Identities=22%  Similarity=0.473  Sum_probs=23.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .+..+.|.||+|+|||+|+++++....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            455689999999999999999987653

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.09  E-value=0.00032  Score=52.58  Aligned_cols=26  Identities=38%  Similarity=0.491  Sum_probs=23.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +.-+.|.||+|+||||+++.++..++
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            44578999999999999999999876

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=97.09  E-value=0.00028  Score=52.25  Aligned_cols=32  Identities=25%  Similarity=0.365  Sum_probs=28.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      ++++|++|+|||++|..++.. +.+++|+....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYIATSQ   33 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEEecCC
Confidence            689999999999999999987 77888887644

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=97.07  E-value=0.00056  Score=54.12  Aligned_cols=37  Identities=24%  Similarity=0.233  Sum_probs=29.0

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEe
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLIN  152 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~  152 (197)
                      ++.++.-++|.||||+|||+|++.++...    |.++++++
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            35666778999999999999999998764    44666654

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=97.05  E-value=0.002  Score=55.33  Aligned_cols=37  Identities=30%  Similarity=0.399  Sum_probs=28.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      +.-|++.|.||+|||++++.++..+   +.....++..++
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D~~   74 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGEY   74 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEecccHH
Confidence            4458999999999999999999887   445555665544

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.03  E-value=0.00042  Score=52.00  Aligned_cols=28  Identities=25%  Similarity=0.478  Sum_probs=23.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||||+++++...
T Consensus        17 i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           17 AAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3556678899999999999999998876

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=97.03  E-value=0.00048  Score=51.79  Aligned_cols=30  Identities=20%  Similarity=0.212  Sum_probs=27.1

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .-|.|.|++|||||++++.+|..+|.+++-
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            358899999999999999999999998773

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=97.02  E-value=0.00052  Score=55.03  Aligned_cols=33  Identities=24%  Similarity=0.546  Sum_probs=27.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      .+.++..+.|.||+|+|||+|++.|+......+
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~G~I  154 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSV  154 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHHHHTCEE
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhhhcCceE
Confidence            366777899999999999999999998774444

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.00  E-value=0.00048  Score=52.50  Aligned_cols=28  Identities=18%  Similarity=0.307  Sum_probs=23.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      ..+.-+.|.||+|+|||||+++++....
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            4556688999999999999999988754

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.98  E-value=0.00091  Score=53.72  Aligned_cols=38  Identities=26%  Similarity=0.228  Sum_probs=30.8

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      |+.++.-++|.|+||+|||+++..++...   +.++++++.
T Consensus        64 Gl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~sl  104 (315)
T 3bh0_A           64 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  104 (315)
T ss_dssp             SBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEES
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEEC
Confidence            46667779999999999999999998654   567888774

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=96.97  E-value=0.0024  Score=57.48  Aligned_cols=63  Identities=17%  Similarity=0.162  Sum_probs=37.9

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccC--hhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRH--PSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~--~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+...|++++-.....+.+.+.-..|...  ......  +.....+++.||+|+|||+++..+...
T Consensus        68 ~~~~~~f~~~~l~~~~~~~l~~r~~lP~~~q~~~i~~~--l~~~~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A           68 DGKINPFTGREFTPKYVDILKIRRELPVHAQRDEFLKL--YQNNQIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             HSSBCTTTCSBCCHHHHHHHHHHTTSGGGGGHHHHHHH--HHHCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCCCCccccCCCHHHHHHHHHhhcCChHHHHHHHHHH--HhCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            344567888876666666655543333211  111111  223457999999999999977766543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.96  E-value=0.0023  Score=53.68  Aligned_cols=74  Identities=16%  Similarity=0.263  Sum_probs=47.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhhh----------------ccC---cc-HHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSK----------------LAG---ES-ESNLRKAFEE  174 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~~----------------~~~---~~-~~~~~~~~~~  174 (197)
                      .+..|++.|++|+|||+++..+|..+    |.++..+++......                +..   .. ...+...+..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~~  178 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKE  178 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHHH
Confidence            34568899999999999999988655    677887776421100                000   11 2222455565


Q ss_pred             HhcCCCeEEEEcccCccC
Q psy6208         175 ADKNSPSIIFIDELDAIA  192 (197)
Q Consensus       175 a~~~~~~vl~lDeid~l~  192 (197)
                      +.....+++|||=...+.
T Consensus       179 ~~~~~~D~VIIDTpG~l~  196 (433)
T 2xxa_A          179 AKLKFYDVLLVDTAGRLH  196 (433)
T ss_dssp             HHHTTCSEEEEECCCCCT
T ss_pred             HHhCCCCEEEEECCCccc
Confidence            554457899999865543

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=96.95  E-value=0.00071  Score=59.33  Aligned_cols=37  Identities=27%  Similarity=0.424  Sum_probs=31.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      +..|+|.|.+|+||||+++++++.+   +.+++.++...+
T Consensus        52 g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDgD~i   91 (630)
T 1x6v_B           52 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNI   91 (630)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEechHHh
Confidence            4458999999999999999999998   889988875444

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.95  E-value=0.0017  Score=51.95  Aligned_cols=34  Identities=26%  Similarity=0.421  Sum_probs=26.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLI  151 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v  151 (197)
                      ..+..+.|.||+|+||||+++.++..+   +..+...
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~  134 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMA  134 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            345568899999999999999998765   3444443

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.95  E-value=0.00054  Score=52.84  Aligned_cols=29  Identities=21%  Similarity=0.272  Sum_probs=24.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ..+.-+-|.||+|+||||+++.++..+|.
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~lG~   51 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELLGQ   51 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            34445789999999999999999998764

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=96.93  E-value=0.0017  Score=59.30  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      .+..+.|.||.|+|||++++.++.
T Consensus       672 ~g~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          672 SERVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             SCCEEEEESCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCchHHHHHHHHH
Confidence            344589999999999999998864

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.93  E-value=0.0018  Score=51.60  Aligned_cols=73  Identities=23%  Similarity=0.220  Sum_probs=45.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh-----------hh----c-cC---c-cHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM-----------SK----L-AG---E-SESNLRKAFEEAD  176 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~-----------~~----~-~~---~-~~~~~~~~~~~a~  176 (197)
                      +..+.+.|++|+|||+++..+|..+   +..+..+++.-..           ..    . .+   . ....+...++.+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~~~  177 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFL  177 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence            4457889999999999999998765   6677776653110           00    0 00   1 1122344555555


Q ss_pred             cCCCeEEEEcccCccC
Q psy6208         177 KNSPSIIFIDELDAIA  192 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~  192 (197)
                      ....++++||=...+.
T Consensus       178 ~~~~D~ViIDTpg~~~  193 (297)
T 1j8m_F          178 SEKMEIIIVDTAGRHG  193 (297)
T ss_dssp             HTTCSEEEEECCCSCC
T ss_pred             hCCCCEEEEeCCCCcc
Confidence            4567899999766554

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.92  E-value=0.00026  Score=51.66  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=18.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARA  139 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~a  139 (197)
                      ..+.-+.|.||+|+|||||+++
T Consensus         7 ~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            7 PELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             ESSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHH
Confidence            3455689999999999999994

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.88  E-value=0.00049  Score=54.74  Aligned_cols=27  Identities=30%  Similarity=0.455  Sum_probs=22.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .+.-|.|.|++|+||||+++.++..++
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            344578999999999999999988774

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=96.87  E-value=0.003  Score=50.27  Aligned_cols=72  Identities=28%  Similarity=0.332  Sum_probs=44.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh--------h---hhh-----cc---CccHHH-HHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE--------I---MSK-----LA---GESESN-LRKAFEEAD  176 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~--------~---~~~-----~~---~~~~~~-~~~~~~~a~  176 (197)
                      +..+.+.|++|+|||+++..+|..+   +..+..+++.-        +   ...     +.   ...... .+..++.+.
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~~~~  177 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKAR  177 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4457788999999999999998765   55666665421        1   000     00   111112 244555554


Q ss_pred             cCCCeEEEEcccCcc
Q psy6208         177 KNSPSIIFIDELDAI  191 (197)
Q Consensus       177 ~~~~~vl~lDeid~l  191 (197)
                      ...+++|+||+-..+
T Consensus       178 ~~~~D~viiDtpp~~  192 (295)
T 1ls1_A          178 LEARDLILVDTAGRL  192 (295)
T ss_dssp             HHTCCEEEEECCCCS
T ss_pred             hCCCCEEEEeCCCCc
Confidence            346899999997554

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.84  E-value=0.0022  Score=52.59  Aligned_cols=34  Identities=26%  Similarity=0.391  Sum_probs=26.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      .+..+.|.||+|+||||+++.++..+   +..+....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g  192 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAA  192 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEec
Confidence            44558899999999999999998865   44444443

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.83  E-value=0.0003  Score=52.70  Aligned_cols=24  Identities=21%  Similarity=0.295  Sum_probs=21.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      -|.|.|++|+||||+++.++..++
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999999874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.82  E-value=0.00035  Score=53.34  Aligned_cols=27  Identities=26%  Similarity=0.384  Sum_probs=17.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHH-HHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVA-NET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala-~~~  144 (197)
                      .++.-+.|.||+|+|||++++.++ ...
T Consensus        25 ~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           25 SVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             ECCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            345568899999999999999999 654

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.80  E-value=0.00073  Score=53.71  Aligned_cols=34  Identities=18%  Similarity=0.195  Sum_probs=23.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC---CeEEEEech
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG---AFFFLINGP  154 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~  154 (197)
                      .-|.|.|++|+||||+++.++..++   ..+..++..
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D   42 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGD   42 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecc
Confidence            3588999999999999999998765   334444433

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=96.79  E-value=0.0024  Score=49.01  Aligned_cols=69  Identities=19%  Similarity=0.101  Sum_probs=37.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhccCccHH------------HHHHHHHHHhcCCCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKLAGESES------------NLRKAFEEADKNSPSIIFI  185 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~~~~~~~------------~~~~~~~~a~~~~~~vl~l  185 (197)
                      .-.+++|+.|+|||+.+-..+...   +..++.+... +-..+.+....            ...++++.+  ...++|+|
T Consensus        20 ~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~-~D~Ryg~~i~sr~G~~~~a~~i~~~~di~~~~--~~~dvViI   96 (234)
T 2orv_A           20 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYA-KDTRYSSSFCTHDRNTMEALPACLLRDVAQEA--LGVAVIGI   96 (234)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEET-TCCCC-----------CEEEEESSGGGGHHHH--TTCSEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeec-CCccchHHHHhhcCCeeEEEecCCHHHHHHHh--ccCCEEEE
Confidence            346889999999997665554433   5566655421 11111000000            001233333  34689999


Q ss_pred             cccCccC
Q psy6208         186 DELDAIA  192 (197)
Q Consensus       186 Deid~l~  192 (197)
                      ||++.+.
T Consensus        97 DEaQF~~  103 (234)
T 2orv_A           97 DEGQFFP  103 (234)
T ss_dssp             SSGGGCT
T ss_pred             Echhhhh
Confidence            9999884

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.78  E-value=0.001  Score=50.95  Aligned_cols=33  Identities=24%  Similarity=0.248  Sum_probs=26.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC--CeEEEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG--AFFFLI  151 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~--~~~~~v  151 (197)
                      .+.-|.|.|++|+||||+++.++..++  ..++..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~~   59 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   59 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhcCCCceee
Confidence            345588999999999999999999885  455443

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.76  E-value=0.00065  Score=53.38  Aligned_cols=28  Identities=25%  Similarity=0.332  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +....-++|+||+|+|||+|+..++...
T Consensus        27 l~~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           27 MVAGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ccCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4556678999999999999999998643

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.76  E-value=0.0036  Score=52.96  Aligned_cols=26  Identities=27%  Similarity=0.468  Sum_probs=21.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ....++|+|++|+|||+|+..++...
T Consensus       150 kGq~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          150 KGGKIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             TTCEEEEECCSSSCHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCccHHHHHHHhhh
Confidence            34568999999999999999887654

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.73  E-value=0.00057  Score=52.66  Aligned_cols=28  Identities=21%  Similarity=0.424  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus        28 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           28 IKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3556678999999999999999997543

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=96.73  E-value=0.0029  Score=57.95  Aligned_cols=21  Identities=24%  Similarity=0.268  Sum_probs=18.7

Q ss_pred             CceEEECCCCCcHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala  141 (197)
                      .-++|.||.|+|||++++.++
T Consensus       663 ~i~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            448899999999999999984

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.73  E-value=0.0088  Score=48.68  Aligned_cols=35  Identities=20%  Similarity=0.282  Sum_probs=26.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ....|.|.|+||+|||+++..++..+   +.++..+++
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~  115 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAV  115 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEec
Confidence            34568999999999999999998775   555554443

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=96.72  E-value=0.0012  Score=50.45  Aligned_cols=30  Identities=23%  Similarity=0.388  Sum_probs=26.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .-|.|.|++|||||++++.+|..++.+++.
T Consensus        15 ~iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           15 LIITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            357899999999999999999999988754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.72  E-value=0.0013  Score=50.49  Aligned_cols=31  Identities=26%  Similarity=0.375  Sum_probs=26.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      ..+-|.|+||+|||++++.|++.++.+++..
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            3477899999999999999999998776543

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=96.72  E-value=0.0013  Score=48.43  Aligned_cols=25  Identities=24%  Similarity=0.454  Sum_probs=22.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...+++|.|++|+|||++|.++...
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            3568999999999999999999875

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.70  E-value=0.0063  Score=49.30  Aligned_cols=28  Identities=21%  Similarity=0.279  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.....+.|.|+||+|||+|+++++..+
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            3455568899999999999999998764

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=96.68  E-value=0.0013  Score=57.20  Aligned_cols=38  Identities=29%  Similarity=0.270  Sum_probs=31.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhC----CeEEEEechhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETG----AFFFLINGPEIM  157 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~----~~~~~v~~~~~~  157 (197)
                      +..|+|.|.+|+|||+++++++..++    .+++.++...+.
T Consensus       396 ~~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D~ir  437 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTVR  437 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHHHH
T ss_pred             ceEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcHHHH
Confidence            34588999999999999999999885    778888765543

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=96.68  E-value=0.0015  Score=54.99  Aligned_cols=34  Identities=26%  Similarity=0.296  Sum_probs=27.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      ..+++.+|+|+|||..+-.++...+.+++.+...
T Consensus       109 ~~~ll~~~TGsGKT~~~l~~i~~~~~~~Lvl~P~  142 (472)
T 2fwr_A          109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT  142 (472)
T ss_dssp             TEEEEECCTTSCHHHHHHHHHHHHCSCEEEEESS
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHcCCCEEEEECC
Confidence            3599999999999999988888777777666543

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.68  E-value=0.007  Score=45.42  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=22.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...++|.|.+|+|||+|+..++...
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4568899999999999999998775

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.67  E-value=0.0013  Score=48.92  Aligned_cols=23  Identities=35%  Similarity=0.671  Sum_probs=20.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.|.||+|+||||+++.++..+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            47899999999999999998765

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.65  E-value=0.0007  Score=52.19  Aligned_cols=28  Identities=21%  Similarity=0.299  Sum_probs=23.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           28 IPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3556678999999999999999998654

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.65  E-value=0.0013  Score=52.91  Aligned_cols=27  Identities=26%  Similarity=0.202  Sum_probs=22.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+.-+.|.||+|+|||||++.|+..+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            344557899999999999999998876

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.65  E-value=0.0022  Score=46.86  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+.|.|++|+|||+++..++..+
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhh
Confidence            358899999999999999998775

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.63  E-value=0.0015  Score=47.96  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=21.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..-+.|.|++|+|||+++..+...+
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            4568899999999999999998764

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=96.63  E-value=0.011  Score=49.56  Aligned_cols=73  Identities=27%  Similarity=0.251  Sum_probs=44.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh-------hh---------ccC---cc-HHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM-------SK---------LAG---ES-ESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~-------~~---------~~~---~~-~~~~~~~~~~a  175 (197)
                      .+..+.+.|++|+|||+++..+|..+   +..+..+++.-..       ..         +..   .. .......++.+
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l~~~  176 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHHHHH
Confidence            34557889999999999999998776   5566666542110       00         000   11 12224455665


Q ss_pred             hcCCCeEEEEcccCcc
Q psy6208         176 DKNSPSIIFIDELDAI  191 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l  191 (197)
                      .....++++||=...+
T Consensus       177 ~~~~~DvVIIDTaG~l  192 (425)
T 2ffh_A          177 RLEARDLILVDTAGRL  192 (425)
T ss_dssp             HHTTCSEEEEECCCCS
T ss_pred             HHCCCCEEEEcCCCcc
Confidence            4455789999966554

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.59  E-value=0.0024  Score=51.06  Aligned_cols=25  Identities=28%  Similarity=0.331  Sum_probs=22.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.|.||+|+||||+++.++..+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            4568899999999999999999765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.59  E-value=0.0024  Score=51.84  Aligned_cols=38  Identities=13%  Similarity=0.121  Sum_probs=30.8

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      |+.++.-++|.|+||+|||+++..+|...   +.++.+++.
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSl   82 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSL   82 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            45666679999999999999999997764   677877764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.58  E-value=0.00062  Score=52.03  Aligned_cols=27  Identities=19%  Similarity=0.251  Sum_probs=22.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+.-+.|.||+|+|||||++.++...
T Consensus        28 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           28 KKGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             ETTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            445568899999999999999997654

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.57  E-value=0.00087  Score=52.48  Aligned_cols=28  Identities=21%  Similarity=0.349  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||||++.++...
T Consensus        29 i~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           29 ARAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3456668899999999999999997654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.55  E-value=0.0011  Score=51.30  Aligned_cols=27  Identities=26%  Similarity=0.455  Sum_probs=23.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.. ..+.|.||+|+|||||++.++...
T Consensus        22 i~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           22 MGR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             ECS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            355 678899999999999999998754

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.54  E-value=0.00084  Score=51.90  Aligned_cols=28  Identities=29%  Similarity=0.393  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           25 AQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3556668999999999999999997643

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.52  E-value=0.0024  Score=53.77  Aligned_cols=38  Identities=26%  Similarity=0.228  Sum_probs=31.2

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      |+.++.-++|.|+||+|||+++..+|...   +.++++++.
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSl  233 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  233 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEEC
Confidence            46666679999999999999999887654   678888874

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.52  E-value=0.0018  Score=47.21  Aligned_cols=23  Identities=26%  Similarity=0.281  Sum_probs=20.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -.+|+||+|+|||++++||+-.+
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999999998754

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.52  E-value=0.0012  Score=51.81  Aligned_cols=27  Identities=30%  Similarity=0.576  Sum_probs=23.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      +..+..+.|.||+|+|||||++.++..
T Consensus        43 i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           43 VHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            355667899999999999999999875

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.52  E-value=0.0032  Score=45.99  Aligned_cols=25  Identities=24%  Similarity=0.474  Sum_probs=21.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ....+++.|++|+|||+|+.++...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4457999999999999999999764

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.50  E-value=0.00086  Score=50.96  Aligned_cols=27  Identities=22%  Similarity=0.394  Sum_probs=22.8

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+.-+.|.||+|+|||||++.++...
T Consensus        33 ~~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           33 EKGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455568899999999999999997654

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.50  E-value=0.0011  Score=54.38  Aligned_cols=28  Identities=29%  Similarity=0.512  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +....-+.|.||+|+|||||++.|+...
T Consensus        27 i~~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           27 LDPGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            3455668899999999999999998754

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=96.49  E-value=0.00078  Score=56.64  Aligned_cols=24  Identities=33%  Similarity=0.448  Sum_probs=19.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ...-.++.|+||+|||+++..++.
T Consensus       160 ~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          160 SAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             cccEEEEEcCCCCCHHHHHHHHhc
Confidence            344468999999999999988765

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.49  E-value=0.001  Score=52.09  Aligned_cols=28  Identities=21%  Similarity=0.478  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||||++.++...
T Consensus        47 i~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           47 IREGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            3456668899999999999999997654

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.49  E-value=0.001  Score=51.99  Aligned_cols=28  Identities=25%  Similarity=0.315  Sum_probs=23.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus        43 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           43 IPSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            3556678999999999999999997654

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=96.48  E-value=0.0012  Score=57.24  Aligned_cols=38  Identities=26%  Similarity=0.392  Sum_probs=30.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC----CeEEEEechhh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG----AFFFLINGPEI  156 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~----~~~~~v~~~~~  156 (197)
                      .+..+.|.|++|+||||++++|+..++    ..+..++...+
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~~  409 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGDIV  409 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCcHH
Confidence            455689999999999999999999874    34556766554

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.47  E-value=0.0011  Score=52.27  Aligned_cols=28  Identities=32%  Similarity=0.501  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||||++.|+...
T Consensus        42 i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           42 LYPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3556678999999999999999997654

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=96.47  E-value=0.00083  Score=51.10  Aligned_cols=70  Identities=16%  Similarity=0.143  Sum_probs=37.1

Q ss_pred             ceEEECCCCCcHHH-HHHHHHHHh--CCeEEEEechh--------hhhhccCcc-----HHHHHHHHHHHhcCCCeEEEE
Q psy6208         122 GILLYGPPGTGKTL-IARAVANET--GAFFFLINGPE--------IMSKLAGES-----ESNLRKAFEEADKNSPSIIFI  185 (197)
Q Consensus       122 ~ill~G~~GtGKT~-la~ala~~~--~~~~~~v~~~~--------~~~~~~~~~-----~~~~~~~~~~a~~~~~~vl~l  185 (197)
                      -.+++|+.|+|||+ |++.+.+..  +..++.+...-        +.+.. |..     -.....+++.. ....++|+|
T Consensus        30 I~vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~-G~~~~a~~v~~~~di~~~i-~~~~dvV~I  107 (219)
T 3e2i_A           30 IECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHN-GNAIEAINISKASEIMTHD-LTNVDVIGI  107 (219)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-----------CBT-TBCCEEEEESSGGGGGGSC-CTTCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCCcchhhhHHHhc-CCceeeEEeCCHHHHHHHH-hcCCCEEEE
Confidence            35899999999999 555553332  55555443211        00000 000     00011222221 235789999


Q ss_pred             cccCccCc
Q psy6208         186 DELDAIAP  193 (197)
Q Consensus       186 Deid~l~~  193 (197)
                      ||+++|..
T Consensus       108 DEaQFf~~  115 (219)
T 3e2i_A          108 DEVQFFDD  115 (219)
T ss_dssp             CCGGGSCT
T ss_pred             echhcCCH
Confidence            99999875

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.47  E-value=0.0011  Score=51.54  Aligned_cols=26  Identities=27%  Similarity=0.484  Sum_probs=22.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+..+.|.||+|+|||||++.++..
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           27 PKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45566889999999999999999874

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.47  E-value=0.0037  Score=49.93  Aligned_cols=27  Identities=26%  Similarity=0.262  Sum_probs=23.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .+.-+.|.||+|+||||+++.++..++
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            344578999999999999999998765

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.46  E-value=0.00092  Score=52.15  Aligned_cols=27  Identities=22%  Similarity=0.411  Sum_probs=22.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..+.|.||+|+|||||++.++...
T Consensus        31 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           31 NKGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455568899999999999999997643

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.45  E-value=0.00095  Score=51.16  Aligned_cols=27  Identities=22%  Similarity=0.320  Sum_probs=23.2

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++..+.|.||+|+|||||++.++...
T Consensus        32 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           32 ERGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456678899999999999999998764

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.45  E-value=0.0012  Score=51.63  Aligned_cols=28  Identities=29%  Similarity=0.393  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||||++.++...
T Consensus        38 i~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           38 IEEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3456668899999999999999997654

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.43  E-value=0.00096  Score=51.51  Aligned_cols=27  Identities=30%  Similarity=0.331  Sum_probs=22.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..+.|.||+|+|||||++.++...
T Consensus        30 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           30 PRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455568899999999999999997643

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.43  E-value=0.0012  Score=51.84  Aligned_cols=28  Identities=25%  Similarity=0.425  Sum_probs=23.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||||++.++...
T Consensus        30 i~~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           30 INEGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3556668899999999999999997643

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.43  E-value=0.00098  Score=52.61  Aligned_cols=27  Identities=19%  Similarity=0.217  Sum_probs=22.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++.-+.|.||+|+|||||++.++...
T Consensus        32 ~~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           32 KRGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            455668999999999999999997644

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.43  E-value=0.00097  Score=51.75  Aligned_cols=27  Identities=22%  Similarity=0.326  Sum_probs=22.8

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++..+.|.||+|+|||||++.++...
T Consensus        33 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           33 KQGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455678999999999999999997654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.42  E-value=0.0014  Score=53.70  Aligned_cols=28  Identities=29%  Similarity=0.464  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+.|.||+|+|||||++.|+...
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           26 IKDGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            3455668899999999999999998754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.41  E-value=0.0014  Score=49.53  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=20.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      +..+.|.||+|+|||||++.++..
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            446889999999999999999864

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.41  E-value=0.0014  Score=53.63  Aligned_cols=28  Identities=36%  Similarity=0.387  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+.|.||+|+|||||++.++...
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           26 VKDGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            3455668899999999999999998654

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.41  E-value=0.0015  Score=53.82  Aligned_cols=28  Identities=36%  Similarity=0.533  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+.|.||+|+|||||++.|+...
T Consensus        34 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           34 IKDGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            3455668899999999999999998654

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.41  E-value=0.0015  Score=53.96  Aligned_cols=28  Identities=25%  Similarity=0.500  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+.|.||+|+|||||++.|+...
T Consensus        26 i~~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           26 IHEGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            3455668899999999999999998754

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=96.40  E-value=0.011  Score=53.36  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+.|.||.|+|||++++.++..
T Consensus       608 ~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          608 RMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            45889999999999999999754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.39  E-value=0.0023  Score=51.61  Aligned_cols=24  Identities=21%  Similarity=0.198  Sum_probs=21.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      -+.|.||+|+||||+++.++..++
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            478999999999999999988764

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.39  E-value=0.0011  Score=52.12  Aligned_cols=27  Identities=22%  Similarity=0.417  Sum_probs=22.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++.-+.|.||+|+|||||++.++...
T Consensus        35 ~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           35 ASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             ETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            455668899999999999999997543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.39  E-value=0.0011  Score=51.59  Aligned_cols=27  Identities=30%  Similarity=0.457  Sum_probs=22.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..+.|.||+|+|||||++.++...
T Consensus        24 ~~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           24 RAGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            455668899999999999999998654

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=96.37  E-value=0.0035  Score=54.95  Aligned_cols=24  Identities=38%  Similarity=0.617  Sum_probs=19.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...+|+||||||||+++..+...+
T Consensus       196 ~~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHH
Confidence            357999999999999888776543

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=96.37  E-value=0.013  Score=49.43  Aligned_cols=34  Identities=26%  Similarity=0.306  Sum_probs=26.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETG---AFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~  153 (197)
                      +..|++.|.||+|||++++.++..++   .+...++.
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~~~t~~~~~   75 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNV   75 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccCCCceEEec
Confidence            44689999999999999999998863   34444443

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.36  E-value=0.0028  Score=48.58  Aligned_cols=25  Identities=16%  Similarity=0.272  Sum_probs=22.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .-|.|.|++|+||||+++.+++.++
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3588999999999999999999983

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=96.36  E-value=0.0041  Score=47.10  Aligned_cols=32  Identities=34%  Similarity=0.328  Sum_probs=26.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      -..|-|+|..|||||++++.++. +|.+++..+
T Consensus         9 ~~~iglTGgigsGKStv~~~l~~-~g~~vidaD   40 (210)
T 4i1u_A            9 MYAIGLTGGIGSGKTTVADLFAA-RGASLVDTD   40 (210)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH-TTCEEEEHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHH-CCCcEEECc
Confidence            34588999999999999999987 888776543

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.36  E-value=0.0013  Score=53.75  Aligned_cols=27  Identities=37%  Similarity=0.534  Sum_probs=22.8

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ....-+.|.||+|+|||||++.|+...
T Consensus        39 ~~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           39 REGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            445568899999999999999998654

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.36  E-value=0.0013  Score=53.77  Aligned_cols=28  Identities=32%  Similarity=0.523  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+.|.||+|+|||||++.|+...
T Consensus        23 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           23 VESGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCccHHHHHHHHHcCC
Confidence            3455668899999999999999998654

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.32  E-value=0.0012  Score=52.16  Aligned_cols=27  Identities=26%  Similarity=0.370  Sum_probs=22.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..+.|.||+|+|||||++.++...
T Consensus        45 ~~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           45 AKGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            455568899999999999999997654

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=96.31  E-value=0.0041  Score=47.09  Aligned_cols=32  Identities=28%  Similarity=0.273  Sum_probs=25.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v  151 (197)
                      +.-|.|.|++|+|||++++.+++.+   +.+++..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~   40 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLT   40 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHcCCCcccc
Confidence            3457899999999999999999887   4555544

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.31  E-value=0.0012  Score=51.34  Aligned_cols=27  Identities=15%  Similarity=0.210  Sum_probs=23.0

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++..+.|.||+|+|||||++.++...
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           29 NKGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             ETTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455568899999999999999998754

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=96.29  E-value=0.028  Score=45.41  Aligned_cols=27  Identities=22%  Similarity=0.268  Sum_probs=22.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .....+.|.|++|+|||+++..++..+
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            445568899999999999999998654

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.28  E-value=0.0015  Score=53.72  Aligned_cols=27  Identities=37%  Similarity=0.523  Sum_probs=22.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+.-+.|.||+|+|||||++.|+...
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           27 KDGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            445568899999999999999998754

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=96.28  E-value=0.0028  Score=54.31  Aligned_cols=35  Identities=9%  Similarity=0.078  Sum_probs=28.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCC-----eEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~-----~~~~v~~~  154 (197)
                      ...|+|.|.+|+|||++++++++.++.     ++.+++..
T Consensus       395 ~~~I~l~GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD  434 (511)
T 1g8f_A          395 GFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN  434 (511)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT
T ss_pred             ceEEEecccCCCCHHHHHHHHHHHHHHhhcCcceEEecCC
Confidence            456899999999999999999999974     34455543

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.27  E-value=0.0037  Score=46.84  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=22.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...++|.|++|+|||+++..++...
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4568999999999999999998875

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=96.27  E-value=0.0064  Score=52.68  Aligned_cols=25  Identities=28%  Similarity=0.360  Sum_probs=20.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...+++.+|+|+|||..+-.++..+
T Consensus       198 ~~~~ll~~~TGsGKT~~~~~~~~~l  222 (590)
T 3h1t_A          198 KKRSLITMATGTGKTVVAFQISWKL  222 (590)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCChHHHHHHHHHHH
Confidence            4568999999999999987776553

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=96.26  E-value=0.04  Score=49.59  Aligned_cols=35  Identities=29%  Similarity=0.374  Sum_probs=24.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      .+.++++.||+|+|||..+-..+-..   +...+.+..
T Consensus       388 ~~~~~Ll~a~TGSGKTlvall~il~~l~~g~qvlvlaP  425 (780)
T 1gm5_A          388 KPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVP  425 (780)
T ss_dssp             SCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECS
T ss_pred             CCCcEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            34679999999999999776543322   555665543

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=96.26  E-value=0.0035  Score=53.42  Aligned_cols=38  Identities=18%  Similarity=0.062  Sum_probs=30.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      |+.+..-++|.|+||+|||+++..++...    +.++++++.
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~  279 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAML  279 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEES
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEec
Confidence            45556668999999999999999998764    457888775

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=96.24  E-value=0.0024  Score=50.22  Aligned_cols=23  Identities=22%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.|.||+|+|||||++.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998754

>1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate recognition DOM hydrolase; NMR {Thermoplasma acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A

Probab=96.22  E-value=0.0084  Score=44.44  Aligned_cols=60  Identities=25%  Similarity=0.402  Sum_probs=51.7

Q ss_pred             hhHHHHhHHHhhhcCcccccCCEEEEec---Ccc-eEEEEEEEecCCC-eEEEcCceEEEEcCCCCc
Q psy6208          11 NLFEVYLKPYFLEAYRPVHKDDLFIVRG---GMR-AVEFKIVDTDPAP-YCIVAADTVIHCEGDPIK   72 (197)
Q Consensus        11 ~~~~~f~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~~v~~~~~~~-~~~~~~~~~~~~~~~~~~   72 (197)
                      +.+..|+++||.+  +++..|+.+.+..   .+. .+.|+|+.++|.+ .+.+.+.|.+.+...|..
T Consensus       114 ~~~~~~l~~~l~~--rpv~~Gd~v~v~~~~~~g~~~~~f~Vv~t~P~~~~v~Vt~~T~I~i~~~p~~  178 (185)
T 1cz4_A          114 EGIEEYVQRALIR--RPMLEQDNISVPGLTLAGQTGLLFKVVKTLPSKVPVEIGEETKIEIREEPAS  178 (185)
T ss_dssp             SSHHHHHHHHHTT--CEECTTCEECCSSCCCSSCCCCEEEEEEESSSSSCEECCTTCEEEECSCCST
T ss_pred             cchHHHHHHHHCC--CcccCCCEEEEeeeccCCCeEEEEEEEEEcCCCceEEEcCCeEEEECCccch
Confidence            4457899999997  5899999999874   556 8999999999999 999999999999877754

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.20  E-value=0.0031  Score=51.55  Aligned_cols=28  Identities=14%  Similarity=0.329  Sum_probs=23.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAF  147 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~  147 (197)
                      ...+.|.||+|+|||||++.|+......
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~~  197 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNTT  197 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4568999999999999999999877543

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.20  E-value=0.0013  Score=51.27  Aligned_cols=26  Identities=15%  Similarity=0.179  Sum_probs=23.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +.-|.|.|++|+||||+++.|++.+.
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            44589999999999999999999883

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.19  E-value=0.002  Score=53.38  Aligned_cols=27  Identities=26%  Similarity=0.452  Sum_probs=23.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      +....-+.|.||+|+|||||++.|+..
T Consensus        44 i~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           44 ISPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCC
Confidence            455667899999999999999999864

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.17  E-value=0.0013  Score=53.70  Aligned_cols=28  Identities=29%  Similarity=0.485  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+.|.||+|+|||||++.|+...
T Consensus        28 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           28 IENGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3455668899999999999999998654

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=96.16  E-value=0.0064  Score=50.03  Aligned_cols=34  Identities=21%  Similarity=0.427  Sum_probs=26.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      ...++++.|++|+|||++++.++...   +..++.++
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D   70 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIID   70 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEe
Confidence            46689999999999999999987654   45555554

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.15  E-value=0.002  Score=50.48  Aligned_cols=27  Identities=33%  Similarity=0.645  Sum_probs=22.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +. +..+.|.||+|+|||||++.++...
T Consensus        28 i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           28 VN-GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EC-SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EC-CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            45 5568899999999999999998654

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=96.13  E-value=0.0033  Score=46.42  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=20.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+.|.|++|+|||+|++.++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999999875

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.12  E-value=0.0018  Score=47.45  Aligned_cols=23  Identities=17%  Similarity=0.216  Sum_probs=20.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.|.|++|+|||+|++.++..+
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998876

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.12  E-value=0.0019  Score=51.32  Aligned_cols=28  Identities=21%  Similarity=0.345  Sum_probs=23.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||||++.++...
T Consensus        61 i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           61 IERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4556668899999999999999998654

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=96.10  E-value=0.0031  Score=46.36  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=20.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.|.|++|+|||+|++.++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            48999999999999999998753

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=96.09  E-value=0.0071  Score=45.92  Aligned_cols=29  Identities=24%  Similarity=0.171  Sum_probs=25.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      +.-|.|.|++|+|||++++.+++.++..+
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~~~   33 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQPNC   33 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCSSE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcccc
Confidence            45688999999999999999999997643

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.08  E-value=0.0044  Score=46.25  Aligned_cols=26  Identities=23%  Similarity=0.475  Sum_probs=22.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ....++|.|++|+|||+|+.++....
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34579999999999999999998754

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=96.07  E-value=0.012  Score=48.53  Aligned_cols=32  Identities=34%  Similarity=0.490  Sum_probs=24.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208         122 GILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      ++++..|+|+|||..+-+++...    +.+++.+..
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P   60 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence            79999999999999888776554    556666554

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.07  E-value=0.0032  Score=53.27  Aligned_cols=28  Identities=21%  Similarity=0.293  Sum_probs=24.1

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+.|.||+|+|||+|++.|+...
T Consensus       135 i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          135 NFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            4566779999999999999999998754

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=96.07  E-value=0.0065  Score=52.50  Aligned_cols=38  Identities=29%  Similarity=0.357  Sum_probs=30.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM  157 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~  157 (197)
                      +..|+|.|++|+|||++++.++..+   |.++..++...+.
T Consensus       372 ~~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D~ir  412 (546)
T 2gks_A          372 GFCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGDVVR  412 (546)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHHHHH
T ss_pred             ceEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECchHhh
Confidence            4458999999999999999999876   4567777765543

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=96.05  E-value=0.016  Score=47.50  Aligned_cols=21  Identities=24%  Similarity=0.352  Sum_probs=19.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .+.|.|++|+|||+|..++..
T Consensus       181 ~V~lvG~~naGKSTLln~L~~  201 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTG  201 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            388999999999999999974

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.04  E-value=0.003  Score=51.82  Aligned_cols=28  Identities=25%  Similarity=0.280  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+.|.||+|+|||||+++++...
T Consensus        51 i~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           51 VPAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            3556668899999999999999997644

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=96.01  E-value=0.0043  Score=44.16  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -.+|+||.|+|||+++.|++-.+
T Consensus        25 ~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999998655

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.01  E-value=0.0019  Score=51.73  Aligned_cols=28  Identities=36%  Similarity=0.536  Sum_probs=23.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus        77 i~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           77 VMPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             ECTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            4566679999999999999999997654

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=96.01  E-value=0.017  Score=51.93  Aligned_cols=23  Identities=30%  Similarity=0.369  Sum_probs=20.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+.|.||+|+|||++++.++..
T Consensus       577 ~i~~I~GpNGsGKSTlLr~iagl  599 (765)
T 1ewq_A          577 ELVLITGPNMAGKSTFLRQTALI  599 (765)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHhh
Confidence            45789999999999999999753

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=96.00  E-value=0.0069  Score=54.67  Aligned_cols=24  Identities=38%  Similarity=0.617  Sum_probs=19.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...+|.||||||||+++..++..+
T Consensus       372 ~~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          372 PLSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHH
Confidence            357999999999999888776543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.00  E-value=0.0044  Score=43.57  Aligned_cols=22  Identities=18%  Similarity=0.474  Sum_probs=19.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+++.|++|+|||+|+.++...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.95  E-value=0.0047  Score=47.32  Aligned_cols=25  Identities=24%  Similarity=0.213  Sum_probs=19.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.-|.|.|++|+||||+++.+++.+
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3458899999999999999999877

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=95.95  E-value=0.011  Score=46.05  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=20.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+.|.|++|+|||+|..++...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999999754

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.93  E-value=0.0058  Score=52.41  Aligned_cols=37  Identities=24%  Similarity=0.235  Sum_probs=26.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHH--HHHh--CCeEEEEec
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAV--ANET--GAFFFLING  153 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~al--a~~~--~~~~~~v~~  153 (197)
                      +.....++|.||+|+|||+|++.+  +...  +...++++.
T Consensus        36 i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g   76 (525)
T 1tf7_A           36 LPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTF   76 (525)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            356677999999999999999994  3332  444556654

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=95.93  E-value=0.0098  Score=48.96  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=16.8

Q ss_pred             CCceEEECCCCCcHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAV  140 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~al  140 (197)
                      ...+++.+|+|+|||......
T Consensus        36 ~~~~lv~apTGsGKT~~~l~~   56 (414)
T 3oiy_A           36 GKSFTMVAPTGVGKTTFGMMT   56 (414)
T ss_dssp             TCCEECCSCSSSSHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHH
Confidence            457999999999999954443

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.92  E-value=0.0048  Score=43.64  Aligned_cols=23  Identities=13%  Similarity=0.252  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|++.|++|+|||+|+.++...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999764

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=95.89  E-value=0.0048  Score=53.97  Aligned_cols=25  Identities=32%  Similarity=0.407  Sum_probs=20.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...++++|+||||||+++..+...+
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            4568999999999999988776543

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.89  E-value=0.0079  Score=50.54  Aligned_cols=30  Identities=27%  Similarity=0.356  Sum_probs=25.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +..+..+.|.||+|+|||+|++.|+.....
T Consensus       154 i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~  183 (438)
T 2dpy_A          154 VGRGQRMGLFAGSGVGKSVLLGMMARYTRA  183 (438)
T ss_dssp             CBTTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHhcccCC
Confidence            455666899999999999999999998743

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=95.88  E-value=0.024  Score=52.56  Aligned_cols=21  Identities=29%  Similarity=0.463  Sum_probs=19.0

Q ss_pred             CceEEECCCCCcHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala  141 (197)
                      ..++|+||.|+|||++++.++
T Consensus       790 ~i~~ItGpNgsGKSTlLr~iG  810 (1022)
T 2o8b_B          790 YCVLVTGPNMGGKSTLMRQAG  810 (1022)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHH
Confidence            558899999999999999984

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=95.88  E-value=0.0039  Score=45.41  Aligned_cols=21  Identities=24%  Similarity=0.570  Sum_probs=19.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .++|.|++|+|||+|++.++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999975

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=95.87  E-value=0.0054  Score=43.19  Aligned_cols=22  Identities=18%  Similarity=0.437  Sum_probs=19.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+.++...
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998754

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.87  E-value=0.0048  Score=44.05  Aligned_cols=21  Identities=38%  Similarity=0.575  Sum_probs=19.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .+.|.|++|+|||+|+++++.
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999975

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.85  E-value=0.0057  Score=47.11  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=22.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.-|.|.|++|+|||++++.++..+
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3458899999999999999999877

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.85  E-value=0.0078  Score=48.26  Aligned_cols=23  Identities=43%  Similarity=0.518  Sum_probs=20.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -++|.|+.|+||||+++.+....
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEEecCCCCHHHHHHHHHhhc
Confidence            47899999999999999998653

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=95.85  E-value=0.027  Score=47.73  Aligned_cols=24  Identities=21%  Similarity=0.560  Sum_probs=18.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...+++.+|+|+|||..+-..+..
T Consensus        19 ~~~~l~~~~tGsGKT~~~~~~~~~   42 (555)
T 3tbk_A           19 GKNTIICAPTGCGKTFVSLLICEH   42 (555)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCChHHHHHHHHHHH
Confidence            357999999999999876655433

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.84  E-value=0.0057  Score=51.02  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=20.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ...+.|.||+|+|||||+++++.
T Consensus        69 ~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCCcHHHHHHHHhC
Confidence            34578999999999999999987

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.83  E-value=0.031  Score=57.08  Aligned_cols=92  Identities=22%  Similarity=0.282  Sum_probs=61.5

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCccHH
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES  166 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~~~~  166 (197)
                      +++-.++++..+.+...-.           -.+.++.||.|..|+||++|++..|...+..++.+..+.-.+  ..+-..
T Consensus      1624 ~LVlF~daleHv~RI~RIL-----------~qp~GhaLLVGvgGSGkqSLtrLAa~i~~~~vfqi~i~k~Y~--~~~f~e 1690 (3245)
T 3vkg_A         1624 PLVLFNEVLDHILRIDRVF-----------RQPQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIKVNNNYK--SSDFDD 1690 (3245)
T ss_dssp             CCCCCHHHHHHHHHHHHHH-----------TSTTCCEEEEESTTSSHHHHHHHHHHHTTCEEECCC----CC--HHHHHH
T ss_pred             eEEeHHHHHHHHHHHHHHH-----------ccCCCCeEEecCCCCcHHHHHHHHHHHhCCeeEEEeeeCCCC--HHHHHH
Confidence            4556666666665543321           145668999999999999999999999999988776433211  112345


Q ss_pred             HHHHHHHHH-hcCCCeEEEEcccCcc
Q psy6208         167 NLRKAFEEA-DKNSPSIIFIDELDAI  191 (197)
Q Consensus       167 ~~~~~~~~a-~~~~~~vl~lDeid~l  191 (197)
                      .++.++..+ ..+.+.+++++|-+-.
T Consensus      1691 DLk~l~~~aG~~~~~~vFL~tD~qi~ 1716 (3245)
T 3vkg_A         1691 DLRMLLKRAGCKEEKICFIFDESNVL 1716 (3245)
T ss_dssp             HHHHHHHHHHTSCCCEEEEEEGGGCS
T ss_pred             HHHHHHHHHhcCCCCEEEEEeccccc
Confidence            677777766 3567889999886543

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=95.82  E-value=0.012  Score=49.12  Aligned_cols=33  Identities=18%  Similarity=0.152  Sum_probs=21.8

Q ss_pred             CCceEEECCCCCcHHHHH-HHHHH---HhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIA-RAVAN---ETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la-~ala~---~~~~~~~~v~  152 (197)
                      ...+++.||+|+|||..+ .++.+   ..+...+.+.
T Consensus         2 g~~~lv~a~TGsGKT~~~l~~~l~~~~~~g~~~lvl~   38 (431)
T 2v6i_A            2 RELTVLDLHPGAGKTRRVLPQLVREAVKKRLRTVILA   38 (431)
T ss_dssp             CCEEEEECCTTSCTTTTHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEC
Confidence            357999999999999975 43332   2244455544

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.79  E-value=0.0058  Score=43.20  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+.++...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999754

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=95.79  E-value=0.0052  Score=43.14  Aligned_cols=22  Identities=18%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+++.|++|+|||+|+.++...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999764

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=95.77  E-value=0.0061  Score=42.95  Aligned_cols=23  Identities=17%  Similarity=0.449  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.76  E-value=0.0075  Score=43.15  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=21.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....|++.|++|+|||+|+.++..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            455799999999999999999965

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=95.76  E-value=0.0058  Score=43.56  Aligned_cols=22  Identities=41%  Similarity=0.653  Sum_probs=19.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      ..|++.|++|+|||+|+.++..
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCccHHHHHHHHhc
Confidence            3589999999999999999964

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=95.76  E-value=0.0063  Score=43.08  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|++.|++|+|||+|+.++...
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999999764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.76  E-value=0.0071  Score=46.18  Aligned_cols=27  Identities=26%  Similarity=0.224  Sum_probs=22.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +.-|.|.|++|+|||++++.+++.++.
T Consensus        21 ~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           21 SMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            445788999999999999999987643

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.75  E-value=0.0051  Score=46.85  Aligned_cols=31  Identities=26%  Similarity=0.320  Sum_probs=24.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +.-+.|.|+.|+||||+++.++.. +..+...
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~-~g~v~~~   50 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY-KNDICLL   50 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG-TTTEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc-cCCeEEE
Confidence            345789999999999999999887 4444433

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=95.74  E-value=0.0062  Score=50.98  Aligned_cols=27  Identities=30%  Similarity=0.359  Sum_probs=21.7

Q ss_pred             CCCCCc--eEEECCCCCcHHHHHHHHHHH
Q psy6208         117 VKPPRG--ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       117 ~~~~~~--ill~G~~GtGKT~la~ala~~  143 (197)
                      +..+..  +.|.||+|+|||||+++|+..
T Consensus        37 i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           37 VSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             CC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             ecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            344555  889999999999999999764

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=95.74  E-value=0.0065  Score=43.07  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999754

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=95.73  E-value=0.0064  Score=43.47  Aligned_cols=23  Identities=22%  Similarity=0.405  Sum_probs=20.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999753

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=95.71  E-value=0.0075  Score=42.78  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=21.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ....|++.|++|+|||+|+.++...
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3456999999999999999999753

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=95.71  E-value=0.0066  Score=43.48  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=20.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            346999999999999999998754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.71  E-value=0.008  Score=48.94  Aligned_cols=29  Identities=21%  Similarity=0.329  Sum_probs=25.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      ..+..+.|.||+|+|||+|++.|+.....
T Consensus        69 ~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           69 GIGQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            45667899999999999999999998754

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=95.68  E-value=0.0033  Score=46.64  Aligned_cols=26  Identities=15%  Similarity=0.231  Sum_probs=21.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ......+.|.|++|+|||+|+++++.
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            45556699999999999999998864

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=95.67  E-value=0.007  Score=42.71  Aligned_cols=22  Identities=18%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+++.|++|+|||+|+.++...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999999764

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=95.67  E-value=0.0062  Score=43.13  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+.++...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            5899999999999999999753

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=95.67  E-value=0.0085  Score=48.11  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=21.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+++|.|++|+|||+++.++...
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc
Confidence            568999999999999999999875

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.66  E-value=0.0071  Score=42.74  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=19.9

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      ..|++.|++|+|||+|+.++..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            3589999999999999999976

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=95.64  E-value=0.0096  Score=53.78  Aligned_cols=22  Identities=41%  Similarity=0.687  Sum_probs=17.9

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      ...+|.||||||||+++..+..
T Consensus       376 ~~~lI~GppGTGKT~~i~~~i~  397 (802)
T 2xzl_A          376 PLSLIQGPPGTGKTVTSATIVY  397 (802)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHH
Confidence            3579999999999998776644

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.63  E-value=0.0067  Score=43.96  Aligned_cols=23  Identities=39%  Similarity=0.551  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+.|.|++|+|||+|+.+++..
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999863

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=95.63  E-value=0.019  Score=44.56  Aligned_cols=22  Identities=41%  Similarity=0.587  Sum_probs=19.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|.|.|.||+|||+|..++...
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999999654

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=95.63  E-value=0.0074  Score=42.55  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+++.|++|+|||+|+.++...
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999754

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=95.63  E-value=0.031  Score=47.43  Aligned_cols=23  Identities=26%  Similarity=0.648  Sum_probs=18.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+++.+|+|+|||..+-..+..
T Consensus        23 ~~~l~~~~tGsGKT~~~~~~~~~   45 (556)
T 4a2p_A           23 KNALICAPTGSGKTFVSILICEH   45 (556)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEcCCCChHHHHHHHHHHH
Confidence            46999999999999876655433

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.62  E-value=0.0071  Score=42.82  Aligned_cols=21  Identities=19%  Similarity=0.477  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|++.|++|+|||+|+.++..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            589999999999999999975

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.61  E-value=0.0073  Score=43.69  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|+|.|++|+|||+|+.++...
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999863

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=95.61  E-value=0.007  Score=42.91  Aligned_cols=20  Identities=30%  Similarity=0.604  Sum_probs=18.4

Q ss_pred             ceEEECCCCCcHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala  141 (197)
                      .|++.|++|+|||+|+.++.
T Consensus         4 ki~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48999999999999999985

>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}

Probab=95.58  E-value=0.021  Score=52.56  Aligned_cols=39  Identities=26%  Similarity=0.345  Sum_probs=27.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CC--eEEEEechhhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GA--FFFLINGPEIMS  158 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~--~~~~v~~~~~~~  158 (197)
                      ..+++|.+++|+|||..+-+++..+   +.  +++.+....+..
T Consensus       170 ~~~~LLad~tGlGKTi~Ai~~i~~l~~~g~~~rvLIVvP~sLl~  213 (968)
T 3dmq_A          170 APRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQH  213 (968)
T ss_dssp             SCEEEECCCTTSCHHHHHHHHHHHHHHTSSCCCEEEECCTTTHH
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEeCHHHHH
Confidence            5678999999999999888776654   32  566665445443

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.57  E-value=0.0089  Score=45.23  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .-|.|.|++|+|||+.++.+++.+
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999877

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=95.56  E-value=0.024  Score=44.01  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.8

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      ..|+|.|+||+|||+|..++..
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g   27 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTG   27 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHC
Confidence            3589999999999999999975

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.56  E-value=0.0062  Score=43.08  Aligned_cols=20  Identities=45%  Similarity=0.848  Sum_probs=18.5

Q ss_pred             ceEEECCCCCcHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala  141 (197)
                      .+++.|++|+|||+|++++.
T Consensus         4 ki~~vG~~~~GKSsli~~l~   23 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFG   23 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            58999999999999999985

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.55  E-value=0.0082  Score=42.86  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45999999999999999999764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=95.53  E-value=0.0084  Score=43.26  Aligned_cols=23  Identities=17%  Similarity=0.417  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|++.|++|+|||+|+.++...
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999764

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=95.51  E-value=0.016  Score=48.02  Aligned_cols=35  Identities=20%  Similarity=0.468  Sum_probs=27.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEE
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLI  151 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v  151 (197)
                      +.....++|.||+|+|||+|++.+++..     +..++++
T Consensus       171 i~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~  210 (422)
T 3ice_A          171 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVL  210 (422)
T ss_dssp             CBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEE
T ss_pred             ecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEE
Confidence            4556779999999999999999998754     4445554

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=95.50  E-value=0.0078  Score=43.06  Aligned_cols=23  Identities=17%  Similarity=0.377  Sum_probs=20.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999999765

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.50  E-value=0.0087  Score=43.56  Aligned_cols=24  Identities=21%  Similarity=0.362  Sum_probs=21.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999999865

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=95.49  E-value=0.0077  Score=42.99  Aligned_cols=23  Identities=17%  Similarity=0.302  Sum_probs=20.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999753

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.49  E-value=0.0087  Score=43.48  Aligned_cols=22  Identities=18%  Similarity=0.450  Sum_probs=20.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+.++...
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            5899999999999999999764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=95.49  E-value=0.0087  Score=43.63  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|+|.|++|+|||+|+.++...
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999764

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.47  E-value=0.0085  Score=42.85  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      ..+++.|++|+|||+|+.++..
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~   28 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQ   28 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHG
T ss_pred             EEEEEECcCCCCHHHHHHHHHh
Confidence            4589999999999999999864

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=95.47  E-value=0.0089  Score=42.99  Aligned_cols=23  Identities=17%  Similarity=0.449  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            45999999999999999999764

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.47  E-value=0.008  Score=43.01  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      ..|++.|++|+|||+|+.++..
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999854

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=95.47  E-value=0.0092  Score=42.79  Aligned_cols=23  Identities=22%  Similarity=0.453  Sum_probs=20.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999999764

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=95.46  E-value=0.008  Score=43.58  Aligned_cols=24  Identities=25%  Similarity=0.374  Sum_probs=20.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...+++.|++|+|||+|+.++...
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345899999999999999999764

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=95.45  E-value=0.0075  Score=43.47  Aligned_cols=23  Identities=26%  Similarity=0.515  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..+.|.|++|+|||+|+.+++..
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999864

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=95.44  E-value=0.0093  Score=44.62  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=20.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .-.+|+||.|+|||+++.||.-.+
T Consensus        24 ~~~~I~G~NgsGKStil~ai~~~l   47 (203)
T 3qks_A           24 GINLIIGQNGSGKSSLLDAILVGL   47 (203)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            346899999999999999997655

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.41  E-value=0.01  Score=43.49  Aligned_cols=24  Identities=17%  Similarity=0.411  Sum_probs=21.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456999999999999999999764

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=95.41  E-value=0.0085  Score=43.25  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999754

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=95.39  E-value=0.0099  Score=42.76  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=20.1

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|++.|++|+|||+|+.++...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999753

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=95.39  E-value=0.0099  Score=42.82  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999864

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=95.38  E-value=0.0092  Score=43.47  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=20.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....+++.|++|+|||+|+.++..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~   45 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            345699999999999999999964

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=95.38  E-value=0.025  Score=44.29  Aligned_cols=21  Identities=33%  Similarity=0.547  Sum_probs=19.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|.|.|+||+|||+|..++..
T Consensus         5 kI~lvG~~nvGKSTL~n~L~g   25 (272)
T 3b1v_A            5 EIALIGNPNSGKTSLFNLITG   25 (272)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            589999999999999999975

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=95.38  E-value=0.054  Score=42.32  Aligned_cols=54  Identities=20%  Similarity=0.351  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECC-CCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208          92 RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGP-PGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus        92 ~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~-~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      .+..+.++..+.....         -...+.|+++|+ +|+|||+++..+|..+   |.+++.+++.
T Consensus        63 ~Ea~r~lrt~l~~~~~---------~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID~D  120 (271)
T 3bfv_A           63 SEKFRGIRSNIMFANP---------DSAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGD  120 (271)
T ss_dssp             HHHHHHHHHHHHHSST---------TCCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             HHHHHHHHHHHHhhcc---------CCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence            4555666555543211         123456778865 8999999999887665   7788888753

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.37  E-value=0.01  Score=42.51  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45899999999999999999753

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.37  E-value=0.02  Score=44.00  Aligned_cols=33  Identities=18%  Similarity=0.254  Sum_probs=26.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh--CCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET--GAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~--~~~~~~v~  152 (197)
                      ...+++.|.+|+|||+++..++..+  +.++..++
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd   48 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   48 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEe
Confidence            3447899999999999999998765  55666665

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.35  E-value=0.011  Score=51.01  Aligned_cols=27  Identities=30%  Similarity=0.434  Sum_probs=22.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++..+.|.||+|+|||||++.++...
T Consensus        45 ~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           45 KEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456668999999999999999998643

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=95.34  E-value=0.011  Score=43.15  Aligned_cols=22  Identities=14%  Similarity=0.229  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|+|.|++|+|||+|+..+...
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999888654

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=95.33  E-value=0.0067  Score=48.64  Aligned_cols=25  Identities=36%  Similarity=0.452  Sum_probs=21.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...+++|.|++|+|||++|.++...
T Consensus       146 ~g~gvli~G~sG~GKStlal~l~~~  170 (312)
T 1knx_A          146 FGVGVLLTGRSGIGKSECALDLINK  170 (312)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            3567999999999999999988653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=95.31  E-value=0.011  Score=42.97  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..|++.|++|+|||+|++.+....
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            358999999999999999887643

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.30  E-value=0.011  Score=43.06  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999999864

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=95.30  E-value=0.011  Score=43.07  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+..+...
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            5899999999999999998754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.30  E-value=0.02  Score=42.68  Aligned_cols=30  Identities=27%  Similarity=0.314  Sum_probs=24.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      |.|-|+-|+||||.++.+++.+   |.+++...
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tr   35 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKR   35 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            5688999999999999999877   66666553

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=95.30  E-value=0.011  Score=43.50  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            456999999999999999999753

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=95.30  E-value=0.011  Score=42.99  Aligned_cols=22  Identities=32%  Similarity=0.424  Sum_probs=20.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+.++...
T Consensus        24 ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           24 KLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999999764

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=95.28  E-value=0.0099  Score=43.52  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ...+++.|++|+|||+|+.++..
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            34699999999999999999986

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=95.27  E-value=0.014  Score=41.91  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=20.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...+++.|++|+|||+|+.++...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456999999999999999999753

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=95.27  E-value=0.056  Score=43.36  Aligned_cols=64  Identities=16%  Similarity=0.035  Sum_probs=41.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CC-e--EEEEechhhhhhccCccHHHHHHHHHHH----hcCCCeEEEEccc
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GA-F--FFLINGPEIMSKLAGESESNLRKAFEEA----DKNSPSIIFIDEL  188 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~-~--~~~v~~~~~~~~~~~~~~~~~~~~~~~a----~~~~~~vl~lDei  188 (197)
                      ..+.+||+||.|.||+..++++++.+   +. +  .+.++.           ...++.+.+.+    .-+...|++|||+
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~plf~~~kvvii~~~   85 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP-----------NTDWNAIFSLCQAMSLFASRQTLLLLLP   85 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT-----------TCCHHHHHHHHHHHHHCCSCEEEEEECC
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC-----------CCCHHHHHHHhcCcCCccCCeEEEEECC
Confidence            35579999999999999999998865   22 2  222221           01223333332    2345689999999


Q ss_pred             Cc-cCc
Q psy6208         189 DA-IAP  193 (197)
Q Consensus       189 d~-l~~  193 (197)
                      |. +..
T Consensus        86 ~~kl~~   91 (343)
T 1jr3_D           86 ENGPNA   91 (343)
T ss_dssp             SSCCCT
T ss_pred             CCCCCh
Confidence            98 654

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=95.27  E-value=0.2  Score=46.97  Aligned_cols=33  Identities=24%  Similarity=0.161  Sum_probs=22.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE---TGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~  152 (197)
                      +..++++||+|+|||..+-..+-.   .+..++.+.
T Consensus       624 p~d~ll~~~TGsGKT~val~aa~~~~~~g~~vlvlv  659 (1151)
T 2eyq_A          624 AMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLV  659 (1151)
T ss_dssp             CCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEEC
T ss_pred             cCcEEEECCCCCCHHHHHHHHHHHHHHhCCeEEEEe
Confidence            457999999999999876533322   255555554

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.26  E-value=0.011  Score=43.33  Aligned_cols=23  Identities=17%  Similarity=0.449  Sum_probs=20.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999999754

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=95.26  E-value=0.04  Score=43.05  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|.|.|.+|+|||+|..++...
T Consensus         4 ~~I~lvG~~n~GKSTLin~l~g~   26 (274)
T 3i8s_A            4 LTIGLIGNPNSGKTTLFNQLTGS   26 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999753

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=95.24  E-value=0.012  Score=43.32  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=20.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999999764

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.24  E-value=0.012  Score=50.06  Aligned_cols=27  Identities=19%  Similarity=0.176  Sum_probs=23.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.. ..+.|.||+|+|||||+++++...
T Consensus        27 i~~-e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           27 FDE-LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             CCS-SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             Ecc-ceEEEECCCCCcHHHHHHHHhcCC
Confidence            345 678899999999999999998765

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=95.23  E-value=0.0089  Score=43.23  Aligned_cols=22  Identities=18%  Similarity=0.389  Sum_probs=19.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+.++...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4899999999999999999753

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.23  E-value=0.011  Score=42.85  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=20.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            346999999999999999999754

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=95.23  E-value=0.012  Score=42.75  Aligned_cols=23  Identities=22%  Similarity=0.314  Sum_probs=20.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45999999999999999999753

>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix, helix-turn-helix, ATP binding, Zn(2+) binding, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43 c.37.1.19 c.37.1.19 PDB: 1oyy_A*

Probab=95.22  E-value=0.06  Score=46.05  Aligned_cols=33  Identities=24%  Similarity=0.297  Sum_probs=21.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ...+++.+|+|+|||.....-+-..+...+.+.
T Consensus        40 g~d~lv~apTGsGKTl~~~lp~l~~~g~~lvi~   72 (523)
T 1oyw_A           40 GRDCLVVMPTGGGKSLCYQIPALLLNGLTVVVS   72 (523)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHHHSSSEEEEEC
T ss_pred             CCCEEEECCCCcHHHHHHHHHHHHhCCCEEEEC
Confidence            357999999999999855544333333444443

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.22  E-value=0.012  Score=48.21  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.+|+||+|+|||++..+|+-.
T Consensus        25 ~~~i~G~NGaGKTTll~ai~~a   46 (365)
T 3qf7_A           25 ITVVEGPNGAGKSSLFEAISFA   46 (365)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999754

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=95.22  E-value=0.021  Score=42.80  Aligned_cols=30  Identities=27%  Similarity=0.339  Sum_probs=24.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh--CCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANET--GAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~--~~~~~~v  151 (197)
                      -|.|-|+.|+||||+++.+++.+  +.+++..
T Consensus         4 FI~~EG~dGsGKsTq~~~L~~~L~~~~~v~~~   35 (205)
T 4hlc_A            4 FITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   35 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHCCCCEEEe
Confidence            47889999999999999999987  4555544

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=95.21  E-value=0.012  Score=42.88  Aligned_cols=22  Identities=18%  Similarity=0.437  Sum_probs=19.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|++.|++|+|||+|+.++...
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4899999999999999999753

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=95.21  E-value=0.014  Score=43.04  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=17.8

Q ss_pred             CCceEEECCCCCcHHHHHH-HHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIAR-AVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~-ala~~  143 (197)
                      ...+++.+|+|+|||..+- .+...
T Consensus        38 ~~~~li~~~TGsGKT~~~~~~~~~~   62 (207)
T 2gxq_A           38 GKDLIGQARTGTGKTLAFALPIAER   62 (207)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCChHHHHHHHHHHHH
Confidence            4579999999999998643 33343

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=95.21  E-value=0.012  Score=48.09  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=21.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...+.|.||+|+|||+|+++|+...
T Consensus       215 G~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          215 GRISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CCEEEEECCCCccHHHHHHHHhccc
Confidence            3458899999999999999998644

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=95.20  E-value=0.012  Score=42.79  Aligned_cols=23  Identities=26%  Similarity=0.315  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999999753

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=95.19  E-value=0.012  Score=42.65  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35999999999999999999764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.18  E-value=0.012  Score=42.95  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .|+|.|++|+|||+|+.++....
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            59999999999999999998654

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=95.18  E-value=0.018  Score=48.00  Aligned_cols=34  Identities=32%  Similarity=0.652  Sum_probs=26.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ..++++.|++|+|||++++.+...+   +.+++.++.
T Consensus        53 ~~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~Dp   89 (437)
T 1e9r_A           53 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   89 (437)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeC
Confidence            5689999999999999988776543   667777664

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=95.17  E-value=0.055  Score=42.92  Aligned_cols=35  Identities=20%  Similarity=0.427  Sum_probs=27.5

Q ss_pred             CCCceEEECC-CCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         119 PPRGILLYGP-PGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~-~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ..+.|+++|+ +|+|||+++..+|..+   |.+++.+++
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~  141 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDA  141 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEEC
Confidence            3456778876 7999999999887665   778888875

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=95.17  E-value=0.011  Score=43.12  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            45999999999999999999754

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=95.16  E-value=0.013  Score=42.83  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=20.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|++.|++|+|||+|+.++...
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            45999999999999999999864

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=95.16  E-value=0.011  Score=42.39  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.9

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      ..|++.|++|+|||+|+.++..
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            4689999999999999999974

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=95.15  E-value=0.0091  Score=42.81  Aligned_cols=23  Identities=13%  Similarity=0.198  Sum_probs=20.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|++.|++|+|||+|+..+...
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999864

>4gl2_A Interferon-induced helicase C domain-containing P; MDA5, dsRNA, anti-viral signaling, RIG-I, MAVS, oligomerizat helicase, ATPase; HET: ANP; 3.56A {Homo sapiens}

Probab=95.15  E-value=0.0096  Score=52.45  Aligned_cols=24  Identities=33%  Similarity=0.562  Sum_probs=19.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      +..+++.+|+|+|||..+...+..
T Consensus        22 g~~~ll~~~TGsGKTl~~~~~i~~   45 (699)
T 4gl2_A           22 GKNIIICLPTGCGKTRVAVYIAKD   45 (699)
T ss_dssp             SCCEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCcHHHHHHHHHHH
Confidence            347999999999999987766544

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.14  E-value=0.0099  Score=51.64  Aligned_cols=28  Identities=25%  Similarity=0.382  Sum_probs=23.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus       366 i~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          366 IPQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4566678999999999999999997654

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=95.14  E-value=0.014  Score=42.70  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=20.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....|++.|++|+|||+|+.++..
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHh
Confidence            445699999999999999999853

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=95.12  E-value=0.0044  Score=47.48  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.|.||+|+|||+++++|+..+
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~   51 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTAL   51 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            4577999999999999999876

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.09  E-value=0.014  Score=46.54  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=20.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...+.|.||+|+|||+|+++++ ..
T Consensus       165 G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          165 GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            4457899999999999999998 54

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.09  E-value=0.015  Score=47.30  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=21.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...+.|.|+||+|||+|..++....
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3458899999999999999998754

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.08  E-value=0.011  Score=42.92  Aligned_cols=24  Identities=38%  Similarity=0.513  Sum_probs=20.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...+++.|++|+|||+|+.++...
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            446999999999999999999754

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=95.07  E-value=0.013  Score=43.06  Aligned_cols=23  Identities=30%  Similarity=0.359  Sum_probs=20.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+.++...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            36899999999999999999753

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=95.07  E-value=0.012  Score=43.34  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|+|.|++|+|||+|+.++...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999753

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.07  E-value=0.014  Score=42.51  Aligned_cols=23  Identities=17%  Similarity=0.443  Sum_probs=20.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ...|++.|++|+|||+|+.++..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHc
Confidence            45699999999999999999976

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.06  E-value=0.014  Score=43.10  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=20.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            446999999999999999999753

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=95.04  E-value=0.013  Score=42.31  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....+++.|++|+|||+|+.++..
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~   40 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNG   40 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTT
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhc
Confidence            345799999999999999999964

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=95.04  E-value=0.013  Score=43.19  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=21.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|+|.|++|+|||+|+.++...
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            345999999999999999999764

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=95.04  E-value=0.022  Score=42.61  Aligned_cols=59  Identities=20%  Similarity=0.204  Sum_probs=32.9

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhh---CCCCCCceEEECCCCCcHHHH-HHHHHHH
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAI---GVKPPRGILLYGPPGTGKTLI-ARAVANE  143 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~---~~~~~~~ill~G~~GtGKT~l-a~ala~~  143 (197)
                      ..+|++++-.+...+.+.+.-   ...+..++..   .+.....+++.+|+|+|||.. +-.+...
T Consensus        13 ~~~f~~l~l~~~l~~~l~~~g---~~~~~~~Q~~~i~~~~~~~~~lv~~pTGsGKT~~~~~~~l~~   75 (224)
T 1qde_A           13 VYKFDDMELDENLLRGVFGYG---FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR   75 (224)
T ss_dssp             CCCGGGGTCCHHHHHHHHHHT---CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCChhhcCCCHHHHHHHHHCC---CCCCcHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHH
Confidence            356777766666666665431   1111111110   012346799999999999986 3344433

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=95.03  E-value=0.015  Score=43.13  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=20.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|++|+|||+|+.++...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            456999999999999999999764

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.01  E-value=0.0097  Score=47.32  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=21.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...+.|.||+|+|||+|+++++...
T Consensus       169 geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          169 GKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CCeEEEECCCCCcHHHHHHHhcccc
Confidence            3457899999999999999997654

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=94.99  E-value=0.013  Score=43.54  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..|++.|++|+|||+|+..+...
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            35999999999999999999864

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.98  E-value=0.0085  Score=43.13  Aligned_cols=23  Identities=35%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala  141 (197)
                      ....|++.|++|+|||+|+.++.
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~   39 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQ   39 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CccEEEEECCCCCCHHHHHHHHh
Confidence            45579999999999999999986

---

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	197
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-45
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	2e-45
d1e32a3	94	d.31.1.1 (A:107-200) Membrane fusion atpase p97 do	3e-39
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	1e-38
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	1e-35
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	4e-26
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	1e-19
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	3e-16
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	7e-16
d1cz5a2	94	d.31.1.1 (A:92-185) C-terminal domain of VAT-N, VA	2e-15
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	7e-13
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	8e-12
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	9e-10
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	2e-09
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	3e-08
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	1e-07
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	5e-07
d1zp6a1	176	c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {	6e-06
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	4e-05
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	2e-04
d1qhxa_	178	c.37.1.3 (A:) Chloramphenicol phosphotransferase {	3e-04
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	3e-04
d1um8a_	364	c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 2	4e-04
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	4e-04
d1y63a_	174	c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishma	4e-04
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	4e-04
d1kaga_	169	c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia	6e-04
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	0.001
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	0.001
d1lw7a2	192	c.37.1.1 (A:220-411) Transcriptional regulator Nad	0.002
d1r6bx2	268	c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, A	0.002
d1yj5a2	172	c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' p	0.003
d1rkba_	173	c.37.1.1 (A:) Adenylate kinase {Human (Homo sapien	0.003
d1e6ca_	170	c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chr	0.003
d1knqa_	171	c.37.1.17 (A:) Gluconate kinase {Escherichia coli	0.003
d1m8pa3	183	c.37.1.15 (A:391-573) ATP sulfurylase C-terminal d	0.004
d2bdta1	176	c.37.1.25 (A:1-176) Hypothetical protein BH3686 {B	0.004
d1viaa_	161	c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobact	0.004

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

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

 Score =  149 bits (378), Expect = 1e-45
 Identities = 50/114 (43%), Positives = 73/114 (64%), Gaps = 1/114 (0%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
             + D+ GC +   ++ E+VE  LR PS F+ +G K P+G+L+ GPPGTGKTL+A+A+A 
Sbjct: 9   TTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG 67

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE 196
           E    FF I+G + +    G   S +R  FE+A K +P IIFIDE+DA+  +R 
Sbjct: 68  EAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG 121

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

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

 Score =  148 bits (376), Expect = 2e-45
 Identities = 46/114 (40%), Positives = 70/114 (61%), Gaps = 1/114 (0%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V + D+ G  +   ++KE+VE  L++PS F  +G + P+G+LL GPPG GKT +ARAVA 
Sbjct: 6   VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 64

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE 196
           E    F   +G + +    G   + +R  FE A +++P I+FIDE+DA+  KR 
Sbjct: 65  EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG 118

>d1e32a3 d.31.1.1 (A:107-200) Membrane fusion atpase p97 domain 2, P97-Nc {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Cdc48 domain 2-like
superfamily: Cdc48 domain 2-like
family: Cdc48 domain 2-like
domain: Membrane fusion atpase p97 domain 2, P97-Nc
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  127 bits (322), Expect = 3e-39
 Identities = 60/76 (78%), Positives = 69/76 (90%)

Query: 6  EGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIH 65
          EG   NLFEVYLKPYFLEAYRP+ K D+F+VRGGMRAVEFK+V+TDP+PYCIVA DTVIH
Sbjct: 18 EGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIH 77

Query: 66 CEGDPIKREEEEEASN 81
          CEG+PIKRE+EEE+ N
Sbjct: 78 CEGEPIKREDEEESLN 93

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

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

 Score =  131 bits (330), Expect = 1e-38
 Identities = 109/114 (95%), Positives = 114/114 (100%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           VGYDD+GGCRKQLAQIKEMVELPLRHP+LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN
Sbjct: 1   VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 60

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE 196
           ETGAFFFLINGPEIMSKLAGESESNLRKAFEEA+KN+P+IIFIDELDAIAPKRE
Sbjct: 61  ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE 114

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

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

 Score =  123 bits (310), Expect = 1e-35
 Identities = 52/113 (46%), Positives = 79/113 (69%)

Query: 83  VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 142
           V ++DIGG      +++E+V+ P+ HP  F   G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 4   VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 63

Query: 143 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           E  A F  I GPE+++   GESE+N+R+ F++A + +P ++F DELD+IA  R
Sbjct: 64  ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR 116

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score =  100 bits (249), Expect = 4e-26
 Identities = 22/129 (17%), Positives = 45/129 (34%), Gaps = 7/129 (5%)

Query: 72  KREEEEEASNAVGYDDIGGCRKQLAQIKE--MVELPLRHPSLFKAIGVKPPRGILL-YGP 128
           K  + E+ S +V   + G  ++           EL    P + +  G +   G+++  G 
Sbjct: 72  KSVKAEDGSVSVVQVENGFMKQGHRGWLVDLTGELVGCSPVVAEFGGHRYASGMVIVTGK 131

Query: 129 PGTGKTLIARAVANETGA--FFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFID 186
             +GKT +  A+    G    +  +   E +S    +    +        +    +I ID
Sbjct: 132 GNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HRVIVID 189

Query: 187 ELDAIAPKR 195
            L  +    
Sbjct: 190 SLKNVIGAA 198

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 82.8 bits (204), Expect = 1e-19
 Identities = 23/112 (20%), Positives = 39/112 (34%), Gaps = 11/112 (9%)

Query: 92  RKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLI 151
              L ++  +V   L+         +   R  L  GP  +GKT +A A+    G     +
Sbjct: 130 HCLLPKMDSVVYDFLKC----MVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNV 185

Query: 152 NGPEIMSK-LAGESESNLRKAFEEAD------KNSPSIIFIDELDAIAPKRE 196
           N P        G +       FE+        ++ PS   I+ LD +    +
Sbjct: 186 NLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRDYLD 237

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 71.9 bits (175), Expect = 3e-16
 Identities = 23/99 (23%), Positives = 46/99 (46%), Gaps = 1/99 (1%)

Query: 98  IKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM 157
           +  +++         K     P   +LL GPP +GKT +A  +A E+   F  I  P+ M
Sbjct: 18  VTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKM 77

Query: 158 SKLAGESESNL-RKAFEEADKNSPSIIFIDELDAIAPKR 195
              +  ++    +K F++A K+  S + +D+++ +    
Sbjct: 78  IGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYV 116

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 71.5 bits (174), Expect = 7e-16
 Identities = 19/119 (15%), Positives = 38/119 (31%), Gaps = 12/119 (10%)

Query: 80  SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARA 139
           +N V + D     +    ++E+++             V+ P   LL G PG+GKT +  A
Sbjct: 1   ANIVNFTDKQFENRLNDNLEELIQGKK---------AVESPTAFLLGGQPGSGKTSLRSA 51

Query: 140 VANETGAFFFLINGPEIMSKL---AGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR 195
           +  ET     +I+      +        +   +   +     S  +             
Sbjct: 52  IFEETQGNVIVIDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGY 110

>d1cz5a2 d.31.1.1 (A:92-185) C-terminal domain of VAT-N, VAT-Nc {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Cdc48 domain 2-like
superfamily: Cdc48 domain 2-like
family: Cdc48 domain 2-like
domain: C-terminal domain of VAT-N, VAT-Nc
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

 Score = 66.8 bits (163), Expect = 2e-15
 Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 7/84 (8%)

Query: 1  MKLVPEGEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRG----GMRAVEFKIVDTDPAPYC 56
          ++     +     E Y++   +   RP+ + D   V G    G   + FK+V T P+   
Sbjct: 13 IRKDQRLKFGEGIEEYVQRALIR--RPMLEQDNISVPGLTLAGQTGLLFKVVKTLPSKVP 70

Query: 57 -IVAADTVIHCEGDPIKREEEEEA 79
            +  +T I    +P     EE  
Sbjct: 71 VEIGEETKIEIREEPASEVLEEGG 94

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 63.1 bits (152), Expect = 7e-13
 Identities = 30/111 (27%), Positives = 52/111 (46%), Gaps = 15/111 (13%)

Query: 86  DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 145
           D+  G  +   +++  +E              +P   +LL+GPPG GKT +A  +A+E G
Sbjct: 9   DEYIGQERLKQKLRVYLEAAKARK--------EPLEHLLLFGPPGLGKTTLAHVIAHELG 60

Query: 146 AFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE 196
               + +GP I     G+  + L  + EE       I+FIDE+  ++ + E
Sbjct: 61  VNLRVTSGPAIEKP--GDLAAILANSLEEG-----DILFIDEIHRLSRQAE 104

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 60.6 bits (146), Expect = 8e-12
 Identities = 30/108 (27%), Positives = 46/108 (42%), Gaps = 8/108 (7%)

Query: 97  QIKEMVELPLRHPSLFKAI-GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE 155
            +   +    R   L + +     P+ IL+ GP G GKT IAR +A    A F  +   +
Sbjct: 25  AVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATK 84

Query: 156 I--MSKLAGESESNLRKAFEEADK-----NSPSIIFIDELDAIAPKRE 196
              +  +  E +S +R   + A           I+FIDE+D I  K E
Sbjct: 85  FTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGE 132

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 54.4 bits (129), Expect = 9e-10
 Identities = 26/116 (22%), Positives = 39/116 (33%), Gaps = 11/116 (9%)

Query: 86  DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE-- 143
             +    +QL Q+  ++   LR+P               L G PGTGKT+  R +     
Sbjct: 16  KRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYK 68

Query: 144 --TGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK 197
             T A F  ING    +  A   E           +      F+  L     +R+ 
Sbjct: 69  DKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDL 124

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 53.6 bits (127), Expect = 2e-09
 Identities = 27/117 (23%), Positives = 42/117 (35%), Gaps = 10/117 (8%)

Query: 85  YDDIGGCRKQLAQIKEMVE-LPLRHPSLFKA---IGVKPPRGILLYGPPGTGKTLIARAV 140
              + G +  + ++K  +        + FK     G    R  +LYGPPG GKT  A  V
Sbjct: 13  LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLV 72

Query: 141 ANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKREK 197
           A E G      N  ++ SK      + L    + A  N   + +    +       K
Sbjct: 73  AQELGYDILEQNASDVRSK------TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGK 123

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

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]

 Score = 49.6 bits (117), Expect = 3e-08
 Identities = 22/111 (19%), Positives = 43/111 (38%), Gaps = 16/111 (14%)

Query: 86  DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 145
           D+  G      ++   +E              +    +LL GPPG GKT +A  +A+E  
Sbjct: 9   DEFIGQENVKKKLSLALEAAKMRG--------EVLDHVLLAGPPGLGKTTLAHIIASELQ 60

Query: 146 AFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE 196
               + +GP +        + ++       ++    ++FIDE+  +    E
Sbjct: 61  TNIHVTSGPVL------VKQGDMAAILTSLERG--DVLFIDEIHRLNKAVE 103

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 48.6 bits (115), Expect = 1e-07
 Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 2/61 (3%)

Query: 120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM--SKLAGESESNLRKAFEEADK 177
           P+ IL+ GP G GKT IAR +A    A F  +   +      +  E +S +R   + A K
Sbjct: 49  PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAMK 108

Query: 178 N 178
            
Sbjct: 109 L 109

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 46.7 bits (109), Expect = 5e-07
 Identities = 9/82 (10%), Positives = 20/82 (24%), Gaps = 4/82 (4%)

Query: 93  KQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN 152
            +   +  +    L   +    + +         G  G GKT +A+              
Sbjct: 23  GEAEALARIYLNRLLSGAGLSDVNM----IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEG 78

Query: 153 GPEIMSKLAGESESNLRKAFEE 174
                + +   +  NL      
Sbjct: 79  LTVKQAYVNAFNAPNLYTILSL 100

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

 Score = 42.6 bits (99), Expect = 6e-06
 Identities = 13/56 (23%), Positives = 24/56 (42%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKN 178
           +LL G PG+GK+ IA A+AN  G      +  ++   +             + ++ 
Sbjct: 7   LLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDLWGYIKHGRIDPWLPQSHQQNRM 62

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 40.7 bits (95), Expect = 4e-05
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 18/86 (20%)

Query: 123 ILLYGPPGTGKTLIARAVANETG--------AFFFLINGPEIMSKLAGE-------SESN 167
           +L+ G  G GK ++AR +   +              I      ++L G        + S+
Sbjct: 26  VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSS 85

Query: 168 LRKAFEEADKNSPSIIFIDELDAIAP 193
               FE AD  +   +F+DE+  ++ 
Sbjct: 86  KEGFFELADGGT---LFLDEIGELSL 108

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

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]

 Score = 38.6 bits (88), Expect = 2e-04
 Identities = 5/32 (15%), Positives = 11/32 (34%)

Query: 118 KPPRGILLYGPPGTGKTLIARAVANETGAFFF 149
           +    +L+   PG G   +  A++        
Sbjct: 22  RGHHALLIQALPGMGDDALIYALSRYLLCQQP 53

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]} Length = 178

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

 Score = 37.7 bits (86), Expect = 3e-04
 Identities = 8/38 (21%), Positives = 15/38 (39%)

Query: 120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM 157
            R I+L G    GK+ I R + +     +       ++
Sbjct: 3   TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLI 40

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

 Score = 38.4 bits (88), Expect = 3e-04
 Identities = 10/20 (50%), Positives = 15/20 (75%)

Query: 122 GILLYGPPGTGKTLIARAVA 141
           G+L++G  GTGK+   RA+A
Sbjct: 30  GVLVFGDRGTGKSTAVRALA 49

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]} Length = 364

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

 Score = 38.3 bits (88), Expect = 4e-04
 Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 6/84 (7%)

Query: 119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI--MSKLAGESESNLRKAFEEAD 176
               ILL GP G+GKTL+A+ +A        + +   +     +  + E+ L +  + +D
Sbjct: 67  SKSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASD 126

Query: 177 KN----SPSIIFIDELDAIAPKRE 196
            N       I+FIDE+D I+   E
Sbjct: 127 WNVQKAQKGIVFIDEIDKISRLSE 150

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 37.3 bits (86), Expect = 4e-04
 Identities = 4/27 (14%), Positives = 9/27 (33%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFF 149
           IL+ G   +    ++  +      F  
Sbjct: 18  ILINGEDLSYPREVSLELPEYVEKFPP 44

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

 Score = 37.3 bits (85), Expect = 4e-04
 Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 2/35 (5%)

Query: 118 KPPRG--ILLYGPPGTGKTLIARAVANETGAFFFL 150
           + P+G  IL+ G PGTGKT +A  +A E   F  L
Sbjct: 1   EQPKGINILITGTPGTGKTSMAEMIAAELDGFQHL 35

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

 Score = 37.8 bits (86), Expect = 4e-04
 Identities = 11/58 (18%), Positives = 23/58 (39%)

Query: 121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEADKN 178
              L+ G   TGK+ I +   NE    +  ++  +   +     +  L +  +E +K 
Sbjct: 30  PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKL 87

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

 Score = 37.0 bits (84), Expect = 6e-04
 Identities = 12/32 (37%), Positives = 17/32 (53%)

Query: 121 RGILLYGPPGTGKTLIARAVANETGAFFFLIN 152
           R I L GP G GK+ I R +A +    F+  +
Sbjct: 3   RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD 34

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 36.6 bits (84), Expect = 0.001
 Identities = 21/128 (16%), Positives = 32/128 (25%), Gaps = 34/128 (26%)

Query: 86  DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 145
            D+ G    L  +   + L             +     L  G  G GKT IAR +A    
Sbjct: 12  ADVVGQEHVLTALANGLSLG------------RIHHAYLFSGTRGVGKTSIARLLAKGLN 59

Query: 146 AFFFLINGPEIMSKLAGESESN------------------LRKAFEEADKNSPS----II 183
               +   P  +     E E                     R   +            + 
Sbjct: 60  CETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVY 119

Query: 184 FIDELDAI 191
            IDE+  +
Sbjct: 120 LIDEVHML 127

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.3 bits (82), Expect = 0.001
 Identities = 20/105 (19%), Positives = 33/105 (31%), Gaps = 17/105 (16%)

Query: 86  DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 145
           + +    +    +K + + P   P L            LLYGP GTGK     A+     
Sbjct: 11  NALSHNEELTNFLKSLSDQPRDLPHL------------LLYGPNGTGKKTRCMAL----- 53

Query: 146 AFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSIIFIDELDA 190
                  G   +     +  +   +  E    +SP  + I   D 
Sbjct: 54  LESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDM 98

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]} Length = 192

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

 Score = 35.4 bits (80), Expect = 0.002
 Identities = 6/39 (15%), Positives = 16/39 (41%)

Query: 121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK 159
           + + + G   +GK+++   +A           G E + +
Sbjct: 8   KTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFVFE 46

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]} Length = 268

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]

 Score = 35.8 bits (82), Expect = 0.002
 Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 12/86 (13%)

Query: 118 KPPRGILLYGPPGTGKTLIARAVA------------NETGAFFFLINGPEIMSKLAGESE 165
           +     LL G  G GKT IA  +A             +   +   I      +K  G+ E
Sbjct: 37  RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE 96

Query: 166 SNLRKAFEEADKNSPSIIFIDELDAI 191
              +   ++ ++++ SI+FIDE+  I
Sbjct: 97  KRFKALLKQLEQDTNSILFIDEIHTI 122

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.8 bits (79), Expect = 0.003
 Identities = 9/52 (17%), Positives = 18/52 (34%)

Query: 119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 170
            P  ++  G PG GK+   +      G      +      +     ++ LR+
Sbjct: 13  NPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVSSCQAALRQ 64

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

 Score = 34.9 bits (79), Expect = 0.003
 Identities = 11/27 (40%), Positives = 18/27 (66%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFF 149
           ILL G PG GKT + + +A+++G  + 
Sbjct: 7   ILLTGTPGVGKTTLGKELASKSGLKYI 33

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

 Score = 34.5 bits (78), Expect = 0.003
 Identities = 9/27 (33%), Positives = 12/27 (44%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFF 149
           I + G  G G T + R +A   G  F 
Sbjct: 5   IFMVGARGCGMTTVGRELARALGYEFV 31

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

 Score = 34.6 bits (78), Expect = 0.003
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFF 149
            +L G  G+GK+ +A  VA++  A F 
Sbjct: 9   YVLMGVSGSGKSAVASEVAHQLHAAFL 35

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

 Score = 34.7 bits (78), Expect = 0.004
 Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 2/34 (5%)

Query: 118 KPPRG--ILLYGPPGTGKTLIARAVANETGAFFF 149
           +  +G  I L G   +GK  IARA+         
Sbjct: 2   RATQGFTIFLTGYMNSGKDAIARALQVTLNQQGG 35

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

 Score = 34.2 bits (77), Expect = 0.004
 Identities = 6/28 (21%), Positives = 14/28 (50%)

Query: 123 ILLYGPPGTGKTLIARAVANETGAFFFL 150
            ++ GP G GK+   + +A +     ++
Sbjct: 5   YIITGPAGVGKSTTCKRLAAQLDNSAYI 32

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

 Score = 34.1 bits (77), Expect = 0.004
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 121 RGILLYGPPGTGKTLIARAVANETGAFFF 149
           + I+  G  G+GK+ +ARA+A +    F 
Sbjct: 1   KNIVFIGFMGSGKSTLARALAKDLDLVFL 29

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	197
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.94
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.93
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.93
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.91
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.77
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.77
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.71
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.65
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.65
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.53
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.5
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.49
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.45
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.42
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.41
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.38
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.34
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.32
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.3
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.27
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.23
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.21
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.21
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.2
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.1
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.07
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.04
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.03
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.03
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.01
d1e32a3	94	Membrane fusion atpase p97 domain 2, P97-Nc {Mouse	98.99
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.77
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.73
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.64
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.53
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.5
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.43
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.43
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	98.37
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.34
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	98.32
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	98.3
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	98.29
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	98.24
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	98.22
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.22
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.19
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	98.19
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	98.18
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	98.11
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	98.09
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	98.07
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	98.07
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.04
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	98.04
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.04
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	98.02
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	98.02
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	98.01
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.99
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.99
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.97
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.95
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.95
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.94
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.94
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.93
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.93
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.93
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.92
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.91
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.9
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.88
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.87
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.86
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.84
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.79
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.75
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.73
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.7
d1okkd2	207	GTPase domain of the signal recognition particle r	97.7
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.67
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.64
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.6
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	97.59
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.58
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.51
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.5
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.48
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.41
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.37
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	97.32
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.28
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	97.26
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	97.25
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	97.25
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.25
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.15
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.15
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	97.14
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.1
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	97.08
d1cz5a2	94	C-terminal domain of VAT-N, VAT-Nc {Archaeon Therm	97.06
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.02
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	97.0
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.97
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.94
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.92
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	96.85
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.83
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.79
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	96.78
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.77
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.75
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	96.71
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.7
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	96.7
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	96.68
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.68
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.67
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.66
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.65
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.63
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.62
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.58
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.51
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.49
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.49
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.48
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.47
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.45
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.44
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.44
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.43
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.42
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.41
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	96.41
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.36
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.35
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.34
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	96.34
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.33
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.33
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.32
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.32
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.23
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.23
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.22
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	96.21
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.2
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.13
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.11
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.1
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.09
d1nrjb_	209	Signal recognition particle receptor beta-subunit	96.05
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.05
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.0
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	96.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.99
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.97
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.94
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.93
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.92
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.92
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.91
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.89
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.88
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.87
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.87
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.86
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.86
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.84
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.84
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.81
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.79
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.76
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.75
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	95.75
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.74
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.71
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.71
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.7
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.69
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.68
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.67
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.64
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.63
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.63
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.63
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.62
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.56
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.55
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.51
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.51
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.5
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.49
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.49
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	95.47
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.47
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.46
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.46
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.46
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.45
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.45
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.44
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.44
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.35
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.35
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.34
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.31
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.31
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.29
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.24
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	95.23
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.22
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.2
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.2
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.17
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	95.16
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.15
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	95.15
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.11
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.06
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.97
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.96
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.88
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.84
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.75
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	94.66
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.65
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.49
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	94.48
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.42
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	94.4
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.34
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.28
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.19
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	94.16
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	94.1
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.08
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.99
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.99
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.96
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	93.8
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	93.7
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	93.65
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	93.48
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.45
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	93.43
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	93.37
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	93.35
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	93.35
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	93.29
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.27
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.21
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.19
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.17
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	93.02
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	92.88
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	92.62
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	92.51
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	92.37
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	92.34
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	92.33
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	92.05
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	92.02
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	91.99
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.9
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	91.88
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	91.83
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	91.73
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	91.68
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	91.53
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	91.52
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	91.52
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	91.46
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	91.46
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	91.41
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	91.31
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	91.03
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	91.01
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	91.01
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.86
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	90.76
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	90.62
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	90.53
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	90.38
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	89.75
d2zfia1	349	Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090	89.15
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	89.01
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	88.9
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	88.5
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	88.21
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	87.45
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	85.71
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	85.03
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	82.64
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	82.45
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	81.25
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	80.75
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	80.45
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	80.09

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

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

Probab=99.94  E-value=1.2e-26  Score=180.76  Aligned_cols=116  Identities=40%  Similarity=0.764  Sum_probs=107.1

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .|.++|+||+|+++++++|.+.+.. +..++.+..+|...++++||+||||||||++|+++|++++.+++.++++++.+.
T Consensus         3 ~p~~~~~di~G~~~~k~~l~~~i~~-l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~   81 (247)
T d1ixza_           3 APKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM   81 (247)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS
T ss_pred             CCCCcHHHHccHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhc
Confidence            4679999999999999999887765 888899999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      ++|+.+..++.+|+.+...+|+||||||+|.|+++|.
T Consensus        82 ~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~  118 (247)
T d1ixza_          82 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG  118 (247)
T ss_dssp             CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---
T ss_pred             cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCC
Confidence            9999999999999999999999999999999987763

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

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

Probab=99.93  E-value=1.1e-26  Score=181.83  Aligned_cols=116  Identities=43%  Similarity=0.806  Sum_probs=104.8

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      .+.++|+|++|++++++++.+.+.. +.+++.++.+|...++++||+||||||||++|+++|++++.+++.++++++.+.
T Consensus         6 ~~~~t~~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~   84 (256)
T d1lv7a_           6 QIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM   84 (256)
T ss_dssp             SSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTS
T ss_pred             CCCCCHHHHhchHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhc
Confidence            4579999999999999999998765 788899999999999999999999999999999999999999999999999999


Q ss_pred             ccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcccC
Q psy6208         160 LAGESESNLRKAFEEADKNSPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       160 ~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r~  196 (197)
                      |+|+++..++.+|+.|...+||||||||+|.++++|+
T Consensus        85 ~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~  121 (256)
T d1lv7a_          85 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG  121 (256)
T ss_dssp             CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCS
T ss_pred             chhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCC
Confidence            9999999999999999999999999999999998764

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

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

Probab=99.93  E-value=5.3e-26  Score=178.29  Aligned_cols=113  Identities=96%  Similarity=1.474  Sum_probs=109.4

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccC
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG  162 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~  162 (197)
                      ++|+||+|+++++++|++.+..++.+++.+..+|+.+++++|||||||||||++++++|++++.+++.++++.+.+.+.+
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAG   80 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTT
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         163 ESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       163 ~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      ..+..++.+|+.|...+|+||||||+|.++++|
T Consensus        81 ~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r  113 (258)
T d1e32a2          81 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR  113 (258)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHH
T ss_pred             cHHHHHHHHHHHHHhcCCeEEEehhhhhhccCC
Confidence            999999999999999999999999999999876

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

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

Probab=99.91  E-value=4.2e-25  Score=173.73  Aligned_cols=115  Identities=45%  Similarity=0.874  Sum_probs=110.4

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL  160 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~  160 (197)
                      |.++|+||+|+++++++|.+.+..++.+++.+...|+..++++|||||||||||++++++|.+++.+++.++++.+.+.+
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~   81 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW   81 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSC
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhcc
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCccHHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         161 AGESESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       161 ~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      .+..+..++.+|..|....||||+|||+|.++.+|
T Consensus        82 ~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~  116 (265)
T d1r7ra3          82 FGESEANVREIFDKARQAAPCVLFFDELDSIAKAR  116 (265)
T ss_dssp             TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHH
T ss_pred             ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccC
Confidence            99999999999999999999999999999998765

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.77  E-value=1.8e-19  Score=144.08  Aligned_cols=110  Identities=29%  Similarity=0.404  Sum_probs=88.1

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhh-CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh--hhccCc
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAI-GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM--SKLAGE  163 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~-~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~--~~~~~~  163 (197)
                      .++|++++++.+..++..++.+....... .-.++.++||+||||||||.||+++|+.++.+++.++++++.  +.+.+.
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~   94 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeee
Confidence            48999999999998886543332222211 013678999999999999999999999999999999999997  446788


Q ss_pred             cHHHHHHHHHHHhcC-----CCeEEEEcccCccCcccC
Q psy6208         164 SESNLRKAFEEADKN-----SPSIIFIDELDAIAPKRE  196 (197)
Q Consensus       164 ~~~~~~~~~~~a~~~-----~~~vl~lDeid~l~~~r~  196 (197)
                      .+..++.+|..+...     +|+||||||||.+++++.
T Consensus        95 ~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~  132 (309)
T d1ofha_          95 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGE  132 (309)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSS
T ss_pred             ccccccccchhhhcccccccCCceEEehhhhhhhhhcc
Confidence            888899999887542     479999999999998764

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.77  E-value=3.1e-19  Score=138.38  Aligned_cols=109  Identities=24%  Similarity=0.358  Sum_probs=81.0

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhccCc
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE  163 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~~~  163 (197)
                      -.+.|+|.++.++.+.+.........   +.....++.++||+||||||||++|+++|++++.+++.+++++....+.+.
T Consensus         7 ~~~~~i~~~~~i~~i~~~~~~~~~~~---~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~   83 (246)
T d1d2na_           7 IMNGIIKWGDPVTRVLDDGELLVQQT---KNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSET   83 (246)
T ss_dssp             CTTCCCCCSHHHHHHHHHHHHHHHHH---HHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHH
T ss_pred             hccCCcCcCHHHHHHHHHHHHHHHHH---hccCCCCCeEEEEECcCCCCHHHHHHHHhhccccccccccccccccccccc
Confidence            34556666665555554444322211   111234567899999999999999999999999999999998876655443


Q ss_pred             c-HHHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         164 S-ESNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       164 ~-~~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      . ...++.+|+.|.+.+|+||||||+|.+.+.+
T Consensus        84 ~~~~~i~~if~~A~~~~p~il~iDEid~l~~~~  116 (246)
T d1d2na_          84 AKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYV  116 (246)
T ss_dssp             HHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCB
T ss_pred             chhhhhhhhhhhhhhcccceeehhhhhhHhhhc
Confidence            3 3568899999999999999999999998765

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.71  E-value=2e-18  Score=137.76  Aligned_cols=88  Identities=17%  Similarity=0.201  Sum_probs=73.3

Q ss_pred             cChhhHhhhCCCCCCceE-EECCCCCcHHHHHHHHHHHhC--CeEEEEechhhhhhccCccHHHHHHHHHHHhcCCCeEE
Q psy6208         107 RHPSLFKAIGVKPPRGIL-LYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESESNLRKAFEEADKNSPSII  183 (197)
Q Consensus       107 ~~~~~~~~~~~~~~~~il-l~G~~GtGKT~la~ala~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl  183 (197)
                      ..+..++.++...+++++ ++||||||||.+|+++|.+++  .+++.++++++.+.|.|+.+..++.+|+.++.  |+||
T Consensus       109 ~~~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~--~~il  186 (321)
T d1w44a_         109 CSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HRVI  186 (321)
T ss_dssp             BCCEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH--CSEE
T ss_pred             cchHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh--ccEE
Confidence            345566666666666755 589999999999999999985  67899999999999999999999999999975  7899


Q ss_pred             EEcccCccCcccC
Q psy6208         184 FIDELDAIAPKRE  196 (197)
Q Consensus       184 ~lDeid~l~~~r~  196 (197)
                      ||||||.+.++|+
T Consensus       187 f~DEid~~~~~r~  199 (321)
T d1w44a_         187 VIDSLKNVIGAAG  199 (321)
T ss_dssp             EEECCTTTC----
T ss_pred             Eeehhhhhccccc
Confidence            9999999999884

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.65  E-value=2.3e-16  Score=120.94  Aligned_cols=98  Identities=27%  Similarity=0.482  Sum_probs=74.0

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      +.+|+|++|++.+++++..++......        -...+++||+||||||||++|+++|++++.++..++++....   
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~--------~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~---   73 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKAR--------KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK---   73 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTS--------SSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCS---
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCcccc---
Confidence            568999999999999999998764221        134678999999999999999999999999999988765522   


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                         ............ ...+++++||+|.+.+.
T Consensus        74 ---~~~~~~~~~~~~-~~~~i~~iDe~~~~~~~  102 (239)
T d1ixsb2          74 ---PGDLAAILANSL-EEGDILFIDEIHRLSRQ  102 (239)
T ss_dssp             ---HHHHHHHHHTTC-CTTCEEEEETGGGCCHH
T ss_pred             ---chhhHHHHHhhc-cCCCeeeeecccccchh
Confidence               112222222222 23579999999998764

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.65  E-value=2.4e-16  Score=120.79  Aligned_cols=97  Identities=22%  Similarity=0.382  Sum_probs=75.0

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhcc
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  161 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~~  161 (197)
                      +-+|++++|++.+++++..++......        -...+++|||||||||||++|+++|++++.++..++.....    
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~~~~--------~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~----   72 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAAKMR--------GEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV----   72 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHHH--------TCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCC----
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccc----
Confidence            458999999999999999998753211        13456899999999999999999999999999988876653    


Q ss_pred             CccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         162 GESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       162 ~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                        ....+...+...  ...+++++||+|.+.+.
T Consensus        73 --~~~~~~~~~~~~--~~~~~~~ide~~~~~~~  101 (238)
T d1in4a2          73 --KQGDMAAILTSL--ERGDVLFIDEIHRLNKA  101 (238)
T ss_dssp             --SHHHHHHHHHHC--CTTCEEEEETGGGCCHH
T ss_pred             --cHHHHHHHHHhh--ccCCchHHHHHHHhhhH
Confidence              223444444443  34579999999998754

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.53  E-value=1.1e-14  Score=110.95  Aligned_cols=104  Identities=28%  Similarity=0.319  Sum_probs=73.5

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC-----CeEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG-----AFFFL  150 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~-----~~~~~  150 (197)
                      +.+...+.+|+|++|++..++++..++..             ...+++||+||||+|||++|+++|++++     ..+++
T Consensus        14 w~~ky~P~~~~diig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e   80 (231)
T d1iqpa2          14 WVEKYRPQRLDDIVGQEHIVKRLKHYVKT-------------GSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLE   80 (231)
T ss_dssp             HHHHTCCCSTTTCCSCHHHHHHHHHHHHH-------------TCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEE
T ss_pred             HHHHhCCCCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeE
Confidence            34556678999999999999999999864             2345799999999999999999999863     46788


Q ss_pred             EechhhhhhccCccHHHHHHHHH--HHhcCCCeEEEEcccCccCcc
Q psy6208         151 INGPEIMSKLAGESESNLRKAFE--EADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~~~~~~~~~~~~~~~~--~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +++++..+...  ..........  ......+.++++||+|.+...
T Consensus        81 ~n~s~~~~~~~--~~~~~~~~~~~~~~~~~~~~iilide~d~~~~~  124 (231)
T d1iqpa2          81 LNASDERGINV--IREKVKEFARTKPIGGASFKIIFLDEADALTQD  124 (231)
T ss_dssp             EETTCHHHHHT--THHHHHHHHHSCCGGGCSCEEEEEETGGGSCHH
T ss_pred             EecCcccchhH--HHHHHHHHHhhhhccCCCceEEeehhhhhcchh
Confidence            88765432211  1111111111  112345789999999988754

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.50  E-value=4.6e-14  Score=108.48  Aligned_cols=119  Identities=21%  Similarity=0.235  Sum_probs=78.5

Q ss_pred             HhhcCCCCcccccCcHHHHHHHHHHHHhcccChh----hHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208          77 EEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPS----LFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus        77 ~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~----~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      -+...+.+|++++|++..+++|.+++........    .....+....++++|+||||||||++|+++|++++..++.++
T Consensus         5 ~eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~   84 (253)
T d1sxja2           5 TVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQN   84 (253)
T ss_dssp             HHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEEC
T ss_pred             ccCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccc
Confidence            3456778999999999999999999875321111    111223345567999999999999999999999999999998


Q ss_pred             chhhhhhcc---------CccH---HHHHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         153 GPEIMSKLA---------GESE---SNLRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       153 ~~~~~~~~~---------~~~~---~~~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +++..+...         ....   ..............+.++++||+|.+....
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~  139 (253)
T d1sxja2          85 ASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD  139 (253)
T ss_dssp             TTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS
T ss_pred             cccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccch
Confidence            876532210         0000   000000001122346799999999987654

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.49  E-value=4.3e-14  Score=106.79  Aligned_cols=104  Identities=20%  Similarity=0.287  Sum_probs=70.8

Q ss_pred             hcCCCCcccc-cC--cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208          79 ASNAVGYDDI-GG--CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus        79 ~~~~~~~~~i-~g--~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      +++.++|+++ +|  +..+...+++++..+           -....+++||||+|+|||||++|+|++.   +..+++++
T Consensus         3 ln~~~tFdnF~vg~~N~~a~~~~~~~~~~~-----------~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~   71 (213)
T d1l8qa2           3 LNPKYTLENFIVGEGNRLAYEVVKEALENL-----------GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS   71 (213)
T ss_dssp             CCTTCCSSSCCCCTTTHHHHHHHHHHHHTT-----------TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCCChhhccCCCcHHHHHHHHHHHHhCc-----------CCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec
Confidence            4678999995 34  455566666666543           1223459999999999999999999987   67888999


Q ss_pred             chhhhhhccCccHHH-HHHHHHHHhcCCCeEEEEcccCccCccc
Q psy6208         153 GPEIMSKLAGESESN-LRKAFEEADKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       153 ~~~~~~~~~~~~~~~-~~~~~~~a~~~~~~vl~lDeid~l~~~r  195 (197)
                      +.++...+....... ....++.. . ..++|+|||+|.+..+.
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~-~-~~dll~iDDi~~i~~~~  113 (213)
T d1l8qa2          72 ADDFAQAMVEHLKKGTINEFRNMY-K-SVDLLLLDDVQFLSGKE  113 (213)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHH-H-TCSEEEEECGGGGTTCH
T ss_pred             hHHHHHHHHHHHHccchhhHHHHH-h-hccchhhhhhhhhcCch
Confidence            887765543222211 12222222 2 36799999999998754

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.45  E-value=5.2e-14  Score=106.69  Aligned_cols=100  Identities=25%  Similarity=0.344  Sum_probs=68.6

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC-----eEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFL  150 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~-----~~~~  150 (197)
                      +.+...+-+++|++|+++.++.++.++..             ....++||+||||+|||++++++|++++.     .+..
T Consensus         4 w~ekyrP~~~~divg~~~~~~~L~~~i~~-------------~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e   70 (227)
T d1sxjc2           4 WVEKYRPETLDEVYGQNEVITTVRKFVDE-------------GKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLE   70 (227)
T ss_dssp             HHHHTCCSSGGGCCSCHHHHHHHHHHHHT-------------TCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEE
T ss_pred             hhhhhCCCCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEE
Confidence            34556778999999999999999999864             23346999999999999999999998742     2455


Q ss_pred             EechhhhhhccCccHHHHHHHHH-HH-----hcCCCeEEEEcccCccCcc
Q psy6208         151 INGPEIMSKLAGESESNLRKAFE-EA-----DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~~~~~~~~~~~~~~~~-~a-----~~~~~~vl~lDeid~l~~~  194 (197)
                      .++++..+.      ........ ..     ......+++|||+|.+...
T Consensus        71 ~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~~  114 (227)
T d1sxjc2          71 LNASDDRGI------DVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNA  114 (227)
T ss_dssp             ECTTSCCSH------HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHH
T ss_pred             ecccccCCe------eeeecchhhccccccccCCCeEEEEEeccccchhh
Confidence            555443211      11111111 11     1233469999999998754

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.42  E-value=3.8e-13  Score=101.84  Aligned_cols=100  Identities=18%  Similarity=0.247  Sum_probs=72.3

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCC-----eEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFL  150 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~-----~~~~  150 (197)
                      +.+...+-+++|++|+++.++++++++..             ....++||+||||+|||++|+.++++++.     .++.
T Consensus         5 w~eKyrP~~~~d~ig~~~~~~~L~~~~~~-------------~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~   71 (224)
T d1sxjb2           5 WVEKYRPQVLSDIVGNKETIDRLQQIAKD-------------GNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLE   71 (224)
T ss_dssp             HHHHTCCSSGGGCCSCTHHHHHHHHHHHS-------------CCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEE
T ss_pred             hHhHhCCCCHHHhcCCHHHHHHHHHHHHc-------------CCCCeEEEECCCCCCchhhHHHHHHHHhcccccccccc
Confidence            45567788999999999999999999864             23456999999999999999999998753     4667


Q ss_pred             EechhhhhhccCccHHHHHHHHHHHh-------cCCCeEEEEcccCccCcc
Q psy6208         151 INGPEIMSKLAGESESNLRKAFEEAD-------KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       151 v~~~~~~~~~~~~~~~~~~~~~~~a~-------~~~~~vl~lDeid~l~~~  194 (197)
                      +++++..+      ...+...+....       .....++++||+|.+...
T Consensus        72 ~n~~~~~~------~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~  116 (224)
T d1sxjb2          72 LNASDDRG------IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAG  116 (224)
T ss_dssp             ECTTSCCS------HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHH
T ss_pred             ccccccCC------ceehhhHHHHHHHhhccCCCcceEEEEEecccccchh
Confidence            77655421      222222222211       123569999999998764

>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=99.41  E-value=6.7e-13  Score=98.16  Aligned_cols=98  Identities=23%  Similarity=0.421  Sum_probs=79.6

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEEec
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLING  153 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v~~  153 (197)
                      .++.++|.++.++++.+.+..             ....+++|.||||+|||.+++.+|...          +.+++.++.
T Consensus        20 ~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~   86 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CCCCCcCcHHHHHHHHHHHhc-------------cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            456789999999999888764             356689999999999999999999864          578999999


Q ss_pred             hhhhhh--ccCccHHHHHHHHHHHhcC-CCeEEEEcccCccCcc
Q psy6208         154 PEIMSK--LAGESESNLRKAFEEADKN-SPSIIFIDELDAIAPK  194 (197)
Q Consensus       154 ~~~~~~--~~~~~~~~~~~~~~~a~~~-~~~vl~lDeid~l~~~  194 (197)
                      ..+...  +.|+.+..+..+++.+... ...||||||++.|...
T Consensus        87 ~~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~  130 (195)
T d1jbka_          87 GALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGA  130 (195)
T ss_dssp             HHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT-
T ss_pred             HHHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcC
Confidence            998754  4566778888888776543 3579999999999764

>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=99.38  E-value=1.7e-12  Score=100.72  Aligned_cols=99  Identities=25%  Similarity=0.417  Sum_probs=81.8

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEEe
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLIN  152 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v~  152 (197)
                      -.++.++|.++.++++.+.+..             ...++++|.||||+|||.+++.+|...          +..++.++
T Consensus        15 ~~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~   81 (268)
T d1r6bx2          15 GGIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD   81 (268)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECC
T ss_pred             CCCCcccChHHHHHHHHHHHhc-------------CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEee
Confidence            3566789999999999998864             356789999999999999999999864          56899999


Q ss_pred             chhhhh--hccCccHHHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         153 GPEIMS--KLAGESESNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       153 ~~~~~~--~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ...+..  .+.|+.+..+..+++.+......|+||||++.|...
T Consensus        82 ~~~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~  125 (268)
T d1r6bx2          82 IGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGA  125 (268)
T ss_dssp             CC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTS
T ss_pred             echHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcC
Confidence            988885  567888999999999988877889999999999754

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.34  E-value=2e-12  Score=98.85  Aligned_cols=98  Identities=19%  Similarity=0.283  Sum_probs=69.0

Q ss_pred             hcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCe-----------
Q psy6208          79 ASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----------  147 (197)
Q Consensus        79 ~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~-----------  147 (197)
                      ...+-+|+|++|++..++.+..++...            ..++.+||+||||+|||++|+++++.++..           
T Consensus         5 KyrP~~~~dlig~~~~~~~L~~~i~~~------------~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~   72 (239)
T d1njfa_           5 KWRPQTFADVVGQEHVLTALANGLSLG------------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVC   72 (239)
T ss_dssp             HTCCSSGGGSCSCHHHHHHHHHHHHTT------------CCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCS
T ss_pred             hhCCCCHHHccChHHHHHHHHHHHHcC------------CCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccc
Confidence            456779999999999999999988642            345679999999999999999999887322           


Q ss_pred             -------------EEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcccCccCcc
Q psy6208         148 -------------FFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDELDAIAPK  194 (197)
Q Consensus       148 -------------~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDeid~l~~~  194 (197)
                                   ++.++....      .....++.+.+.+..    +...++||||+|.|...
T Consensus        73 ~~~~~i~~~~~~~~~~~~~~~~------~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~  130 (239)
T d1njfa_          73 DNCREIEQGRFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRH  130 (239)
T ss_dssp             HHHHHHHHTCCTTEEEEETTCS------SSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHH
T ss_pred             hHHHHHHcCCCCeEEEecchhc------CCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHH
Confidence                         223332111      122345555554422    33469999999998653

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.32  E-value=9.5e-13  Score=99.91  Aligned_cols=104  Identities=23%  Similarity=0.345  Sum_probs=68.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh------CCeEEEE
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET------GAFFFLI  151 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~------~~~~~~v  151 (197)
                      +...+.+|++++|++..++.++.++..             ...++++|+||||+|||++++++++++      ......+
T Consensus         4 ~ky~P~~~~diig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~   70 (237)
T d1sxjd2           4 EKYRPKNLDEVTAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILEL   70 (237)
T ss_dssp             HHTCCSSTTTCCSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEE
T ss_pred             hhhCCCCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhhe
Confidence            456678999999999999999888753             233469999999999999999999986      4556666


Q ss_pred             echhhhhhc-cCccHHHH---------HHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         152 NGPEIMSKL-AGESESNL---------RKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       152 ~~~~~~~~~-~~~~~~~~---------~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      ++....... ....-+..         .............+++|||+|.+...
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~  123 (237)
T d1sxjd2          71 NASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTAD  123 (237)
T ss_dssp             CSSSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHH
T ss_pred             eccccccchHHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHH
Confidence            654332111 00000000         01112222234469999999998753

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.30  E-value=2.3e-12  Score=102.62  Aligned_cols=105  Identities=20%  Similarity=0.320  Sum_probs=72.7

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh-----c
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK-----L  160 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~-----~  160 (197)
                      ..++|++.+++.+...+........   . .-.+...+||.||||+|||.||+++|..++.+++.++++++...     +
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~---~-~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l   97 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLG---H-EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRL   97 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCS---C-TTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCC---C-CCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhh
Confidence            3589999999999998864321100   0 01233468999999999999999999999999999999887532     2


Q ss_pred             cCcc----HHHH-HHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         161 AGES----ESNL-RKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       161 ~~~~----~~~~-~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      .|..    .... ..+.........+|+++||+|...++
T Consensus        98 ~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~  136 (315)
T d1r6bx3          98 IGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPD  136 (315)
T ss_dssp             CCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHH
T ss_pred             cccCCCccccccCChhhHHHHhCccchhhhcccccccch
Confidence            2321    1111 11233344566789999999988753

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=99.27  E-value=7.6e-12  Score=101.30  Aligned_cols=107  Identities=25%  Similarity=0.382  Sum_probs=71.1

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhh------------------HhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSL------------------FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~------------------~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      .|+|++++++.+..++....++...                  .... -.++.++||.||+|+|||.+|+++|..++.++
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~-~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~   96 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEV-ELSKSNILLIGPTGSGKTLMAQTLAKHLDIPI   96 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHT-TCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccc-cCCCcceeeeCCCCccHHHHHHHHHhhcccce
Confidence            5899999999998777422111000                  0011 24678899999999999999999999999999


Q ss_pred             EEEechhhhhh-ccCc-cHHHHHHHHHHH----hcCCCeEEEEcccCccCcc
Q psy6208         149 FLINGPEIMSK-LAGE-SESNLRKAFEEA----DKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       149 ~~v~~~~~~~~-~~~~-~~~~~~~~~~~a----~~~~~~vl~lDeid~l~~~  194 (197)
                      +.++++++... |.|. ....+..+...+    .....+++++||++...+.
T Consensus        97 ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~  148 (364)
T d1um8a_          97 AISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRL  148 (364)
T ss_dssp             EEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC---
T ss_pred             eehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccc
Confidence            99999888642 3332 233455554433    2334679999999997754

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.23  E-value=6.2e-11  Score=90.83  Aligned_cols=111  Identities=24%  Similarity=0.250  Sum_probs=75.4

Q ss_pred             HHhhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEE
Q psy6208          76 EEEASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLI  151 (197)
Q Consensus        76 ~~~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v  151 (197)
                      ...+++.+..+.++|.+.+++++.+++...+..+.       ..+.+++|+||||||||++++++++.+    +..++++
T Consensus         6 ~~~l~~~y~p~~l~~Re~ei~~l~~~l~~~l~~~~-------~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~   78 (276)
T d1fnna2           6 DSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYI   78 (276)
T ss_dssp             GGGGSTTCCCSCCTTCHHHHHHHHHHHHHHHHSTT-------SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEE
T ss_pred             cccCCCCCCCCCCCCHHHHHHHHHHHHHHHHhCCC-------CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEe
Confidence            35677888889999999999999999876544332       456789999999999999999999987    4567777


Q ss_pred             echhhhhh----------------ccCccHHHH-HHHHHHH-hcCCCeEEEEcccCccCc
Q psy6208         152 NGPEIMSK----------------LAGESESNL-RKAFEEA-DKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       152 ~~~~~~~~----------------~~~~~~~~~-~~~~~~a-~~~~~~vl~lDeid~l~~  193 (197)
                      ++......                ..+.....+ ..+.+.. ......++++|++|.+..
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~  138 (276)
T d1fnna2          79 NGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP  138 (276)
T ss_dssp             ETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCH
T ss_pred             cchhhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhh
Confidence            76433210                011122222 2222222 223467888999988754

>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=99.21  E-value=4e-11  Score=97.62  Aligned_cols=99  Identities=24%  Similarity=0.412  Sum_probs=70.7

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----------CCeEEEEe
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----------GAFFFLIN  152 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----------~~~~~~v~  152 (197)
                      -.++-++|.+..++++.+.+..             ...++++|.|+||+|||.++..+|...          +..++.++
T Consensus        19 g~ld~~~gr~~ei~~~~~~L~r-------------~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld   85 (387)
T d1qvra2          19 GKLDPVIGRDEEIRRVIQILLR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQ   85 (387)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHHC-------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEEC
T ss_pred             CCCCCCcCcHHHHHHHHHHHhc-------------CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEee
Confidence            3467789999999999998875             456678999999999999999998764          56799999


Q ss_pred             chhhhh--hccCccHHHHHHHHHHHhcCC-CeEEEEcccCccCcc
Q psy6208         153 GPEIMS--KLAGESESNLRKAFEEADKNS-PSIIFIDELDAIAPK  194 (197)
Q Consensus       153 ~~~~~~--~~~~~~~~~~~~~~~~a~~~~-~~vl~lDeid~l~~~  194 (197)
                      ...+..  .+.|+.+..+..++..+.... +.||||||+|.|.+.
T Consensus        86 ~~~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~  130 (387)
T d1qvra2          86 MGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGA  130 (387)
T ss_dssp             C-----------CHHHHHHHHHHHHHTTCSSEEEEECCC------
T ss_pred             HhhhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcC
Confidence            988875  456888888888888876653 678999999999753

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.21  E-value=1.6e-11  Score=97.58  Aligned_cols=104  Identities=22%  Similarity=0.340  Sum_probs=67.8

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh----
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK----  159 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~----  159 (197)
                      .+.|++.+++.+.+.+........   . .-.+...++|+||+|+|||.+|+++|..+   +.+++.++++++...    
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~---~-~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~   99 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLK---D-PNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVS   99 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCS---C-SSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGG
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCC---C-CCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhh
Confidence            489999999999888765321100   0 01233357899999999999999999987   678999998776532    


Q ss_pred             -ccCccHHH-----HHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 -LAGESESN-----LRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 -~~~~~~~~-----~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                       +.|.....     -..+.+...++..+|+++||||...++
T Consensus       100 ~L~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~~~~  140 (315)
T d1qvra3         100 RLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPD  140 (315)
T ss_dssp             GC--------------CHHHHHHHCSSEEEEESSGGGSCHH
T ss_pred             hhcCCCCCCcCcccCChHHHHHHhCCCcEEEEehHhhcCHH
Confidence             22222111     112333344555699999999988753

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.20  E-value=1.7e-11  Score=93.69  Aligned_cols=55  Identities=22%  Similarity=0.371  Sum_probs=45.4

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +...+.+|++++|+++.++.++.++...            ....+++|+||||+|||++|+++|+++
T Consensus         3 eky~P~~~~diig~~~~~~~L~~~~~~~------------~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           3 DKYRPKSLNALSHNEELTNFLKSLSDQP------------RDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             TTTCCCSGGGCCSCHHHHHHHHTTTTCT------------TCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             cccCCCCHHHccCcHHHHHHHHHHHHcC------------CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            3456789999999999999888776432            234579999999999999999999986

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=99.10  E-value=5e-11  Score=91.71  Aligned_cols=68  Identities=25%  Similarity=0.386  Sum_probs=51.8

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  159 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~  159 (197)
                      +++++..+.+...+.+.++.....         +...|.+|||+||||||||++|+++|.+++.+++.++++++...
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~~~   71 (273)
T d1gvnb_           4 VNFTDKQFENRLNDNLEELIQGKK---------AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQ   71 (273)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHTTCC---------CCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHHTT
T ss_pred             cccChHHHHHHHHHHHHHHHhccc---------CCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHHHH
Confidence            456666666666666655544321         23567889999999999999999999999999999998877543

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.07  E-value=2.1e-10  Score=94.87  Aligned_cols=89  Identities=26%  Similarity=0.356  Sum_probs=62.1

Q ss_pred             cccCcHHHHHHHHHHHHhcccChhhHhhh-CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhh-ccCc-
Q psy6208          87 DIGGCRKQLAQIKEMVELPLRHPSLFKAI-GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK-LAGE-  163 (197)
Q Consensus        87 ~i~g~~~~~~~l~~~v~~~~~~~~~~~~~-~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~-~~~~-  163 (197)
                      -++|++++++.+.-++....++...-... .--.++||||.||||||||.||+.+|+.++.||+.++|..+... |+|. 
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTeaGYvG~D   94 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCCC
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeeecceeecc
Confidence            38999999999988886543221111111 01246799999999999999999999999999999999988653 4444 


Q ss_pred             cHHHHHHHHHHH
Q psy6208         164 SESNLRKAFEEA  175 (197)
Q Consensus       164 ~~~~~~~~~~~a  175 (197)
                      .+..++.+.+.+
T Consensus        95 Vesii~~L~~~a  106 (443)
T d1g41a_          95 VDSIIRDLTDSA  106 (443)
T ss_dssp             THHHHHHHHHHH
T ss_pred             hhHHHHHHHHHH
Confidence            344555555443

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=99.04  E-value=2.1e-10  Score=92.59  Aligned_cols=78  Identities=26%  Similarity=0.301  Sum_probs=54.3

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhhhhc-cCccHHHHHHHHHHH------hcCCCeEEEEccc
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL-AGESESNLRKAFEEA------DKNSPSIIFIDEL  188 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~~~~-~~~~~~~~~~~~~~a------~~~~~~vl~lDei  188 (197)
                      |.+..++++|+||||||||++|+++|+.++.+++.+++++..+.+ .+........+|+.+      ....|+++++||+
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~~l~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~Dei  229 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNL  229 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHHHGGGTTCSCEEETTCCCSTTTTTTCCCCSHHHHH
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHHHHHhHHHHHHHHHHHHHHhhhhccCCCCeEEEehH
Confidence            456778999999999999999999999999999999988765443 111111111222222      2234677888888


Q ss_pred             CccCc
Q psy6208         189 DAIAP  193 (197)
Q Consensus       189 d~l~~  193 (197)
                      |.|..
T Consensus       230 D~l~~  234 (362)
T d1svma_         230 DNLRD  234 (362)
T ss_dssp             HTTHH
T ss_pred             hhccc
Confidence            87643

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.03  E-value=4.9e-11  Score=95.19  Aligned_cols=51  Identities=25%  Similarity=0.322  Sum_probs=41.0

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.+.|.+|.|++.+++.+.-.+..+             ...++||.||||||||++|++++..+
T Consensus         2 ~~~~f~~I~Gq~~~kral~laa~~~-------------~~h~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_           2 PVFPFSAIVGQEDMKLALLLTAVDP-------------GIGGVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHCG-------------GGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             CCCChhhccCcHHHHHHHHHHHhcc-------------CCCeEEEECCCCccHHHHHHHHHHhC
Confidence            4578999999999888776544321             23479999999999999999999876

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.03  E-value=4.6e-10  Score=86.29  Aligned_cols=111  Identities=14%  Similarity=0.081  Sum_probs=70.3

Q ss_pred             hhcCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCC---CceEEECCCCCcHHHHHHHHHHHh---------C
Q psy6208          78 EASNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPP---RGILLYGPPGTGKTLIARAVANET---------G  145 (197)
Q Consensus        78 ~~~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~---~~ill~G~~GtGKT~la~ala~~~---------~  145 (197)
                      .+.+.+..+.+.|.+.+++++.+++.......       ..++   ..++|+||||||||++++++++.+         .
T Consensus         8 ~l~~~~~P~~~~~Re~e~~~l~~~l~~~~~~~-------~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~   80 (287)
T d1w5sa2           8 VFDENYIPPELRVRRGEAEALARIYLNRLLSG-------AGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLT   80 (287)
T ss_dssp             GGSTTCCCSSCSSSCHHHHHHHHHHHHHHHTS-------SCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCC
T ss_pred             hcCCccCCCCCCCHHHHHHHHHHHHHHHHHcC-------CCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCC
Confidence            45667778899999999999988775443221       1111   135778999999999999999876         2


Q ss_pred             CeEEEEechhhhhh----------------ccCccHHHHHHHHHHH--hcCCCeEEEEcccCccCccc
Q psy6208         146 AFFFLINGPEIMSK----------------LAGESESNLRKAFEEA--DKNSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       146 ~~~~~v~~~~~~~~----------------~~~~~~~~~~~~~~~a--~~~~~~vl~lDeid~l~~~r  195 (197)
                      ..+.++++......                ..+.....+...+...  ....+.++++||+|.+....
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~  148 (287)
T d1w5sa2          81 VKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSP  148 (287)
T ss_dssp             EEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCT
T ss_pred             ceeeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEecccc
Confidence            45566665443211                1123333333333322  23456789999999886543

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.01  E-value=5.5e-10  Score=85.58  Aligned_cols=93  Identities=24%  Similarity=0.302  Sum_probs=65.3

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh-----
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-----  159 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~-----  159 (197)
                      .+|.+..++++.+.+...           .....+|+|+|++||||+++|++++...   ..+++.++|..+...     
T Consensus         2 ~v~~S~~~~~~~~~~~~~-----------a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~   70 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKI-----------SCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAE   70 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHH-----------TTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHH
T ss_pred             eEecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHH
Confidence            578888888888887754           3556789999999999999999999876   447888888655322     


Q ss_pred             ccCccH-------HHHHHHHHHHhcCCCeEEEEcccCccCcc
Q psy6208         160 LAGESE-------SNLRKAFEEADKNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       160 ~~~~~~-------~~~~~~~~~a~~~~~~vl~lDeid~l~~~  194 (197)
                      +.|...       ....++|+.+..   .+|||||||.|+..
T Consensus        71 lfg~~~~~~~~~~~~~~g~l~~a~g---GtL~l~~i~~L~~~  109 (247)
T d1ny5a2          71 LFGYEKGAFTGAVSSKEGFFELADG---GTLFLDEIGELSLE  109 (247)
T ss_dssp             HHCBCTTSSTTCCSCBCCHHHHTTT---SEEEEESGGGCCHH
T ss_pred             hcCcccCCcCCcccccCCHHHccCC---CEEEEeChHhCCHH
Confidence            111100       011234555543   47999999999865

>d1e32a3 d.31.1.1 (A:107-200) Membrane fusion atpase p97 domain 2, P97-Nc {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Cdc48 domain 2-like
superfamily: Cdc48 domain 2-like
family: Cdc48 domain 2-like
domain: Membrane fusion atpase p97 domain 2, P97-Nc
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.99  E-value=4.9e-10  Score=71.94  Aligned_cols=71  Identities=80%  Similarity=1.440  Sum_probs=65.7

Q ss_pred             CcchhhHHHHhHHHhhhcCcccccCCEEEEecCcceEEEEEEEecCCCeEEEcCceEEEEcCCCCcchhHH
Q psy6208           7 GEMSNLFEVYLKPYFLEAYRPVHKDDLFIVRGGMRAVEFKIVDTDPAPYCIVAADTVIHCEGDPIKREEEE   77 (197)
Q Consensus         7 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (197)
                      ....+++..|+++||.++++++..|+.+.+.+.++.++|+|+.++|...+++.+.|.+.+.++|+.++..+
T Consensus        19 glsgnlf~~ylkPYf~~~yrPv~~gD~f~v~g~~r~VEFKVv~~dp~~~~iV~~~T~I~~eGepi~Red~e   89 (94)
T d1e32a3          19 GITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEE   89 (94)
T ss_dssp             TCBSCHHHHTHHHHHTTSCEEEETTCEEEEEETTEEEEEEEEEESSSSEEEECTTCCCBCCSCCBCCCTTS
T ss_pred             CCCccHHHHHHhHHHhhcCccccCCCEEEEccCCeeEEEEEEeecCCCceEEcCCCEEEeCCcccchhhhh
Confidence            34568999999999999999999999999999999999999999999999999999999999999876544

>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=98.77  E-value=4.8e-08  Score=74.31  Aligned_cols=58  Identities=19%  Similarity=0.206  Sum_probs=47.4

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      ...-+++.|.++.++++.+.                 ..+.++|+||+|+|||+|++.+++..+..+.++++...
T Consensus         8 ~~~~~~f~GR~~el~~l~~~-----------------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~   65 (283)
T d2fnaa2           8 KDNRKDFFDREKEIEKLKGL-----------------RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKF   65 (283)
T ss_dssp             CCSGGGSCCCHHHHHHHHHT-----------------CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             CCChhhCCChHHHHHHHHhc-----------------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEeccc
Confidence            34568899999998887642                 24579999999999999999999999988888876543

>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=98.73  E-value=4.2e-08  Score=72.83  Aligned_cols=93  Identities=9%  Similarity=0.102  Sum_probs=55.6

Q ss_pred             CcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEE--------EEechhhhhhc-
Q psy6208          90 GCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFF--------LINGPEIMSKL-  160 (197)
Q Consensus        90 g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~--------~v~~~~~~~~~-  160 (197)
                      .++...+++.+.+..-            ..+.++||+||+|+|||++|+.+|+.+.+.-.        ..+|..+.... 
T Consensus         6 w~~~~~~~l~~~~~~~------------~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~   73 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAG------------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTH   73 (207)
T ss_dssp             GGHHHHHHHHHHHHTT------------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCC
T ss_pred             ccHHHHHHHHHHHHcC------------CcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccc
Confidence            4456666776666532            44667999999999999999999997632100        00111111000 


Q ss_pred             -----------c-CccHHHHHHHHHHHh----cCCCeEEEEcccCccCcc
Q psy6208         161 -----------A-GESESNLRKAFEEAD----KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       161 -----------~-~~~~~~~~~~~~~a~----~~~~~vl~lDeid~l~~~  194 (197)
                                 . .-....++.+.+.+.    .+...|++|||+|.|...
T Consensus        74 ~~~~~~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~  123 (207)
T d1a5ta2          74 PDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDA  123 (207)
T ss_dssp             TTEEEECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHH
T ss_pred             cccchhhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhh
Confidence                       0 012234555555433    244679999999998764

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.64  E-value=2.5e-08  Score=71.46  Aligned_cols=25  Identities=32%  Similarity=0.700  Sum_probs=22.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .|+|.||+|+|||||+++++..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            3899999999999999999988743

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=98.53  E-value=9.1e-08  Score=66.97  Aligned_cols=31  Identities=39%  Similarity=0.639  Sum_probs=28.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +.|+|.||||+||||+++++|.+++.+++..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id~   33 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDS   33 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            4799999999999999999999999988643

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.50  E-value=3.9e-08  Score=70.41  Aligned_cols=38  Identities=16%  Similarity=0.260  Sum_probs=32.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      .+.|+|.|||||||||||++|++.++.+++......+.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~~~~~   44 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFV   44 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTTHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeehHHHh
Confidence            45799999999999999999999999988876655544

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.43  E-value=8.8e-08  Score=70.61  Aligned_cols=72  Identities=7%  Similarity=0.040  Sum_probs=50.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhC------CeEEEEechhhhhhccCccHHHHHHHHHHHhc----CCCeEEEEcc
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETG------AFFFLINGPEIMSKLAGESESNLRKAFEEADK----NSPSIIFIDE  187 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~------~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~----~~~~vl~lDe  187 (197)
                      ..+.+++|+||+|+|||++|..+++...      ..++++....-   .  -.-..++.+.+.+..    +...|++|||
T Consensus        13 ~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~---~--I~Id~IR~i~~~~~~~~~~~~~KviIId~   87 (198)
T d2gnoa2          13 SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE---N--IGIDDIRTIKDFLNYSPELYTRKYVIVHD   87 (198)
T ss_dssp             CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS---C--BCHHHHHHHHHHHTSCCSSSSSEEEEETT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcC---C--CCHHHHHHHHHHHhhCcccCCCEEEEEeC
Confidence            4567899999999999999999998762      23666664311   1  123456666555533    3456999999


Q ss_pred             cCccCcc
Q psy6208         188 LDAIAPK  194 (197)
Q Consensus       188 id~l~~~  194 (197)
                      +|.|...
T Consensus        88 ad~l~~~   94 (198)
T d2gnoa2          88 CERMTQQ   94 (198)
T ss_dssp             GGGBCHH
T ss_pred             ccccchh
Confidence            9998653

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=98.43  E-value=6e-08  Score=68.80  Aligned_cols=32  Identities=34%  Similarity=0.667  Sum_probs=28.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..|+|.|||||||||+|++|++.++.+++.++
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~~i~~~   36 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLKYINVG   36 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCcEEech
Confidence            36899999999999999999999999987654

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=98.37  E-value=4.9e-07  Score=73.43  Aligned_cols=96  Identities=16%  Similarity=0.343  Sum_probs=67.1

Q ss_pred             CCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhC---CeEEEEech-hh
Q psy6208          81 NAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG---AFFFLINGP-EI  156 (197)
Q Consensus        81 ~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~---~~~~~v~~~-~~  156 (197)
                      +..++++++-...+...+++++..              +..-+++.||+|+||||++.++.+..+   .+++.+.-+ +.
T Consensus       133 ~~~~l~~LG~~~~~~~~l~~l~~~--------------~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~  198 (401)
T d1p9ra_         133 TRLDLHSLGMTAHNHDNFRRLIKR--------------PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEF  198 (401)
T ss_dssp             TCCCGGGSCCCHHHHHHHHHHHTS--------------SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCS
T ss_pred             cchhhhhhcccHHHHHHHHHHHhh--------------hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccc
Confidence            345788999888888888887643              345589999999999999999988773   455555422 21


Q ss_pred             hh------hccCccHHHHHHHHHHHhcCCCeEEEEcccCc
Q psy6208         157 MS------KLAGESESNLRKAFEEADKNSPSIIFIDELDA  190 (197)
Q Consensus       157 ~~------~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid~  190 (197)
                      .-      .............++.+.+..|++|++.|+..
T Consensus       199 ~~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd  238 (401)
T d1p9ra_         199 DIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRD  238 (401)
T ss_dssp             CCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCS
T ss_pred             ccCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCC
Confidence            10      01111222456677778888999999999864

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=98.34  E-value=1.2e-07  Score=67.50  Aligned_cols=38  Identities=34%  Similarity=0.466  Sum_probs=33.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      +.-|+|.|||||||||++++++++++.+++.++...+.
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d~~~   41 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDLW   41 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHHHHH
Confidence            34588999999999999999999999999999876553

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=98.32  E-value=3.2e-07  Score=65.05  Aligned_cols=35  Identities=23%  Similarity=0.278  Sum_probs=30.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      ++-|+|+|+||+||||+|++|++.++.+++.++..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~d   37 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVD   37 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEeecc
Confidence            34689999999999999999999999888877643

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=98.30  E-value=1.9e-07  Score=66.30  Aligned_cols=31  Identities=32%  Similarity=0.529  Sum_probs=28.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +|+|.|+||+|||++++++|+.++.+|+..+
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            6899999999999999999999999988654

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=98.29  E-value=2.5e-07  Score=66.12  Aligned_cols=32  Identities=28%  Similarity=0.435  Sum_probs=28.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      ..|+|.|+||+||||+++.+|+.+|.+++..+
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~D   34 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEehh
Confidence            46889999999999999999999999987543

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.24  E-value=3.2e-07  Score=65.16  Aligned_cols=31  Identities=32%  Similarity=0.519  Sum_probs=27.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .|+|.|+||+||||+++.+|+.++.+|+..+
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~~fiD~D   33 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTD   33 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            4778899999999999999999999987644

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=98.22  E-value=4.2e-07  Score=64.34  Aligned_cols=34  Identities=29%  Similarity=0.361  Sum_probs=28.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .++-++|.|+||||||+++++|++.++.+++..+
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            3445788999999999999999999998776544

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=5.3e-07  Score=64.13  Aligned_cols=24  Identities=38%  Similarity=0.708  Sum_probs=22.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ++|+|+||||||||+|+++++..+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            479999999999999999999886

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=98.19  E-value=6.9e-07  Score=63.25  Aligned_cols=30  Identities=43%  Similarity=0.616  Sum_probs=25.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      .+..|+|.||||+||||+++.|+..++...
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~~~~   33 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELDGFQ   33 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHSTTEE
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhCCCc
Confidence            455699999999999999999999987533

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=98.19  E-value=5.9e-07  Score=63.30  Aligned_cols=28  Identities=21%  Similarity=0.427  Sum_probs=25.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      -|+|.||||+||||+|++|+..++..++
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            5899999999999999999999987644

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=98.18  E-value=3.2e-06  Score=66.55  Aligned_cols=70  Identities=19%  Similarity=0.269  Sum_probs=48.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh--CCeEEEEe-chhhhh-------hccCccHHHHHHHHHHHhcCCCeEEEEcccC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET--GAFFFLIN-GPEIMS-------KLAGESESNLRKAFEEADKNSPSIIFIDELD  189 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~--~~~~~~v~-~~~~~~-------~~~~~~~~~~~~~~~~a~~~~~~vl~lDeid  189 (197)
                      ..++++.|++|+|||+++++++...  +..++.+. ..++.-       .+.....-....+++.+.+..|+.|++.|+-
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~pd~iivgEiR  245 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELR  245 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEESCCC
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhccCCCcccCCccC
Confidence            5679999999999999999999877  33455442 223210       1111122245667788888899999999985

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=98.11  E-value=9e-07  Score=64.09  Aligned_cols=36  Identities=14%  Similarity=0.370  Sum_probs=29.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      |..|+|.|||||||||+|+.|++.++..++  +..++.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~i--s~~~~~   38 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHI--SAGDLL   38 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEEC--CHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEE--ehhHHH
Confidence            556999999999999999999999987754  444443

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.09  E-value=3.5e-06  Score=60.28  Aligned_cols=37  Identities=22%  Similarity=0.387  Sum_probs=28.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      +.+.-|++.|+||+||||+|+.++...+..+  ++..++
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~--i~~D~~   48 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVH--VNRDTL   48 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEE--EEHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEE--EchHHH
Confidence            3455689999999999999999988777544  444443

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.07  E-value=1.5e-06  Score=62.98  Aligned_cols=33  Identities=21%  Similarity=0.442  Sum_probs=27.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      +.|.-|+|.||||+||||+|+.||+.+|..++.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            345668999999999999999999999876544

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=98.07  E-value=2.5e-06  Score=63.78  Aligned_cols=77  Identities=29%  Similarity=0.297  Sum_probs=50.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhhc----------------------------cCccH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSKL----------------------------AGESE  165 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~~----------------------------~~~~~  165 (197)
                      +.+..-++|+|+||+|||+++..++...   +..+.+++..+-...+                            .....
T Consensus        23 i~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (242)
T d1tf7a2          23 FFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLE  102 (242)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCHH
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccCCHHHHHHHHHHcCCChHHHhhcCceEEEEeecchhhHH
Confidence            4566779999999999999999998775   5567777642211000                            01112


Q ss_pred             HHHHHHHHHHhcCCCeEEEEcccCccCc
Q psy6208         166 SNLRKAFEEADKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       166 ~~~~~~~~~a~~~~~~vl~lDeid~l~~  193 (197)
                      ..+..+........+.++++|.++.+..
T Consensus       103 ~~~~~i~~~i~~~~~~~vviDs~~~~~~  130 (242)
T d1tf7a2         103 DHLQIIKSEINDFKPARIAIDSLSALAR  130 (242)
T ss_dssp             HHHHHHHHHHHTTCCSEEEEECHHHHTS
T ss_pred             HHHHHHHHHHHhcCCceeeeecchhhhc
Confidence            2334444445667789999999887764

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=98.04  E-value=2.3e-06  Score=61.89  Aligned_cols=32  Identities=28%  Similarity=0.388  Sum_probs=26.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      +..|+|.|||||||||+|+.||+.+|..++.+
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            34578899999999999999999998765443

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=98.04  E-value=1.7e-06  Score=61.82  Aligned_cols=30  Identities=27%  Similarity=0.412  Sum_probs=26.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.||||+||||+|+.||+.+|..++..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~~   31 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceech
Confidence            489999999999999999999998876653

>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=98.04  E-value=1.1e-05  Score=62.00  Aligned_cols=49  Identities=14%  Similarity=0.103  Sum_probs=37.5

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .++.|.+..++++.+.+....          -.....|.|+|..|+|||+||+.+++..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~----------~~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMC----------DLDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHT----------TSSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CceeCcHHHHHHHHHHHHhcc----------CCCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            357789999999988875421          1223457899999999999999998763

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.02  E-value=6.1e-06  Score=60.00  Aligned_cols=34  Identities=26%  Similarity=0.296  Sum_probs=27.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      -|+++|.||+||||+|++|++.+   +.+...++...
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D~   40 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQ   40 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEcccc
Confidence            47899999999999999999877   45555566543

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=98.02  E-value=1.5e-06  Score=61.56  Aligned_cols=27  Identities=33%  Similarity=0.316  Sum_probs=23.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .+..|+|+|+||+||||+|++|+..++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            344588999999999999999999884

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=98.01  E-value=2.9e-06  Score=58.69  Aligned_cols=35  Identities=34%  Similarity=0.433  Sum_probs=26.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      -|+|+|+||+||||+|+.++.... .+..++..++.
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~~-~~~~~~~d~~~   38 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYR   38 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHST-TEEEECHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCC-CCEEechHHHH
Confidence            478999999999999999977653 25556655554

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.99  E-value=1.8e-06  Score=62.00  Aligned_cols=30  Identities=37%  Similarity=0.526  Sum_probs=26.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.|||||||||+++.|++.++...+.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            588999999999999999999998776654

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=97.99  E-value=9.8e-06  Score=61.90  Aligned_cols=77  Identities=23%  Similarity=0.375  Sum_probs=50.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhhh------------c----cCccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK------------L----AGESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~~------------~----~~~~~~~~~~~~~~a~~  177 (197)
                      +....-..|+||||+|||+++..++...   +..+++++.+.-...            +    ....+..+..+-...+.
T Consensus        51 i~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~~  130 (263)
T d1u94a1          51 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS  130 (263)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHH
T ss_pred             ccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHhc
Confidence            3455568999999999999999886554   778888886432111            0    11123333222223344


Q ss_pred             CCCeEEEEcccCccCc
Q psy6208         178 NSPSIIFIDELDAIAP  193 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~  193 (197)
                      ..++++++|-+..+.+
T Consensus       131 ~~~~liViDSi~al~~  146 (263)
T d1u94a1         131 GAVDVIVVDSVAALTP  146 (263)
T ss_dssp             TCCSEEEEECGGGCCC
T ss_pred             CCCCEEEEECcccccc
Confidence            6788999999998875

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.97  E-value=8.9e-06  Score=55.45  Aligned_cols=34  Identities=24%  Similarity=0.265  Sum_probs=26.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      .+..+|.+|+|+|||.++-.++...+..++.+..
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P   41 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNP   41 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHHTTTCCEEEEES
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcC
Confidence            3457999999999999987777777777766654

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.95  E-value=3.5e-06  Score=61.16  Aligned_cols=31  Identities=19%  Similarity=0.322  Sum_probs=26.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      ..-|+|.||||+|||++|+.|++.+|..++.
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            3458899999999999999999999876644

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.95  E-value=1.6e-05  Score=60.90  Aligned_cols=79  Identities=22%  Similarity=0.366  Sum_probs=51.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh-----hc-----------cCccHHHHHHHHHHHhc
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS-----KL-----------AGESESNLRKAFEEADK  177 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~-----~~-----------~~~~~~~~~~~~~~a~~  177 (197)
                      ++.++-..|+||+|+|||+++..++...   +..++|++.+.-++     .+           ....+..+..+-.....
T Consensus        54 ip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~~  133 (268)
T d1xp8a1          54 IPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRS  133 (268)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTT
T ss_pred             ccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHhc
Confidence            3445557899999999999999886554   77889998653221     11           11223333222223344


Q ss_pred             CCCeEEEEcccCccCccc
Q psy6208         178 NSPSIIFIDELDAIAPKR  195 (197)
Q Consensus       178 ~~~~vl~lDeid~l~~~r  195 (197)
                      ..++++++|-+..+.++.
T Consensus       134 ~~~~liIiDSi~al~~r~  151 (268)
T d1xp8a1         134 GAIDVVVVDSVAALTPRA  151 (268)
T ss_dssp             TCCSEEEEECTTTCCCST
T ss_pred             CCCcEEEEecccccccHH
Confidence            568999999999998754

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.94  E-value=3.4e-06  Score=60.54  Aligned_cols=30  Identities=30%  Similarity=0.458  Sum_probs=26.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.||||+||||+|+.||+.++..++..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is~   31 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceeeH
Confidence            478999999999999999999998876653

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.94  E-value=1.6e-05  Score=58.59  Aligned_cols=75  Identities=24%  Similarity=0.346  Sum_probs=47.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhhh----------h------cc----CccHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMS----------K------LA----GESESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~~----------~------~~----~~~~~~~~~~~~~a  175 (197)
                      .+.-++|.||+|+|||+.+-.+|..+   +.++..+++.....          +      +.    .+....+....+.+
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a   87 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAA   87 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHH
Confidence            34557899999999999998888765   56676666533211          0      00    11223344444555


Q ss_pred             hcCCCeEEEEcccCccCc
Q psy6208         176 DKNSPSIIFIDELDAIAP  193 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l~~  193 (197)
                      .....++|+||=..+...
T Consensus        88 ~~~~~d~ilIDTaGr~~~  105 (211)
T d2qy9a2          88 KARNIDVLIADTAGRLQN  105 (211)
T ss_dssp             HHTTCSEEEECCCCCGGG
T ss_pred             HHcCCCEEEeccCCCccc
Confidence            555678999998776543

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=3.7e-06  Score=60.80  Aligned_cols=29  Identities=21%  Similarity=0.386  Sum_probs=25.5

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      .-|+|.||||+||||.|+.||+.+|..++
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g~~~i   30 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYGYTHL   30 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            35899999999999999999999986554

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.93  E-value=3.9e-06  Score=60.17  Aligned_cols=30  Identities=30%  Similarity=0.465  Sum_probs=26.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v  151 (197)
                      .|+|.||||+||||+++.||..++..++..
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            478899999999999999999998775543

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.93  E-value=1.5e-05  Score=61.02  Aligned_cols=79  Identities=27%  Similarity=0.413  Sum_probs=51.1

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEechhhhhh------------c----cCccHHHHHHHHHHHh
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIMSK------------L----AGESESNLRKAFEEAD  176 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~~~~~------------~----~~~~~~~~~~~~~~a~  176 (197)
                      |+..+.-..|+||+|+|||++|..++..   .+..+++++.+.-++.            +    ....+..+..+-....
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~  135 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            3555666899999999999998777544   3788899986542211            0    1112222222222233


Q ss_pred             cCCCeEEEEcccCccCcc
Q psy6208         177 KNSPSIIFIDELDAIAPK  194 (197)
Q Consensus       177 ~~~~~vl~lDeid~l~~~  194 (197)
                      ...+++|++|-+..+.++
T Consensus       136 ~~~~~liIiDSi~al~~~  153 (269)
T d1mo6a1         136 SGALDIVVIDSVAALVPR  153 (269)
T ss_dssp             TTCEEEEEEECSTTCCCH
T ss_pred             cCCCCEEEEecccccccH
Confidence            466899999999999864

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.92  E-value=4.1e-06  Score=60.76  Aligned_cols=35  Identities=14%  Similarity=0.364  Sum_probs=28.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      -.|+|.||||+||||+++.||..+|..++  +..+++
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g~~~i--s~gdll   41 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFELKHL--SSGDLL   41 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBCCEEE--EHHHHH
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHCCeEE--cHHHHH
Confidence            35889999999999999999999986654  444443

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=6.4e-07  Score=64.62  Aligned_cols=27  Identities=26%  Similarity=0.289  Sum_probs=23.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +..|+|+|+||+||||+|++|+..++.
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            345789999999999999999998843

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.90  E-value=4.7e-06  Score=60.42  Aligned_cols=37  Identities=19%  Similarity=0.408  Sum_probs=29.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhhh
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  157 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~~  157 (197)
                      .+.-|+|.||||+||||+|+.|++.+|..++  ++.+++
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g~~~i--s~g~ll   43 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYGYTHL--STGDLL   43 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTCCEEE--EHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeeE--eccHHH
Confidence            3556899999999999999999999986654  544443

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.88  E-value=6.1e-06  Score=60.53  Aligned_cols=33  Identities=27%  Similarity=0.455  Sum_probs=27.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEechhh
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEI  156 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~~  156 (197)
                      -|.|.||||+||+|+|+.|++++|.+++  +..++
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~i--StGdL   37 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLL--DSGAI   37 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEE--EHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE--CHHHH
Confidence            5788899999999999999999987664  44444

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.87  E-value=4.9e-06  Score=59.44  Aligned_cols=29  Identities=28%  Similarity=0.342  Sum_probs=25.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      .|+|.||||+||||.++.|++.++..++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            47899999999999999999999876654

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.86  E-value=2e-05  Score=58.09  Aligned_cols=73  Identities=22%  Similarity=0.201  Sum_probs=40.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhhh----------hh-----c-----cCccHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM----------SK-----L-----AGESESNLRKAFEEA  175 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~~----------~~-----~-----~~~~~~~~~~~~~~a  175 (197)
                      .|.-++|.||+|+|||+.+-.+|..+   +.++..+++....          .+     +     ..+....+.+....+
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~~~~   90 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKF   90 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHHHHh
Confidence            45558899999999999988887765   5566666543221          00     0     111122333334444


Q ss_pred             hcCCCeEEEEcccCcc
Q psy6208         176 DKNSPSIIFIDELDAI  191 (197)
Q Consensus       176 ~~~~~~vl~lDeid~l  191 (197)
                      .....++|+||=..+.
T Consensus        91 ~~~~~d~IlIDTaGr~  106 (211)
T d1j8yf2          91 LSEKMEIIIVDTAGRH  106 (211)
T ss_dssp             HHTTCSEEEEECCCSC
T ss_pred             hccCCceEEEecCCcC
Confidence            4456789999977654

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.84  E-value=6.5e-06  Score=60.62  Aligned_cols=28  Identities=29%  Similarity=0.579  Sum_probs=24.6

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      |.|.||||+||||+|+.||+++|.+++.
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            5677999999999999999999987554

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.79  E-value=4e-05  Score=56.53  Aligned_cols=35  Identities=34%  Similarity=0.432  Sum_probs=26.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      .|.-++|.||+|+|||+.+-.+|..+   +.++..+++
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~   47 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA   47 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEee
Confidence            45558899999999999988888765   556665554

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.75  E-value=2.1e-05  Score=57.78  Aligned_cols=37  Identities=24%  Similarity=0.229  Sum_probs=28.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH----hCCeEEEEec
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLING  153 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~----~~~~~~~v~~  153 (197)
                      +.++.-++|+|+||+|||+++..++..    .+..+.+++.
T Consensus        23 i~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~   63 (242)
T d1tf7a1          23 LPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTF   63 (242)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccc
Confidence            566777999999999999999876533    2566777764

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.73  E-value=1.5e-05  Score=55.76  Aligned_cols=30  Identities=27%  Similarity=0.194  Sum_probs=24.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLI  151 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v  151 (197)
                      -+.|+|++|||||||++.+++.+   |..+..+
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~   36 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLI   36 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEe
Confidence            57899999999999999999876   5544443

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.70  E-value=1.8e-05  Score=55.93  Aligned_cols=24  Identities=21%  Similarity=0.444  Sum_probs=22.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +-|+|.|+||+||||+++.++..+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            458999999999999999999887

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.70  E-value=7.1e-05  Score=54.93  Aligned_cols=35  Identities=26%  Similarity=0.343  Sum_probs=27.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      .+.-++|.||+|+|||+.+-.+|..+   +.++..+++
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~   42 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAG   42 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEe
Confidence            35567899999999999988888765   566666664

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.67  E-value=5.9e-05  Score=55.34  Aligned_cols=42  Identities=19%  Similarity=0.273  Sum_probs=34.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEechhhhhh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSK  159 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~~~~~~~  159 (197)
                      ..+..|+|+|.||+|||++|++++..+    +.+++.++...+...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR~~   67 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIRFG   67 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHTTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHHHh
Confidence            345568999999999999999998765    678888988776543

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.64  E-value=9.6e-05  Score=54.19  Aligned_cols=34  Identities=29%  Similarity=0.266  Sum_probs=26.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ++-++|.||+|+|||+.+-.+|..+   +.++..+++
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~   46 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA   46 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEec
Confidence            3346889999999999988888766   666666665

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.60  E-value=1.9e-05  Score=53.27  Aligned_cols=35  Identities=23%  Similarity=0.152  Sum_probs=22.8

Q ss_pred             CCCCceEEECCCCCcHHHHHH-HHHHH---hCCeEEEEe
Q psy6208         118 KPPRGILLYGPPGTGKTLIAR-AVANE---TGAFFFLIN  152 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~-ala~~---~~~~~~~v~  152 (197)
                      ..+...+|.+|+|+|||..+- ++...   .+..++.+.
T Consensus         5 ~~~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~   43 (140)
T d1yksa1           5 KKGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLA   43 (140)
T ss_dssp             STTCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEE
T ss_pred             HcCCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeee
Confidence            456789999999999996653 33322   244455444

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.59  E-value=7.5e-05  Score=54.55  Aligned_cols=32  Identities=28%  Similarity=0.285  Sum_probs=26.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEEEec
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFLING  153 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~v~~  153 (197)
                      ..++..|+|+|||.++-+++.+.+.+.+.+..
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~p  118 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVP  118 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             CcEEEeCCCCCceehHHhHHHHhcCceeEEEc
Confidence            45678899999999999999888777766654

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.58  E-value=5e-05  Score=54.21  Aligned_cols=22  Identities=23%  Similarity=0.336  Sum_probs=20.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      |-|.|++|+||||+|+.|+..+
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5599999999999999998876

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.51  E-value=4.5e-05  Score=54.07  Aligned_cols=31  Identities=29%  Similarity=0.325  Sum_probs=25.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      ++|.|+||+||||+++.++..+   +..+..+..
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~~~   37 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDNQGINNKIINY   37 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEC
Confidence            6789999999999999999988   344555543

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.50  E-value=4.1e-05  Score=55.05  Aligned_cols=25  Identities=36%  Similarity=0.623  Sum_probs=22.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      +.|+|.||+|+|||+|++.++++..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            3599999999999999999988763

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.48  E-value=4.2e-05  Score=55.24  Aligned_cols=25  Identities=28%  Similarity=0.615  Sum_probs=22.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      .|+|.||+|+|||++++.+++..+.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~   26 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSS   26 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCC
Confidence            5899999999999999999987643

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=97.41  E-value=0.00031  Score=55.67  Aligned_cols=22  Identities=36%  Similarity=0.486  Sum_probs=17.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala  141 (197)
                      .+-.+|+||||||||+++..+.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHH
Confidence            3468999999999999886543

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.37  E-value=3.7e-05  Score=56.73  Aligned_cols=39  Identities=23%  Similarity=0.278  Sum_probs=29.6

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEech
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLINGP  154 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~~  154 (197)
                      |+....-++|+||||+|||+++..++...         +..+++++..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~   77 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTE   77 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESS
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeec
Confidence            35667779999999999999999886432         4567777643

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=97.32  E-value=0.00037  Score=52.61  Aligned_cols=38  Identities=24%  Similarity=0.214  Sum_probs=29.5

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHH----hCCeEEEEec
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLING  153 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~----~~~~~~~v~~  153 (197)
                      |+.+..-++|.|+||+|||+++..++..    .+.++.+++.
T Consensus        31 G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~   72 (277)
T d1cr2a_          31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (277)
T ss_dssp             SBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeee
Confidence            3456667899999999999999888743    2678887764

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=97.28  E-value=0.00016  Score=52.49  Aligned_cols=35  Identities=17%  Similarity=0.297  Sum_probs=29.3

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      |.+..+.++|+|||+||||+++.++++.++..++.
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis   83 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   83 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEEEe
Confidence            35667789999999999999999999998665543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=7e-05  Score=53.83  Aligned_cols=28  Identities=25%  Similarity=0.290  Sum_probs=24.0

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.+..-++|+||||+|||+++..++...
T Consensus        20 i~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          20 IETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5566778999999999999999998654

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.25  E-value=9.3e-05  Score=54.92  Aligned_cols=37  Identities=22%  Similarity=0.305  Sum_probs=28.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh---------CCeEEEEec
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET---------GAFFFLING  153 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~---------~~~~~~v~~  153 (197)
                      +....-++|+||||+|||+++..++...         +..++++.+
T Consensus        33 lp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~   78 (254)
T d1pzna2          33 IETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDT   78 (254)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEES
T ss_pred             ccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEec
Confidence            5566679999999999999999987654         345666654

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.25  E-value=0.0021  Score=48.57  Aligned_cols=61  Identities=18%  Similarity=0.262  Sum_probs=38.5

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHH---hCCeEEEEechh
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLINGPE  155 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~  155 (197)
                      ...|+--..+..+++++.+.+..             ..+..-||+|.+|+|||.++-..+..   .|..+..+-..+
T Consensus        79 ~LPFeLT~~Q~~ai~ei~~d~~~-------------~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~  142 (264)
T d1gm5a3          79 SLPFKLTNAQKRAHQEIRNDMIS-------------EKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTS  142 (264)
T ss_dssp             HSSSCCCHHHHHHHHHHHHHHHS-------------SSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCH
T ss_pred             hccccCCchHHHHHHHHHHHhhc-------------cCcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehH
Confidence            34444334455555555555543             45567899999999999988766543   367776665443

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.25  E-value=0.00065  Score=50.54  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=20.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      .+.++|+||..+|||+++++++-.
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHHH
Confidence            456899999999999999998754

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.15  E-value=0.00014  Score=51.75  Aligned_cols=24  Identities=29%  Similarity=0.609  Sum_probs=21.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .-|+|.||+|+|||++++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            358899999999999999998875

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.15  E-value=0.00022  Score=49.83  Aligned_cols=29  Identities=17%  Similarity=0.091  Sum_probs=23.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLI  151 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v  151 (197)
                      +-|.|.+|+|||||+..++.++   |.++..+
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vi   35 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTV   35 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            5699999999999999998876   4555444

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.14  E-value=0.00013  Score=54.04  Aligned_cols=28  Identities=21%  Similarity=0.286  Sum_probs=24.2

Q ss_pred             CCCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         116 GVKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       116 ~~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      |+.+..-++|+|+||+|||+++..++..
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4566777999999999999999999864

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.10  E-value=0.00014  Score=52.91  Aligned_cols=25  Identities=20%  Similarity=0.271  Sum_probs=21.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      -|-|.|++|+||||+++.|+..++.
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhch
Confidence            3568999999999999999998854

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=97.08  E-value=0.00026  Score=49.53  Aligned_cols=27  Identities=30%  Similarity=0.445  Sum_probs=23.6

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      +.-|+|.|+-|+|||++++.+++.++.
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhccc
Confidence            334889999999999999999999865

>d1cz5a2 d.31.1.1 (A:92-185) C-terminal domain of VAT-N, VAT-Nc {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Cdc48 domain 2-like
superfamily: Cdc48 domain 2-like
family: Cdc48 domain 2-like
domain: C-terminal domain of VAT-N, VAT-Nc
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=97.06  E-value=0.00027  Score=45.04  Aligned_cols=62  Identities=24%  Similarity=0.371  Sum_probs=53.1

Q ss_pred             hhhHHHHhHHHhhhcCcccccCCEEEEecC----cceEEEEEEEecCCC-eEEEcCceEEEEcCCCCcc
Q psy6208          10 SNLFEVYLKPYFLEAYRPVHKDDLFIVRGG----MRAVEFKIVDTDPAP-YCIVAADTVIHCEGDPIKR   73 (197)
Q Consensus        10 ~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~v~~~~~~~-~~~~~~~~~~~~~~~~~~~   73 (197)
                      ..-+..|++++|.+  +++..||.+.+...    +..+.|+|+.++|.+ .+++.++|.+.+...|...
T Consensus        22 ~~~~~~ylk~~L~g--rPV~~GD~i~v~~~~~~g~~~i~F~Vv~t~P~g~~ViIt~~TeI~i~~~Pv~e   88 (94)
T d1cz5a2          22 GEGIEEYVQRALIR--RPMLEQDNISVPGLTLAGQTGLLFKVVKTLPSKVPVEIGEETKIEIREEPASE   88 (94)
T ss_dssp             CSSHHHHHHHHHSS--CEECTTCEECCSSCCCSSCCCCSEEEEEESSSSSCEECCTTCEEEECSCCSSS
T ss_pred             cCCHHHHHHHHHcC--CCCcCCCEEEEeeccccCCceEeEEEEEEeCCCCeEEECCCeEEEEecCcCcc
Confidence            35789999999986  69999999998653    478999999999998 5899999999999887654

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.02  E-value=0.00024  Score=50.63  Aligned_cols=25  Identities=20%  Similarity=0.478  Sum_probs=21.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+.|+|.||+|+||++|++.+....
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhC
Confidence            4569999999999999999998764

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.00  E-value=0.0015  Score=46.58  Aligned_cols=33  Identities=33%  Similarity=0.457  Sum_probs=22.7

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH----hCCeEEEEec
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE----TGAFFFLING  153 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~----~~~~~~~v~~  153 (197)
                      .+.++.+|+|+|||.++-.++..    .+..++++..
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            35889999999999866555432    3555666653

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=96.97  E-value=0.0056  Score=45.24  Aligned_cols=63  Identities=13%  Similarity=0.080  Sum_probs=42.1

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechh
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE  155 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~  155 (197)
                      ...+.|..-..+..+.+++.+.+..             ..+...||+|.+|+|||.++-..+...   |..++.+-...
T Consensus        49 ~~~lP~~lt~~Q~~~~~~i~~~~~~-------------~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~  114 (233)
T d2eyqa3          49 CDSFPFETTPDQAQAINAVLSDMCQ-------------PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTT  114 (233)
T ss_dssp             HHTCCSCCCHHHHHHHHHHHHHHHS-------------SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSH
T ss_pred             hhccccccchhHHHHHHHHHHHHhc-------------cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHH
Confidence            3345555445566666666666553             345678999999999999887665443   77777766433

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.94  E-value=0.0013  Score=47.28  Aligned_cols=20  Identities=40%  Similarity=0.629  Sum_probs=16.8

Q ss_pred             CCCceEEECCCCCcHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~  138 (197)
                      .+.++++.+|+|+|||..+.
T Consensus        39 ~~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          39 SGKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             TCSCEEEECSSHHHHHHHHH
T ss_pred             cCCCEEEEcCCCCchhHHHH
Confidence            35679999999999998764

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=96.92  E-value=0.00038  Score=49.53  Aligned_cols=30  Identities=27%  Similarity=0.416  Sum_probs=24.5

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      ...+++|.|++|+|||++|-++... |..++
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~-g~~lv   42 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR-GHRLI   42 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT-TCEEE
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            3568999999999999999998865 55444

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=96.85  E-value=0.0013  Score=44.79  Aligned_cols=69  Identities=14%  Similarity=0.195  Sum_probs=39.4

Q ss_pred             EEECCCCCcHHH-HHHHHHH--HhCCeEEEEechhhhh--hc-------------cCccHHHHHHHHH-HHhcCCCeEEE
Q psy6208         124 LLYGPPGTGKTL-IARAVAN--ETGAFFFLINGPEIMS--KL-------------AGESESNLRKAFE-EADKNSPSIIF  184 (197)
Q Consensus       124 ll~G~~GtGKT~-la~ala~--~~~~~~~~v~~~~~~~--~~-------------~~~~~~~~~~~~~-~a~~~~~~vl~  184 (197)
                      +++||-.+|||+ |++.+.+  ..+.+++.++...-..  ..             .... ..+...+. .......++|+
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~-~~~~~~~~~~~~~~~~dvI~   84 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESA-PEILNYIMSNSFNDETKVIG   84 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESST-HHHHHHHHSTTSCTTCCEEE
T ss_pred             EEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEcccccccceEEcccCceeeeEEeccc-hhhHHHHHhhccccCcCEEE
Confidence            789999999999 6666633  3477777776431111  00             0111 11112211 12223578999


Q ss_pred             EcccCccCc
Q psy6208         185 IDELDAIAP  193 (197)
Q Consensus       185 lDeid~l~~  193 (197)
                      |||++.+..
T Consensus        85 IDE~QFf~d   93 (139)
T d2b8ta1          85 IDEVQFFDD   93 (139)
T ss_dssp             ECSGGGSCT
T ss_pred             echhhhcch
Confidence            999999853

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=96.83  E-value=0.0018  Score=47.75  Aligned_cols=22  Identities=32%  Similarity=0.380  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .++|+||..+|||+++++++-.
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHH
Confidence            5899999999999999988654

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.79  E-value=0.00062  Score=49.96  Aligned_cols=30  Identities=20%  Similarity=0.344  Sum_probs=23.3

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh--CCeEEEEe
Q psy6208         123 ILLYGPPGTGKTLIARAVANET--GAFFFLIN  152 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~--~~~~~~v~  152 (197)
                      +++.|++|+|||||+.++.+.+  +.....++
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn   34 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   34 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEe
Confidence            6899999999999999998765  33444443

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=96.78  E-value=0.0006  Score=51.73  Aligned_cols=30  Identities=40%  Similarity=0.569  Sum_probs=25.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHhCCe
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANETGAF  147 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~~~~  147 (197)
                      .....++|+||+++|||+++.++++.++..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~  131 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAHTVPFY  131 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSCE
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHHHhcch
Confidence            456678999999999999999999998653

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00047  Score=50.23  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=21.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .-++|.||+|+|||+|.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            347899999999999999998875

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.75  E-value=0.00029  Score=51.66  Aligned_cols=28  Identities=21%  Similarity=0.198  Sum_probs=23.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +....-++|.|+||+|||+++..+|...
T Consensus        31 l~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          31 LESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4556678999999999999999998654

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=96.71  E-value=0.00061  Score=48.13  Aligned_cols=29  Identities=28%  Similarity=0.405  Sum_probs=23.6

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFF  148 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~  148 (197)
                      ...+++|.|++|+|||+++-++... |..+
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~-g~~l   42 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR-GHRL   42 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT-TCEE
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc-CCeE
Confidence            3568999999999999999888766 4433

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.70  E-value=0.0021  Score=49.60  Aligned_cols=37  Identities=24%  Similarity=0.209  Sum_probs=27.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhC-----CeEEEEechhh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETG-----AFFFLINGPEI  156 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~-----~~~~~v~~~~~  156 (197)
                      +--|-|.|++|+||||+|+.|...+.     ..+..++...+
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            34467999999999999999998873     34555554444

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=96.70  E-value=0.0021  Score=48.68  Aligned_cols=35  Identities=26%  Similarity=0.357  Sum_probs=22.5

Q ss_pred             CCCCceEEECCCCCcHHH-HHHHHHHH---hCCeEEEEe
Q psy6208         118 KPPRGILLYGPPGTGKTL-IARAVANE---TGAFFFLIN  152 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~-la~ala~~---~~~~~~~v~  152 (197)
                      ...+.+++.+|+|+|||+ ++-++...   .+..++.+.
T Consensus         7 ~~~~~~lv~~~TGsGKT~~~l~~~~~~~~~~~~~~lvi~   45 (305)
T d2bmfa2           7 RKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGLRTLILA   45 (305)
T ss_dssp             STTCEEEECCCTTSSTTTTHHHHHHHHHHHHTCCEEEEE
T ss_pred             hcCCcEEEEECCCCCHHHHHHHHHHHHHHhcCCEEEEEc
Confidence            456779999999999996 33233222   255555554

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=96.68  E-value=0.00051  Score=48.88  Aligned_cols=30  Identities=33%  Similarity=0.473  Sum_probs=24.1

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      ...++||.|++|+|||++|-.+... |..++
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~-G~~lv   43 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK-NHLFV   43 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT-TCEEE
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc-CCcee
Confidence            4568999999999999999988754 44443

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.68  E-value=0.0021  Score=49.07  Aligned_cols=22  Identities=32%  Similarity=0.655  Sum_probs=18.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      |-|.|++|+||||++..|...+
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999887654

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=96.67  E-value=0.00053  Score=46.80  Aligned_cols=21  Identities=33%  Similarity=0.376  Sum_probs=19.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |+|.|+||+|||+|++.+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999754

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.66  E-value=0.00033  Score=52.05  Aligned_cols=27  Identities=22%  Similarity=0.439  Sum_probs=22.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      +..+..+-|.||+|+|||||++.++..
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          28 IKEGEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCcchhhHhccCC
Confidence            456667899999999999999999654

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.65  E-value=0.00079  Score=47.89  Aligned_cols=28  Identities=25%  Similarity=0.221  Sum_probs=22.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      -|-|+|++|+|||++|+.+ .+.|.+++.
T Consensus         5 IIgitG~~gSGKstva~~l-~~~g~~~~~   32 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALL-RSWGYPVLD   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHH-HHTTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCeEEE
Confidence            3558999999999999998 457777654

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.00045  Score=51.36  Aligned_cols=28  Identities=25%  Similarity=0.500  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+-|.||+|+|||||++.++...
T Consensus        23 i~~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          23 IHEGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            4556678999999999999999997644

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.62  E-value=0.00045  Score=49.35  Aligned_cols=31  Identities=23%  Similarity=0.332  Sum_probs=25.8

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      .+.-|.|.|+.|+||||+++.|++.++...+
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l~~~~~   38 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYKNDICL   38 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGTTTEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            3445889999999999999999999876444

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.58  E-value=0.00034  Score=50.83  Aligned_cols=28  Identities=21%  Similarity=0.417  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++.-+.|.||+|+|||||.+.++...
T Consensus        24 i~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          24 IEKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            3456668899999999999999998654

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.51  E-value=0.0075  Score=46.80  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=21.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ...|-|+|+||+|||+|+.+++..+
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            3447899999999999999998765

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=96.49  E-value=0.0018  Score=46.73  Aligned_cols=27  Identities=33%  Similarity=0.383  Sum_probs=22.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      |-|+|++|||||++++.+. +.|.+++.
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vid   31 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVD   31 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEE
Confidence            5589999999999999885 57877764

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.49  E-value=0.00062  Score=50.78  Aligned_cols=28  Identities=36%  Similarity=0.533  Sum_probs=23.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +....-+-|.||+|+|||||++.++...
T Consensus        29 v~~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          29 IKDGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            4556678999999999999999997654

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=96.48  E-value=0.0011  Score=49.80  Aligned_cols=36  Identities=19%  Similarity=0.247  Sum_probs=27.6

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh-------------CCeEEEEech
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET-------------GAFFFLINGP  154 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~-------------~~~~~~v~~~  154 (197)
                      +..-.+|+|+||+|||+++..+|...             +.++++++..
T Consensus        28 pg~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E   76 (274)
T d1nlfa_          28 AGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAE   76 (274)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESS
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEecc
Confidence            34557899999999999999887653             2367777754

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.47  E-value=0.00052  Score=51.27  Aligned_cols=28  Identities=39%  Similarity=0.545  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+-|.||+|+|||||+++++...
T Consensus        26 i~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          26 VKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            3456678899999999999999997654

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.45  E-value=0.0005  Score=50.96  Aligned_cols=28  Identities=32%  Similarity=0.523  Sum_probs=23.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +....-+.|.||+|+|||||++.++...
T Consensus        23 i~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          23 VESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            4556668999999999999999997654

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.44  E-value=0.00049  Score=51.82  Aligned_cols=28  Identities=25%  Similarity=0.418  Sum_probs=23.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus        38 i~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          38 IPAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            4566779999999999999999997644

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.44  E-value=0.0015  Score=45.80  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|.|.|.+|+|||+|+.++...
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999754

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.43  E-value=0.00049  Score=51.42  Aligned_cols=28  Identities=25%  Similarity=0.280  Sum_probs=23.0

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+.-+-|.||+|+|||||++.++...
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          28 VPAGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             ECSSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            3556678999999999999999996543

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.0018  Score=47.05  Aligned_cols=31  Identities=26%  Similarity=0.269  Sum_probs=25.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      -|.|.|+.|+||||+++.+++.+   +.+++.+.
T Consensus         5 lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            35667999999999999999877   66666653

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.41  E-value=0.0016  Score=46.62  Aligned_cols=30  Identities=20%  Similarity=0.320  Sum_probs=25.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         123 ILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      |.|.|..|+||||+++.|++.+   |.+++.+.
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~   35 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLA   35 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEe
Confidence            6788999999999999999876   56666654

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=96.41  E-value=0.0026  Score=43.50  Aligned_cols=22  Identities=27%  Similarity=0.564  Sum_probs=19.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|+|.|+||+|||+|+.++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999643

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.36  E-value=0.00073  Score=50.77  Aligned_cols=28  Identities=32%  Similarity=0.530  Sum_probs=23.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.+...+.|.||+|+|||||++.+....
T Consensus        37 i~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          37 LRPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            4566779999999999999999996543

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.00061  Score=50.91  Aligned_cols=28  Identities=21%  Similarity=0.351  Sum_probs=23.8

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.+....
T Consensus        26 i~~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          26 IKQGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            4566779999999999999999997654

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.34  E-value=0.00061  Score=50.96  Aligned_cols=28  Identities=29%  Similarity=0.393  Sum_probs=23.4

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.||+|+|||||++.++...
T Consensus        25 i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          25 AQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4566678999999999999999996543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.34  E-value=0.0011  Score=45.15  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|+|.|+||+|||+|+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999999764

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.33  E-value=0.00047  Score=51.53  Aligned_cols=28  Identities=29%  Similarity=0.485  Sum_probs=23.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..+-|.||+|+|||||++.++...
T Consensus        28 i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          28 IENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            4556679999999999999999997643

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.33  E-value=0.00096  Score=49.71  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=19.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -+.|.||+|+|||||++.++...
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            35688999999999999998755

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=96.32  E-value=0.0011  Score=45.44  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|+|.|.||+|||+|++++...
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999764

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.32  E-value=0.00075  Score=51.57  Aligned_cols=28  Identities=21%  Similarity=0.361  Sum_probs=24.2

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++.-+.|.||+|+|||+|++.++..+
T Consensus        59 i~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          59 IEKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            4566778999999999999999998755

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.23  E-value=0.0013  Score=47.29  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ++|+|.|++|+|||+|..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            36999999999999999999763

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=96.23  E-value=0.0018  Score=46.81  Aligned_cols=27  Identities=33%  Similarity=0.450  Sum_probs=22.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFL  150 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~  150 (197)
                      |-|+|++|+|||++++.+. ..|.+++.
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vid   32 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVID   32 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEEE
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEEE
Confidence            5689999999999999885 67876654

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.22  E-value=0.0015  Score=45.43  Aligned_cols=24  Identities=17%  Similarity=0.344  Sum_probs=20.2

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....|+|.|++|+|||+|..++..
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            344599999999999999999843

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=96.21  E-value=0.0014  Score=49.64  Aligned_cols=18  Identities=28%  Similarity=0.407  Sum_probs=15.2

Q ss_pred             CCceEEECCCCCcHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIA  137 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la  137 (197)
                      ..+++|.|+||||||+++
T Consensus        14 ~~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SSEEEECCCTTSCHHHHH
T ss_pred             CCCEEEEeeCCccHHHHH
Confidence            456899999999999864

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.20  E-value=0.0019  Score=49.39  Aligned_cols=35  Identities=20%  Similarity=0.280  Sum_probs=24.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEechhh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI  156 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~~~  156 (197)
                      -|-+.|++|+|||++++++.+.+   +.....+...++
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            57899999999999999998876   555555655444

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.13  E-value=0.001  Score=50.16  Aligned_cols=28  Identities=21%  Similarity=0.349  Sum_probs=23.3

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +....-+-|.||+|+|||+|+++++...
T Consensus        25 i~~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          25 ARAGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            4556678999999999999999997643

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=96.11  E-value=0.0014  Score=45.22  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|+|.|++|+|||+|++.+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            489999999999999999865

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.10  E-value=0.0023  Score=46.98  Aligned_cols=30  Identities=17%  Similarity=0.351  Sum_probs=25.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      |+-|.|-|+-|+||||+++.|++.++...+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            456899999999999999999999865443

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.09  E-value=0.0017  Score=45.37  Aligned_cols=21  Identities=19%  Similarity=0.475  Sum_probs=18.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |++.|++|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998653

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.05  E-value=0.0022  Score=45.80  Aligned_cols=23  Identities=26%  Similarity=0.563  Sum_probs=20.8

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      +.|+|.|+||+|||+|..++...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999999765

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.05  E-value=0.0079  Score=46.56  Aligned_cols=35  Identities=20%  Similarity=0.332  Sum_probs=26.1

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---C--CeEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---G--AFFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~--~~~~~v~~~  154 (197)
                      ...|=|.|+||+|||+|..+++..+   +  .-++.++.+
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDps   90 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPS   90 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGG
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccc
Confidence            3347799999999999999998764   3  345556543

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.00  E-value=0.002  Score=44.53  Aligned_cols=21  Identities=14%  Similarity=0.327  Sum_probs=18.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|++.|++|+|||+|+..+..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999998875

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=96.00  E-value=0.0022  Score=49.00  Aligned_cols=19  Identities=26%  Similarity=0.447  Sum_probs=15.6

Q ss_pred             CCceEEECCCCCcHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~  138 (197)
                      ..++++.|+||||||+.+-
T Consensus        24 ~g~~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          24 EGPLLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             SSCEEEEECTTSCHHHHHH
T ss_pred             CCCEEEEecCCccHHHHHH
Confidence            4469999999999997553

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.99  E-value=0.002  Score=44.60  Aligned_cols=21  Identities=19%  Similarity=0.460  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |+|.|.+|+|||+|++.+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998753

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.97  E-value=0.0021  Score=44.44  Aligned_cols=22  Identities=18%  Similarity=0.437  Sum_probs=19.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|.+|+|||+|+..+...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999999764

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=95.94  E-value=0.0022  Score=44.29  Aligned_cols=22  Identities=27%  Similarity=0.354  Sum_probs=19.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      .|+|.|++|+|||+|+..+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4889999999999999999653

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.93  E-value=0.0024  Score=45.98  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.3

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHh
Q psy6208         121 RGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .-|.|.|+.|+||||+++.+++.+
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            347888999999999999999876

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.92  E-value=0.0044  Score=44.97  Aligned_cols=32  Identities=25%  Similarity=0.216  Sum_probs=26.8

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      .-|.|.|+-|+||||+++.+++.+......+.
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L~~~~~~~~   35 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKLQPNCKLLK   35 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHTTTSEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhCCEEEE
Confidence            45789999999999999999999976655554

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.92  E-value=0.0018  Score=44.94  Aligned_cols=24  Identities=21%  Similarity=0.320  Sum_probs=20.8

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ...|++.|.+|+|||+|+.++...
T Consensus        15 ~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          15 EHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346999999999999999998653

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.91  E-value=0.0023  Score=44.48  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=19.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |++.|++|+|||+|+..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999998753

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.89  E-value=0.0022  Score=47.15  Aligned_cols=27  Identities=26%  Similarity=0.341  Sum_probs=23.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEE
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFF  149 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~  149 (197)
                      |-|+|+.||||||+|+.++...|..++
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i   30 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKY   30 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEE
Confidence            679999999999999999988775443

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.88  E-value=0.00095  Score=50.26  Aligned_cols=28  Identities=14%  Similarity=0.279  Sum_probs=23.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++..+.|.|++|+|||||++.+....
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            4567779999999999999999986543

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.87  E-value=0.0021  Score=44.68  Aligned_cols=21  Identities=38%  Similarity=0.632  Sum_probs=19.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -++|.|.+|+|||+|++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999986

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.87  E-value=0.0023  Score=44.45  Aligned_cols=21  Identities=24%  Similarity=0.548  Sum_probs=19.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|.|.|++|+|||+|++++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999963

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.0025  Score=44.24  Aligned_cols=21  Identities=19%  Similarity=0.526  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |++.|++|+|||+|++.+...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999999864

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.86  E-value=0.0052  Score=46.19  Aligned_cols=37  Identities=30%  Similarity=0.382  Sum_probs=30.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      ..++-++++|.=|+|||+++-++|..+   |.++..+++.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            457778999999999999999888776   7788877754

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.84  E-value=0.0024  Score=45.00  Aligned_cols=20  Identities=30%  Similarity=0.478  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |+|.|++|+|||+|++.+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            88999999999999999874

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.84  E-value=0.0026  Score=44.00  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=19.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|+|.|.+|+|||+|++.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            379999999999999999875

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.81  E-value=0.0024  Score=44.39  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=19.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|+|.|.+|+|||+|++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999999875

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.79  E-value=0.0027  Score=44.03  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=19.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|.+|+|||+|++.+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3799999999999999999753

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.0029  Score=44.18  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=18.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -+++.|++|+|||+|++.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999865

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.75  E-value=0.0026  Score=43.96  Aligned_cols=21  Identities=33%  Similarity=0.585  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |++.|.+|+|||+|++++...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998753

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.0041  Score=49.60  Aligned_cols=34  Identities=32%  Similarity=0.652  Sum_probs=27.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      .+++++.|++|+|||.++..+....   +.+++.++.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~   86 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   86 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            4679999999999999988765443   667777764

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.74  E-value=0.0015  Score=48.61  Aligned_cols=28  Identities=32%  Similarity=0.360  Sum_probs=22.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +....-+-|.||+|+|||||+++++...
T Consensus        29 i~~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          29 VPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3456668899999999999999996543

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.71  E-value=0.0032  Score=43.32  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=19.1

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |++.|.+|+|||+|+..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999999753

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.70  E-value=0.003  Score=43.79  Aligned_cols=20  Identities=20%  Similarity=0.517  Sum_probs=18.3

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|.+|+|||+|+..+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998865

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.69  E-value=0.0032  Score=43.74  Aligned_cols=20  Identities=30%  Similarity=0.612  Sum_probs=18.4

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|++|+|||+|+..+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999999864

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.68  E-value=0.0028  Score=43.76  Aligned_cols=22  Identities=18%  Similarity=0.450  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|++|+|||+|+..+...
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999998763

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.67  E-value=0.0033  Score=44.21  Aligned_cols=20  Identities=30%  Similarity=0.614  Sum_probs=18.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|.+|+|||+|+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=95.64  E-value=0.0022  Score=47.62  Aligned_cols=28  Identities=29%  Similarity=0.393  Sum_probs=22.9

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +.++.-+-|.||.|+|||||.++++...
T Consensus        25 v~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          25 IEEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3455567799999999999999997654

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.63  E-value=0.003  Score=43.61  Aligned_cols=22  Identities=18%  Similarity=0.271  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|+|.|++|+|||+|++.+...
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998753

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.63  E-value=0.0019  Score=47.23  Aligned_cols=26  Identities=15%  Similarity=0.220  Sum_probs=22.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhCCe
Q psy6208         122 GILLYGPPGTGKTLIARAVANETGAF  147 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~~~  147 (197)
                      -|.|-|+-|+||||+++.|++.+...
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~~~   29 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCEDW   29 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTTE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhcC
Confidence            48899999999999999999988543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.63  E-value=0.0031  Score=43.95  Aligned_cols=22  Identities=18%  Similarity=0.385  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|+|.|.+|+|||+|++.+...
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999988753

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=95.62  E-value=0.0053  Score=43.85  Aligned_cols=32  Identities=19%  Similarity=0.187  Sum_probs=26.7

Q ss_pred             CceEEECC-CCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         121 RGILLYGP-PGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       121 ~~ill~G~-~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      +.++++|- +|+|||+++-.+|..+   |.++..++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            35899999 5999999999888776   77888876

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=95.56  E-value=0.011  Score=44.10  Aligned_cols=25  Identities=28%  Similarity=0.444  Sum_probs=21.4

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ..-.|+|.|.||+|||+++.+|..+
T Consensus        31 ~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          31 NSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhCC
Confidence            3457999999999999999999653

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.55  E-value=0.0039  Score=43.05  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=19.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|+|.|.+|+|||+|++.+..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999999875

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.51  E-value=0.0031  Score=43.84  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=19.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      -.|++.|++|+|||+|+.++..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3499999999999999998854

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.0036  Score=43.02  Aligned_cols=20  Identities=20%  Similarity=0.373  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|.+|+|||+|++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999875

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.50  E-value=0.0041  Score=42.95  Aligned_cols=22  Identities=18%  Similarity=0.436  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|.+|+|||+|++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999998754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.49  E-value=0.0031  Score=44.07  Aligned_cols=21  Identities=19%  Similarity=0.389  Sum_probs=19.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|+|.|+||+|||+|..++..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999975

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.0036  Score=43.67  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|.+|+|||+|+..+...
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=95.47  E-value=0.046  Score=43.52  Aligned_cols=56  Identities=20%  Similarity=0.260  Sum_probs=44.6

Q ss_pred             ccccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEechh
Q psy6208          86 DDIGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPE  155 (197)
Q Consensus        86 ~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~~  155 (197)
                      .--|.+..+++++.+.+..              ..+..+|.|-+|+|||+++.++++..+.+++.+....
T Consensus        11 ~p~gDQP~aI~~l~~~l~~--------------g~~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n~   66 (413)
T d1t5la1          11 EPQGDQPQAIAKLVDGLRR--------------GVKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNK   66 (413)
T ss_dssp             CCCTTHHHHHHHHHHHHHH--------------TCSEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSSH
T ss_pred             CCCCCCHHHHHHHHHHHhc--------------CCCcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCCH
Confidence            3346777778888777753              2456889999999999999999999999998887643

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.47  E-value=0.0037  Score=43.43  Aligned_cols=20  Identities=30%  Similarity=0.554  Sum_probs=18.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|.+|+|||+|+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999865

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.46  E-value=0.0041  Score=43.10  Aligned_cols=20  Identities=45%  Similarity=0.873  Sum_probs=18.2

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|.+|+|||+|++.+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            78999999999999999864

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=95.46  E-value=0.002  Score=47.72  Aligned_cols=27  Identities=30%  Similarity=0.468  Sum_probs=22.6

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      +..+.-+-|.||+|+|||||.++++..
T Consensus        22 I~~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          22 VRAGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EETTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            345666889999999999999999763

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.46  E-value=0.0043  Score=42.98  Aligned_cols=20  Identities=30%  Similarity=0.557  Sum_probs=18.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|++|+|||+|++.+..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998865

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.45  E-value=0.0044  Score=43.08  Aligned_cols=20  Identities=25%  Similarity=0.522  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|++|+|||+|+..+..
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            89999999999999998865

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.45  E-value=0.0043  Score=43.30  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|++.|.+|+|||+|++.+..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999875

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.44  E-value=0.0023  Score=47.97  Aligned_cols=27  Identities=22%  Similarity=0.411  Sum_probs=22.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+..-+-|.||+|+|||+|+++++...
T Consensus        28 ~~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          28 NKGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            455568899999999999999996543

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=95.44  E-value=0.0044  Score=42.96  Aligned_cols=21  Identities=19%  Similarity=0.439  Sum_probs=19.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|++.|.+|+|||+|+..+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999999875

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.35  E-value=0.0049  Score=42.61  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -+++.|.+|+|||+|+..+...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988653

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.35  E-value=0.0049  Score=43.27  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=19.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|.+|+|||+|+..+...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999998764

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.34  E-value=0.0051  Score=42.66  Aligned_cols=21  Identities=19%  Similarity=0.390  Sum_probs=19.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -+++.|.+|+|||+|+..+..
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999876

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.31  E-value=0.0049  Score=42.89  Aligned_cols=20  Identities=35%  Similarity=0.639  Sum_probs=18.4

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |+|.|.+|+|||+|++.+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998864

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=95.31  E-value=0.0037  Score=44.29  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|.|.|+||+|||+|..++..
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            599999999999999999964

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.24  E-value=0.0049  Score=43.26  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=19.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -++|.|.+|+|||+|++.+...
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988763

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.23  E-value=0.059  Score=40.50  Aligned_cols=50  Identities=22%  Similarity=0.159  Sum_probs=31.4

Q ss_pred             ccCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHh----CCeEEEEec
Q psy6208          88 IGGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLING  153 (197)
Q Consensus        88 i~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~----~~~~~~v~~  153 (197)
                      +.-.+-+.+.+..++..                ...++.-|+|+|||.++-+++...    +.+.+.+-.
T Consensus       112 ~~~rdyQ~~av~~~l~~----------------~~~il~~pTGsGKT~i~~~i~~~~~~~~~~k~Liivp  165 (282)
T d1rifa_         112 IEPHWYQKDAVFEGLVN----------------RRRILNLPTSAGRSLIQALLARYYLENYEGKILIIVP  165 (282)
T ss_dssp             CCCCHHHHHHHHHHHHH----------------SEEEECCCTTSCHHHHHHHHHHHHHHHCSSEEEEECS
T ss_pred             cccchHHHHHHHHHHhc----------------CCceeEEEcccCccHHHHHHHHHhhhcccceEEEEEc
Confidence            34455566666665542                245677799999999888776433    445555543

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.22  E-value=0.0055  Score=45.02  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ....+|.|+||+|||+|+.++..
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHST
T ss_pred             CCeEEEECCCCCCHHHHHHhhcc
Confidence            45678999999999999999954

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.20  E-value=0.0015  Score=45.95  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      .+|+|+.|+|||+++.||.-.+
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5788999999999999998765

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.17  E-value=0.0054  Score=43.19  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=19.0

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |+|.|.+|+|||+|++.+.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            799999999999999998753

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.16  E-value=0.0032  Score=43.87  Aligned_cols=20  Identities=35%  Similarity=0.567  Sum_probs=8.6

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|.+|+|||+|++++..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998864

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=95.15  E-value=0.0031  Score=43.87  Aligned_cols=23  Identities=30%  Similarity=0.325  Sum_probs=20.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      .-.|++.|++|+|||+|++.+..
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34599999999999999999864

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=95.15  E-value=0.0082  Score=40.77  Aligned_cols=70  Identities=20%  Similarity=0.184  Sum_probs=38.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHH---hCCeEEEEechhhh--hh--cc---Cc-----cHHHHHHHHHHHhcCCCeEEEEcc
Q psy6208         123 ILLYGPPGTGKTLIARAVANE---TGAFFFLINGPEIM--SK--LA---GE-----SESNLRKAFEEADKNSPSIIFIDE  187 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~---~~~~~~~v~~~~~~--~~--~~---~~-----~~~~~~~~~~~a~~~~~~vl~lDe  187 (197)
                      =+++||-.+|||+-+-..++.   .+..++.++...-.  +.  ..   +.     .......++... ...+++|+|||
T Consensus        10 ~lI~GpMfSGKTteLi~~~~~~~~~g~~vl~i~~~~D~Ry~~~~i~sh~g~~~~a~~~~~~~~~~~~~-~~~~dvI~IDE   88 (141)
T d1xx6a1          10 EVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYF-EEDTEVIAIDE   88 (141)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHC-CTTCSEEEECS
T ss_pred             EEEEeccccHHHHHHHHHHHHhhhcCCcEEEEEeccccccccceeeecccceEEEEEecchhhhhhhh-cccccEEEEee
Confidence            378999999999955544433   37777766642210  00  00   00     000111222222 23578999999


Q ss_pred             cCccCc
Q psy6208         188 LDAIAP  193 (197)
Q Consensus       188 id~l~~  193 (197)
                      ++.+..
T Consensus        89 ~QFf~d   94 (141)
T d1xx6a1          89 VQFFDD   94 (141)
T ss_dssp             GGGSCT
T ss_pred             hhhccc
Confidence            998864

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.11  E-value=0.0055  Score=43.46  Aligned_cols=20  Identities=30%  Similarity=0.580  Sum_probs=18.5

Q ss_pred             eEEECCCCCcHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~  142 (197)
                      |++.|++|+|||+|+..+..
T Consensus         9 ivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhh
Confidence            88999999999999999875

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=95.06  E-value=0.0034  Score=43.98  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala  141 (197)
                      ...--|++.|++|+|||+|++.+.
T Consensus        15 ~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          15 NKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHh
Confidence            344569999999999999999884

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.97  E-value=0.0065  Score=42.94  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=18.7

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |++.|++|+|||+|+..+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988653

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.96  E-value=0.0063  Score=42.16  Aligned_cols=21  Identities=24%  Similarity=0.406  Sum_probs=19.2

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|.|.|.||+|||+|..++.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999975

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.88  E-value=0.0041  Score=43.21  Aligned_cols=21  Identities=33%  Similarity=0.498  Sum_probs=18.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|++.|++|+|||+|+.++..
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC-
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999998754

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=94.84  E-value=0.0044  Score=43.01  Aligned_cols=23  Identities=13%  Similarity=0.213  Sum_probs=19.9

Q ss_pred             CCCceEEECCCCCcHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala  141 (197)
                      ....|.|.|.|++|||+|..++.
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHh
Confidence            34569999999999999999883

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.75  E-value=0.0078  Score=42.41  Aligned_cols=20  Identities=30%  Similarity=0.504  Sum_probs=18.1

Q ss_pred             ceEEECCCCCcHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala  141 (197)
                      -|+|.|.+|+|||+|+..+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            38999999999999999983

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=94.66  E-value=0.0092  Score=41.65  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=20.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      .-.|.|.|.+|+|||+|+.++...
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            345899999999999999999753

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.65  E-value=0.0032  Score=42.95  Aligned_cols=21  Identities=29%  Similarity=0.624  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |.|.|.||+|||+|+.++..+
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999764

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.49  E-value=0.0074  Score=42.21  Aligned_cols=20  Identities=30%  Similarity=0.476  Sum_probs=18.1

Q ss_pred             ceEEECCCCCcHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala  141 (197)
                      .|-|.|+|++|||+|..++.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~   22 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVS   22 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSE
T ss_pred             eEEEECCCCCCHHHHHHHHh
Confidence            47899999999999999984

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.48  E-value=0.058  Score=35.90  Aligned_cols=31  Identities=16%  Similarity=0.124  Sum_probs=21.4

Q ss_pred             eEEECCCCCcHHHHHHHHHHH---hCCeEEEEec
Q psy6208         123 ILLYGPPGTGKTLIARAVANE---TGAFFFLING  153 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~---~~~~~~~v~~  153 (197)
                      -+++||-.+|||+-+-..++.   .+..++.++.
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ikp   38 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKY   38 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCCcEEEEec
Confidence            378899999999955544433   2666766664

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.42  E-value=0.0079  Score=41.91  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=18.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      .|.|.|.||+|||+|+.++..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999953

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.40  E-value=0.011  Score=46.29  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=19.9

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhC
Q psy6208         123 ILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~  145 (197)
                      -+|+||.|+|||+++.||+-.+|
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~lg   50 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVLG   50 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            47999999999999999976553

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.34  E-value=0.028  Score=41.70  Aligned_cols=35  Identities=34%  Similarity=0.369  Sum_probs=27.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      .+-++++|.=|+|||+++-.+|..+   |.+++.+++.
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            3447788999999999888777655   7788887764

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.28  E-value=0.014  Score=40.69  Aligned_cols=23  Identities=13%  Similarity=0.198  Sum_probs=20.1

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      -.|++.|.+|+|||+|+..+...
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999988764

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.19  E-value=0.012  Score=42.65  Aligned_cols=21  Identities=29%  Similarity=0.487  Sum_probs=18.9

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|+|.|.+|+|||+|++.+..
T Consensus         8 KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            589999999999999998854

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.16  E-value=0.0053  Score=45.27  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=19.4

Q ss_pred             CCceEEECCCCCcHHHHHHHHHH
Q psy6208         120 PRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~  142 (197)
                      +...+|.|+||+|||+|+.++..
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC
T ss_pred             cceEEEECCCCccHHHHHHhhcc
Confidence            44567889999999999999943

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=94.10  E-value=0.15  Score=40.34  Aligned_cols=52  Identities=27%  Similarity=0.321  Sum_probs=40.3

Q ss_pred             cCcHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208          89 GGCRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus        89 ~g~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      |.+..+++++.+.+..              ..+.+.|.|.+|++|++++.+++...+.+++.|...
T Consensus        11 ~dqp~aI~~l~~~L~~--------------g~~~~~L~GlsgS~ka~~~A~l~~~~~rp~LvVt~~   62 (408)
T d1c4oa1          11 GDQPKAIAGLVEALRD--------------GERFVTLLGATGTGKTVTMAKVIEALGRPALVLAPN   62 (408)
T ss_dssp             TTHHHHHHHHHHHHHT--------------TCSEEEEEECTTSCHHHHHHHHHHHHTCCEEEEESS
T ss_pred             CCCHHHHHHHHHHHhc--------------CCCcEEEecCCCCHHHHHHHHHHHHhCCCEEEEeCC
Confidence            4455566666666642              234589999999999999999999999999888654

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.08  E-value=0.01  Score=44.73  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.2

Q ss_pred             eEEECCCCCcHHHHHHHHHHHh
Q psy6208         123 ILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~  144 (197)
                      -+|+||.|+|||++..|++-.+
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            4899999999999999996644

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=93.99  E-value=0.012  Score=45.66  Aligned_cols=24  Identities=33%  Similarity=0.452  Sum_probs=22.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .|.|-|+-|+||||+++.+++.++
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             EEEEECCccCCHHHHHHHHHHHhc
Confidence            488999999999999999999874

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.99  E-value=0.018  Score=43.76  Aligned_cols=28  Identities=25%  Similarity=0.478  Sum_probs=23.7

Q ss_pred             CCCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         117 VKPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      +..+..++|.|++|+|||+|+..+++..
T Consensus        40 igrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          40 IGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             CBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             ccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            3456679999999999999999998754

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.96  E-value=0.015  Score=40.66  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|..|+|||+|++.+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999654

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.80  E-value=0.018  Score=41.54  Aligned_cols=53  Identities=21%  Similarity=0.234  Sum_probs=33.8

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhC---CCCCCceEEECCCCCcHHHHH
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG---VKPPRGILLYGPPGTGKTLIA  137 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~---~~~~~~ill~G~~GtGKT~la  137 (197)
                      ..+|++++-.++..+.+.+. .  ...+...+...   +-.++.+++..|+|+|||...
T Consensus         9 ~~sF~~l~l~~~l~~~L~~~-g--~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a~   64 (212)
T d1qdea_           9 VYKFDDMELDENLLRGVFGY-G--FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF   64 (212)
T ss_dssp             CCCGGGGTCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHH
T ss_pred             ccChhhCCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCEEeecccccchhhhh
Confidence            46899997777777777653 1  22222222211   124567999999999999843

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=93.70  E-value=0.081  Score=38.12  Aligned_cols=25  Identities=40%  Similarity=0.384  Sum_probs=20.2

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+.+|.=++|+|||..+-+++..+
T Consensus        31 ~~g~iLaDe~GlGKT~~~i~~~~~~   55 (230)
T d1z63a1          31 GFGICLADDMGLGKTLQTIAVFSDA   55 (230)
T ss_dssp             TCCEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCChHHHHHHhhhhh
Confidence            4578888899999999888776654

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=93.65  E-value=0.015  Score=45.46  Aligned_cols=19  Identities=26%  Similarity=0.515  Sum_probs=16.3

Q ss_pred             CCCceEEECCCCCcHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIA  137 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la  137 (197)
                      ....|+-||++|+|||+.+
T Consensus        79 ~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          79 YNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             CCEEEEEECSTTSSHHHHH
T ss_pred             CceeEEecccCCCCcceee
Confidence            4567999999999999875

>d1bg2a_ c.37.1.9 (A:) Kinesin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.48  E-value=0.01  Score=45.77  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=17.7

Q ss_pred             CCCCceEEECCCCCcHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~  138 (197)
                      ..+..|+-||++|+|||+.+.
T Consensus        74 G~n~~i~aYGqtgSGKTyT~~   94 (323)
T d1bg2a_          74 GYNGTIFAYGQTSSGKTHTME   94 (323)
T ss_dssp             TCCEEEEEECSTTSSHHHHHT
T ss_pred             CCCcceeeecccCCCCceecc
Confidence            356679999999999999764

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.45  E-value=0.017  Score=42.04  Aligned_cols=23  Identities=43%  Similarity=0.518  Sum_probs=20.0

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh
Q psy6208         122 GILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -.+|+|.-|+|||||++.+.+..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcC
Confidence            46899999999999999987754

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.017  Score=41.49  Aligned_cols=50  Identities=24%  Similarity=0.262  Sum_probs=30.5

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhC---CCCCCceEEECCCCCcHHHH
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG---VKPPRGILLYGPPGTGKTLI  136 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~---~~~~~~ill~G~~GtGKT~l  136 (197)
                      +|+|++-.++..+.+.+. .  +..|...+...   +-.++.+++..|+|+|||..
T Consensus         2 ~F~dl~L~~~l~~~l~~~-g--~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTla   54 (207)
T d1t6na_           2 GFRDFLLKPELLRAIVDC-G--FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             CSTTSCCCHHHHHHHHHT-T--CCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHH
T ss_pred             CccccCcCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCeEEEeccccccccc
Confidence            577777667677666653 1  22222222211   12456899999999999964

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.37  E-value=0.11  Score=35.63  Aligned_cols=31  Identities=26%  Similarity=0.312  Sum_probs=22.8

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEe
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLIN  152 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~  152 (197)
                      -|.+|=..|=|||+.|--+|-+.   |.+++.+.
T Consensus         4 ~i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQ   37 (157)
T d1g5ta_           4 IIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQ   37 (157)
T ss_dssp             CEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEE
Confidence            36778889999999988776554   66666554

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.35  E-value=0.027  Score=44.68  Aligned_cols=24  Identities=17%  Similarity=0.346  Sum_probs=21.0

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      .+-+|.|.|.||+|||+|..++..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            356799999999999999999963

>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=93.35  E-value=0.0099  Score=46.02  Aligned_cols=20  Identities=30%  Similarity=0.404  Sum_probs=16.9

Q ss_pred             CCCceEEECCCCCcHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~  138 (197)
                      .+..|+-||.+|+|||+.+.
T Consensus        84 ~n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          84 CVCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             CEEEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEeeeccccccceeee
Confidence            35569999999999999863

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.29  E-value=0.028  Score=40.92  Aligned_cols=35  Identities=23%  Similarity=0.245  Sum_probs=23.7

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      .+..+++.+|+|+|||..+-..+...   +..++++..
T Consensus        57 ~g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          57 RKESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             TTCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             CCCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            35679999999999998665444322   555666553

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=93.27  E-value=0.039  Score=40.78  Aligned_cols=33  Identities=18%  Similarity=0.440  Sum_probs=27.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEech
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLINGP  154 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~~  154 (197)
                      .|.|+|.=|+|||+++-.+|..+   |.++..+++.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D   38 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecC
Confidence            46689999999999998887766   7888888863

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=93.21  E-value=0.091  Score=36.29  Aligned_cols=21  Identities=19%  Similarity=0.483  Sum_probs=19.1

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      +|-|.|.|++|||+|..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            588999999999999999964

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.19  E-value=0.024  Score=39.39  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=18.6

Q ss_pred             ceEEECCCCCcHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~  142 (197)
                      -|+|.|..|+|||++++.+..
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            389999999999999998854

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=93.17  E-value=0.019  Score=44.49  Aligned_cols=24  Identities=33%  Similarity=0.362  Sum_probs=21.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCC
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGA  146 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~  146 (197)
                      |.|-|+-|+||||+++.+++.++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            789999999999999999998743

>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]

Probab=93.02  E-value=0.062  Score=41.52  Aligned_cols=47  Identities=23%  Similarity=0.350  Sum_probs=30.1

Q ss_pred             CCCcccccC----cHHHHHHHHHHHHhcccChhhHhhhCCCCCCceEEECCCCCcHHHHHH
Q psy6208          82 AVGYDDIGG----CRKQLAQIKEMVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus        82 ~~~~~~i~g----~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~ill~G~~GtGKT~la~  138 (197)
                      .++||.+.+    +++..+.+...+...+.          .....++-||.+|+|||+.+.
T Consensus        51 ~f~FD~vf~~~~~q~~vy~~v~~~v~~~l~----------G~n~~i~aYGqtgSGKT~T~~  101 (342)
T d1f9va_          51 EFKFDKIFDQQDTNVDVFKEVGQLVQSSLD----------GYNVCIFAYGQTGSGKTFTML  101 (342)
T ss_dssp             EEEESEEECTTCCHHHHHHHHHHHHGGGGG----------TCCEEEEEECCTTSSHHHHHH
T ss_pred             EeecCeEeCCCCCHHHHHHHhhhhhcchhc----------ccccceeeeeccCCccccccc
Confidence            567777765    44555444443333221          345679999999999998763

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.88  E-value=0.029  Score=40.82  Aligned_cols=53  Identities=23%  Similarity=0.318  Sum_probs=34.5

Q ss_pred             cCCCCcccccCcHHHHHHHHHHHHhcccChhhHhhhC---CCCCCceEEECCCCCcHHH
Q psy6208          80 SNAVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG---VKPPRGILLYGPPGTGKTL  135 (197)
Q Consensus        80 ~~~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~---~~~~~~ill~G~~GtGKT~  135 (197)
                      ....+|++++-.+..++.|.+. .  +..|...+...   +-.++.+++..|+|||||.
T Consensus        14 ~~~~sF~~l~L~~~l~~~L~~~-g--~~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTl   69 (222)
T d2j0sa1          14 DVTPTFDTMGLREDLLRGIYAY-G--FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA   69 (222)
T ss_dssp             CCCCSGGGGCCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHH
T ss_pred             CCCCCHHHCCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHCCCCeEEEcCcchhhhh
Confidence            3355899998888888878764 1  22222222211   1235789999999999996

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.62  E-value=0.023  Score=41.16  Aligned_cols=53  Identities=21%  Similarity=0.253  Sum_probs=33.5

Q ss_pred             CCCcccccCcHHHHHHHHHHHHhcccChhhHhhhC---CCCCCceEEECCCCCcHHHHH
Q psy6208          82 AVGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG---VKPPRGILLYGPPGTGKTLIA  137 (197)
Q Consensus        82 ~~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~---~~~~~~ill~G~~GtGKT~la  137 (197)
                      .-+|++++-.+...+.+.+. .  +..+...+...   +-....+++..|+|+|||...
T Consensus        11 i~sF~~l~L~~~l~~~L~~~-g--~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   66 (218)
T d2g9na1          11 VDSFDDMNLSESLLRGIYAY-G--FEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   66 (218)
T ss_dssp             CCCGGGSCCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHH
T ss_pred             cCCHHHCCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhh
Confidence            34799988777777777553 1  22222222211   123567999999999999744

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.51  E-value=0.019  Score=41.04  Aligned_cols=50  Identities=30%  Similarity=0.303  Sum_probs=29.6

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhC---CCCCCceEEECCCCCcHHHH
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG---VKPPRGILLYGPPGTGKTLI  136 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~---~~~~~~ill~G~~GtGKT~l  136 (197)
                      +|++++-.....+.|.+.   -+..|...+...   +-.++.+++.+|+|+|||+.
T Consensus         2 sF~~l~L~~~l~~~L~~~---g~~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEA---GFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAA   54 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHT---TCCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHH
T ss_pred             ChHHcCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHHcCCCEEEecCCcchhhhh
Confidence            577776667677776653   122222222111   12245799999999999953

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=92.37  E-value=0.015  Score=41.52  Aligned_cols=50  Identities=16%  Similarity=0.117  Sum_probs=28.0

Q ss_pred             CcccccCcHHHHHHHHHHHHhcccChhhHhhhC---CCCCCceEEECCCCCcHHHH
Q psy6208          84 GYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG---VKPPRGILLYGPPGTGKTLI  136 (197)
Q Consensus        84 ~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~---~~~~~~ill~G~~GtGKT~l  136 (197)
                      .|++++-.+...+.|.+.   -+..|...+...   +-.+..+++..|+|||||..
T Consensus         2 ~F~~l~L~~~l~~~l~~~---g~~~pt~iQ~~aip~~l~G~dvii~a~TGSGKTla   54 (209)
T d1q0ua_           2 QFTRFPFQPFIIEAIKTL---RFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHA   54 (209)
T ss_dssp             CGGGSCCCHHHHHHHHHT---TCCSCCHHHHHHHHHHHHTCCEEEECCSSHHHHHH
T ss_pred             ccccCCcCHHHHHHHHHC---CCCCCCHHHHHHHHHHHCCCCeEeeccccccccee
Confidence            466666566666665542   112222111111   11245799999999999973

>d1x88a1 c.37.1.9 (A:18-362) Kinesin {Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]

Probab=92.34  E-value=0.016  Score=45.09  Aligned_cols=19  Identities=42%  Similarity=0.595  Sum_probs=16.3

Q ss_pred             CCCceEEECCCCCcHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIA  137 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la  137 (197)
                      ....++.||++|+|||+.+
T Consensus        80 ~n~~i~aYGqtgSGKTyTm   98 (345)
T d1x88a1          80 YNCTIFAYGQTGTGKTFTM   98 (345)
T ss_dssp             CEEEEEEEECTTSSHHHHH
T ss_pred             CCceEEeeeeccccceEEe
Confidence            4557999999999999876

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=92.33  E-value=0.025  Score=43.71  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=19.4

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         122 GILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .|.|-|+-|+|||++++.+++.++
T Consensus         6 rI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC---
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhC
Confidence            378899999999999999988774

>d1sdma_ c.37.1.9 (A:) Kinesin heavy chain-like protein {Potato (Solanum tuberosum) [TaxId: 4113]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin heavy chain-like protein
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=92.05  E-value=0.037  Score=43.27  Aligned_cols=19  Identities=37%  Similarity=0.564  Sum_probs=16.5

Q ss_pred             CCCceEEECCCCCcHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIA  137 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la  137 (197)
                      .+..|+-||++|+|||+.+
T Consensus        74 ~n~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          74 YNVCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             CEEEEEEECSTTSSHHHHH
T ss_pred             CceeeeccccCCCCccccc
Confidence            4567999999999999975

>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Mouse (Mus musculus), kif2c [TaxId: 10090]

Probab=92.02  E-value=0.013  Score=46.01  Aligned_cols=20  Identities=30%  Similarity=0.439  Sum_probs=16.8

Q ss_pred             CCCceEEECCCCCcHHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~  138 (197)
                      .+..|+-||.+|+|||+.+.
T Consensus       113 ~n~tifaYGqTGSGKTyTm~  132 (362)
T d1v8ka_         113 GKATCFAYGQTGSGKTHTMG  132 (362)
T ss_dssp             CEEEEEEEESTTSSHHHHHH
T ss_pred             cCceEEeeccCCCCCceeee
Confidence            45579999999999998773

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.99  E-value=0.052  Score=35.57  Aligned_cols=36  Identities=11%  Similarity=0.172  Sum_probs=27.3

Q ss_pred             CCCceEEECCCCCcHHHHHHHHHHHh-----CCeEEEEech
Q psy6208         119 PPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGP  154 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la~ala~~~-----~~~~~~v~~~  154 (197)
                      ..-.|+|.|-+|+||+++|+|+...+     ++++-.++..
T Consensus         5 qgf~i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~   45 (122)
T d1g8fa3           5 QGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN   45 (122)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT
T ss_pred             cceEEEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCC
Confidence            34468999999999999999997665     3556555543

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.90  E-value=0.048  Score=41.00  Aligned_cols=25  Identities=24%  Similarity=0.157  Sum_probs=21.7

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -++|-|.|..|+|||+|+.++....
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999996544

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=91.88  E-value=0.081  Score=39.46  Aligned_cols=32  Identities=19%  Similarity=0.398  Sum_probs=25.3

Q ss_pred             ceEEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         122 GILLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      -|.++|.=|+|||+++--+|..+   |.+++.+++
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~   38 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGC   38 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            35679999999999777666544   788888886

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.83  E-value=0.026  Score=40.40  Aligned_cols=51  Identities=29%  Similarity=0.281  Sum_probs=29.9

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhC---CCCCCceEEECCCCCcHHHH
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG---VKPPRGILLYGPPGTGKTLI  136 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~---~~~~~~ill~G~~GtGKT~l  136 (197)
                      -+|++++-..+..+.+.+. .  +..|...+...   +-.++.+++..|+|+|||..
T Consensus         3 ~~F~~l~L~~~l~~~l~~~-g--~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTla   56 (206)
T d1veca_           3 NEFEDYCLKRELLMGIFEM-G--WEKPSPIQEESIPIALSGRDILARAKNGTGKSGA   56 (206)
T ss_dssp             SSGGGSCCCHHHHHHHHTT-T--CCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHH
T ss_pred             CChhccCcCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCEEeeccCccccccc
Confidence            3677776666666666543 1  22222222111   12356899999999999963

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=91.73  E-value=0.051  Score=40.65  Aligned_cols=23  Identities=35%  Similarity=0.579  Sum_probs=20.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~  143 (197)
                      ++|.+.|..|+|||+|+.++...
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Confidence            47889999999999999999543

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=91.68  E-value=0.055  Score=45.87  Aligned_cols=27  Identities=19%  Similarity=0.373  Sum_probs=23.1

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..|++.|++|+|||..++.+-+.+
T Consensus        84 ~~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          84 QENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            456789999999999999999886654

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=91.53  E-value=0.12  Score=38.82  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=18.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala  141 (197)
                      ....|.+|.=+.|+|||..+-++.
T Consensus        77 ~~~~g~iLaDemGlGKT~qaia~l  100 (298)
T d1z3ix2          77 ENSYGCIMADEMGLGKTLQCITLI  100 (298)
T ss_dssp             TTCCEEEECCCTTSCHHHHHHHHH
T ss_pred             ccCCceEEEeCCCCCHHHHHHHHH
Confidence            456678888899999998665543

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=91.52  E-value=0.032  Score=42.83  Aligned_cols=19  Identities=32%  Similarity=0.574  Sum_probs=15.8

Q ss_pred             CceEEECCCCCcHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARA  139 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~a  139 (197)
                      ..-+|.|.+|||||+|...
T Consensus        15 ~valffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             CEEEEEECTTSCHHHHTCB
T ss_pred             CEEEEEccCCCCccccccC
Confidence            3469999999999998754

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=91.52  E-value=0.058  Score=45.94  Aligned_cols=27  Identities=26%  Similarity=0.418  Sum_probs=22.6

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..|++.|++|+|||..++.+-+.+
T Consensus       123 ~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         123 RQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            457789999999999999888876544

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.46  E-value=0.11  Score=36.94  Aligned_cols=30  Identities=27%  Similarity=0.373  Sum_probs=24.1

Q ss_pred             EEECCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         124 LLYGPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       124 ll~G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      +..|.-|+|||+++..+|..+   +.++..+++
T Consensus         6 v~s~KGGvGKTtia~nlA~~la~~g~~VlliD~   38 (232)
T d1hyqa_           6 VASGKGGTGKTTITANLGVALAQLGHDVTIVDA   38 (232)
T ss_dssp             EEESSSCSCHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EECCCCCChHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            445899999999999888766   678887764

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.46  E-value=0.065  Score=40.26  Aligned_cols=27  Identities=30%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      .....++|.|++|+|||+|+..+++..
T Consensus        66 gkGQr~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          66 AKGGKIGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCCCEEEeeCCCCCCHHHHHHHHHHHH
Confidence            345669999999999999999998663

>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=91.41  E-value=0.048  Score=42.68  Aligned_cols=20  Identities=35%  Similarity=0.479  Sum_probs=16.7

Q ss_pred             CCCCceEEECCCCCcHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIA  137 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la  137 (197)
                      .....|+-||++|+|||+.+
T Consensus       123 G~n~ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_         123 GYNICIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             TCEEEEEEECSTTSSHHHHH
T ss_pred             ccceeEEeeccCCCccceEe
Confidence            34567999999999999875

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=91.31  E-value=0.04  Score=42.09  Aligned_cols=17  Identities=35%  Similarity=0.653  Sum_probs=14.8

Q ss_pred             ceEEECCCCCcHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIAR  138 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~  138 (197)
                      .-+|.|.+|||||+|..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          16 VAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEEEECSTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            45899999999999874

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=91.03  E-value=0.063  Score=46.28  Aligned_cols=27  Identities=30%  Similarity=0.473  Sum_probs=22.0

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..|++.|++|+|||..++.+-+.+
T Consensus       121 ~~~QsIiisGeSGaGKTe~~K~il~yL  147 (794)
T d2mysa2         121 RENQSILITGESGAGKTVNTKRVIQYF  147 (794)
T ss_dssp             TCCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            457789999999999998888665544

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=91.01  E-value=0.056  Score=38.59  Aligned_cols=56  Identities=14%  Similarity=0.217  Sum_probs=33.0

Q ss_pred             CCcccccCcHHHHHHHHHHHHhcccChhhHhhhC----CCCCCceEEECCCCCcHHHHHHHHH
Q psy6208          83 VGYDDIGGCRKQLAQIKEMVELPLRHPSLFKAIG----VKPPRGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus        83 ~~~~~i~g~~~~~~~l~~~v~~~~~~~~~~~~~~----~~~~~~ill~G~~GtGKT~la~ala  141 (197)
                      .+|++++-.....+.+.+. .  +..|...+...    ......+++..|+|+|||...-...
T Consensus         4 msf~~l~l~~~l~~~l~~~-g--~~~pt~iQ~~~ip~~l~g~~d~iv~a~TGsGKT~~~~l~~   63 (208)
T d1hv8a1           4 MNFNELNLSDNILNAIRNK-G--FEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPL   63 (208)
T ss_dssp             CCGGGSSCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHH
T ss_pred             cCHHHcCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCCeeeechhcccccceeeccc
Confidence            4788886666666666542 1  11221111111    1223579999999999999765444

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=91.01  E-value=0.07  Score=45.41  Aligned_cols=27  Identities=30%  Similarity=0.379  Sum_probs=22.8

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..|++.|++|+|||..++.+-+.+
T Consensus        89 ~~~Q~IiisGeSGaGKTe~~k~il~yL  115 (710)
T d1br2a2          89 REDQSILCTGESGAGKTENTKKVIQYL  115 (710)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            457789999999999999888876554

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=90.86  E-value=0.15  Score=36.33  Aligned_cols=31  Identities=29%  Similarity=0.493  Sum_probs=25.0

Q ss_pred             eEEE-CCCCCcHHHHHHHHHHHh---CCeEEEEec
Q psy6208         123 ILLY-GPPGTGKTLIARAVANET---GAFFFLING  153 (197)
Q Consensus       123 ill~-G~~GtGKT~la~ala~~~---~~~~~~v~~  153 (197)
                      |-++ +.-|+|||+++..+|..+   |.++..+++
T Consensus         5 Iav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~   39 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDG   39 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            5455 778999999999888766   778888875

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=90.76  E-value=0.09  Score=37.07  Aligned_cols=33  Identities=24%  Similarity=0.297  Sum_probs=23.0

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHhCCeEEEEe
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANETGAFFFLIN  152 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~~~~~~~v~  152 (197)
                      +.++++.-|+|+|||..............+++.
T Consensus        40 g~~vlv~apTGsGKT~~~~~~~~~~~~~~~~v~   72 (206)
T d1oywa2          40 GRDCLVVMPTGGGKSLCYQIPALLLNGLTVVVS   72 (206)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHHHSSSEEEEEC
T ss_pred             CCCEEEEcCCCCCCcchhhhhhhhccCceEEec
Confidence            457999999999999877654444444444443

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=90.62  E-value=0.12  Score=44.46  Aligned_cols=27  Identities=26%  Similarity=0.331  Sum_probs=22.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..|+|.|++|+|||..++.+-+.+
T Consensus       119 ~~nQ~IiisGESGaGKTe~~K~il~yL  145 (789)
T d1kk8a2         119 RENQSCLITGESGAGKTENTKKVIMYL  145 (789)
T ss_dssp             TSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            456789999999999999988776554

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=90.53  E-value=0.054  Score=41.56  Aligned_cols=18  Identities=33%  Similarity=0.608  Sum_probs=15.3

Q ss_pred             ceEEECCCCCcHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARA  139 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~a  139 (197)
                      .-+|.|-+|||||||...
T Consensus        16 ~alfFGLSGTGKTTLs~d   33 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLSAD   33 (323)
T ss_dssp             EEEEECCTTSSHHHHHCC
T ss_pred             EEEEEccCCCCcccceeC
Confidence            468999999999999843

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=90.38  E-value=0.086  Score=44.98  Aligned_cols=27  Identities=26%  Similarity=0.393  Sum_probs=22.7

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      ..+..|++.|++|+|||..++.+-+.+
T Consensus        92 ~~~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          92 ERNQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            457789999999999999888876554

>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Mouse (Mus musculus), kif1a [TaxId: 10090]

Probab=89.15  E-value=0.15  Score=39.35  Aligned_cols=19  Identities=32%  Similarity=0.497  Sum_probs=16.9

Q ss_pred             CCCceEEECCCCCcHHHHH
Q psy6208         119 PPRGILLYGPPGTGKTLIA  137 (197)
Q Consensus       119 ~~~~ill~G~~GtGKT~la  137 (197)
                      .+..|+-||.+|+|||+.+
T Consensus        86 ~n~ti~aYGqTgSGKT~Tm  104 (349)
T d2zfia1          86 YNVCIFAYGQTGAGKSYTM  104 (349)
T ss_dssp             CCEEEEEECSTTSSHHHHH
T ss_pred             cCceeeeeccCCCCCceee
Confidence            4567999999999999987

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=89.01  E-value=0.16  Score=35.53  Aligned_cols=31  Identities=26%  Similarity=0.358  Sum_probs=24.5

Q ss_pred             eEEECCCCCcHHHHHHHHHHHhCCeEEEEech
Q psy6208         123 ILLYGPPGTGKTLIARAVANETGAFFFLINGP  154 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~~~~~~~~v~~~  154 (197)
                      +|+.|+..+|||.+|..++.. +.+++|+-..
T Consensus         2 iLVtGGarSGKS~~AE~l~~~-~~~~~YiAT~   32 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD-APQVLYIATS   32 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECC
T ss_pred             EEEECCCCccHHHHHHHHHhc-CCCcEEEEcc
Confidence            689999999999999998754 3456666544

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=88.90  E-value=0.1  Score=37.13  Aligned_cols=21  Identities=24%  Similarity=0.275  Sum_probs=18.9

Q ss_pred             CceEEECCCCCcHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVA  141 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala  141 (197)
                      -+|.+.|.+++|||+|+.+|.
T Consensus         4 ini~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           4 VNVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCcHHHHHHHHH
Confidence            468899999999999999984

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.50  E-value=0.15  Score=38.32  Aligned_cols=26  Identities=31%  Similarity=0.233  Sum_probs=21.4

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      .....++|.|++|+|||+++..++..
T Consensus        66 g~GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          66 GRGQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCCEEEeecCCCCChHHHHHHHHHh
Confidence            45667999999999999998877643

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=88.21  E-value=0.17  Score=36.31  Aligned_cols=21  Identities=19%  Similarity=0.333  Sum_probs=18.8

Q ss_pred             eEEECCCCCcHHHHHHHHHHH
Q psy6208         123 ILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       123 ill~G~~GtGKT~la~ala~~  143 (197)
                      |-|.|.+.+|||+|+.+|...
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCccHHHHHHHHHhh
Confidence            889999999999999999653

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.45  E-value=0.18  Score=38.90  Aligned_cols=25  Identities=12%  Similarity=0.268  Sum_probs=21.5

Q ss_pred             CCceEEECCCCCcHHHHHHHHHHHh
Q psy6208         120 PRGILLYGPPGTGKTLIARAVANET  144 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~la~ala~~~  144 (197)
                      -++|.+.|..|+|||+|+.++....
T Consensus        17 IRNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2          17 VRNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             EEEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHC
Confidence            4579999999999999999996443

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=85.71  E-value=0.22  Score=37.22  Aligned_cols=26  Identities=27%  Similarity=0.258  Sum_probs=20.5

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~~  143 (197)
                      .....++|.|++|+|||+++..+...
T Consensus        65 g~GQr~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          65 GRGQRELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             BTTCBCBEEESSSSSHHHHHHHHHHT
T ss_pred             cCCceEeeccCCCCChHHHHHHHHhh
Confidence            34566999999999999999765443

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=85.03  E-value=0.39  Score=37.65  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=17.5

Q ss_pred             CCCCCceEEECCCCCcHHHHHH
Q psy6208         117 VKPPRGILLYGPPGTGKTLIAR  138 (197)
Q Consensus       117 ~~~~~~ill~G~~GtGKT~la~  138 (197)
                      .+..+..|+.+..|||||+.+-
T Consensus        13 ~p~~g~~lv~A~AGsGKT~~l~   34 (485)
T d1w36b1          13 LPLQGERLIEASAGTGKTFTIA   34 (485)
T ss_dssp             CCCSSCEEEECCTTSCHHHHHH
T ss_pred             CCCCCCeEEEEcCchHHHHHHH
Confidence            3456678999999999998654

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=82.64  E-value=0.33  Score=35.16  Aligned_cols=16  Identities=38%  Similarity=0.592  Sum_probs=14.7

Q ss_pred             CCceEEECCCCCcHHH
Q psy6208         120 PRGILLYGPPGTGKTL  135 (197)
Q Consensus       120 ~~~ill~G~~GtGKT~  135 (197)
                      +..+++..|+|+|||.
T Consensus        58 g~dvvi~a~TGsGKTl   73 (238)
T d1wrba1          58 HRDIMACAQTGSGKTA   73 (238)
T ss_dssp             TCCEEEECCTTSSHHH
T ss_pred             CCCEEEECCCCCCcce
Confidence            5689999999999998

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=82.45  E-value=0.38  Score=34.38  Aligned_cols=22  Identities=14%  Similarity=0.276  Sum_probs=19.2

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      -+|.+.|..++|||+|+.+|..
T Consensus         4 iNi~viGHVd~GKTTL~~~Ll~   25 (224)
T d1jnya3           4 LNLIVIGHVDHGKSTLVGRLLM   25 (224)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEecCCCCHHHHHHHHHH
Confidence            4688999999999999998854

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=81.25  E-value=0.63  Score=33.30  Aligned_cols=25  Identities=16%  Similarity=0.259  Sum_probs=21.0

Q ss_pred             CceEEECCCCCcHHHHHHHHHHHhC
Q psy6208         121 RGILLYGPPGTGKTLIARAVANETG  145 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~~~~  145 (197)
                      .++.+.|-..+|||+|+.+|....+
T Consensus        10 ~~i~viGHVd~GKSTL~~~Ll~~~g   34 (222)
T d1zunb3          10 LRFLTCGNVDDGKSTLIGRLLHDSK   34 (222)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3478999999999999999976553

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=80.75  E-value=0.44  Score=33.48  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.6

Q ss_pred             CceEEECCCCCcHHHHHHHHHH
Q psy6208         121 RGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       121 ~~ill~G~~GtGKT~la~ala~  142 (197)
                      -+|.+.|-+..|||+|+.+|..
T Consensus         4 ini~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           4 VNVGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCcHHHHHHHHHH
Confidence            4688999999999999999864

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=80.45  E-value=1.1  Score=33.04  Aligned_cols=22  Identities=18%  Similarity=0.312  Sum_probs=19.7

Q ss_pred             ceEEECCCCCcHHHHHHHHHHH
Q psy6208         122 GILLYGPPGTGKTLIARAVANE  143 (197)
Q Consensus       122 ~ill~G~~GtGKT~la~ala~~  143 (197)
                      -|++.|.-.+|||+|+.++...
T Consensus        28 ~ivvvG~~SsGKSsliNaLlg~   49 (299)
T d2akab1          28 QIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             EEEEEEBTTSCHHHHHHHHHTS
T ss_pred             eEEEEcCCCCCHHHHHHHHhCC
Confidence            4899999999999999999753

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=80.09  E-value=0.61  Score=32.61  Aligned_cols=25  Identities=28%  Similarity=0.437  Sum_probs=20.9

Q ss_pred             CCCCceEEECCCCCcHHHHHHHHHH
Q psy6208         118 KPPRGILLYGPPGTGKTLIARAVAN  142 (197)
Q Consensus       118 ~~~~~ill~G~~GtGKT~la~ala~  142 (197)
                      ++.-+|.+.|....|||||+.+|..
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHh
Confidence            3445799999999999999999953