Citrus Sinensis ID: 023298

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280----
Protein Sequence
MVRYLDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKIKDFDPEDDDE
Secondary Structure (PSIPRED)
ccccccHHHcccccccccEEEEEEEcccccHHHHHHHHHHHHHHccccEEEEEcccccccccccccccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHccccccEEEEEcccEEEEEEccccHHHHHHHHHHccccEEEEEEEEcccccccHHHHHHHHHHHHHHHHccccEEEEccccccccccccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccEEEEcccHHHHHHHHHHHHHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHccccHHcccEEEEEEcccccccHHHHHHHHHHHHHccccEEEEEcccccccccccccEcHHHHccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccccEEEEccHHHHHHHHHHHHHccccEEEEEEEEccccccHHHHHHHHHHHHHHHHHccccHHHHHcHHHHHHcHHHHHHHccccHHHHHHHHcccccHHHHHHHHHHHHHHHHcccEEEEEcccccHHHHHHHHHHHHHHHcccccccccccccccccccc
Coil and Loop (DISEMBL)
MVRYLDLLCKGYMSWLYALVIKCvfspppnqstycsslyrhcetvrrtmhivnldpaaenfdypvaMDIRELISLEDVMeelglgpngglIYCMEHLEDNLDDWLAEELDnyldddylvfdcpgqielfthvpVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLElphvnilskmDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDeysmvsfmpldlrkeSSIRYVLSQIDNCiqwgedadlkikdfdpeddde
Flexible Loop (DISEMBL)
MVRYLDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNciqwgedadlkikdfdpeddde
Low Complexity Region (SEG)
MVRYLDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWlaeeldnyldddylVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKIKDFDPEDDDE
Disordered region (IsUnstruct)
**RYLDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKI**********
Disordered Region (DISOPRED)
********CKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKI**********
Disordered Region (DISEMBL)
MVRYLDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKIKDFDPEDDDE
Disordered Region (DISPRO)
MVRYLDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED***************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MVRYLDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKIKDFDPEDDDE
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	284	2.2.26 [Sep-21-2011]
Q6CQA6	271	GPN-loop GTPase 3 homolog	yes	no	0.887	0.929	0.511	3e-72
Q54NK8	285	GPN-loop GTPase 3 homolog	yes	no	0.883	0.880	0.490	2e-71
Q6BI59	274	GPN-loop GTPase 3 homolog	yes	no	0.834	0.864	0.536	1e-70
Q6FSS0	271	GPN-loop GTPase 3 homolog	yes	no	0.852	0.892	0.508	2e-70
Q6ZM63	285	GPN-loop GTPase 3 OS=Dani	yes	no	0.876	0.873	0.503	2e-70
Q06543	272	GPN-loop GTPase 3 homolog	yes	no	0.852	0.889	0.512	1e-69
Q4PF70	281	GPN-loop GTPase 3 homolog	N/A	no	0.876	0.886	0.494	1e-69
O14443	276	GPN-loop GTPase 3 homolog	yes	no	0.890	0.916	0.503	3e-69
Q750Q9	271	GPN-loop GTPase 3 homolog	yes	no	0.852	0.892	0.5	1e-68
Q9D3W4	284	GPN-loop GTPase 3 OS=Mus	yes	no	0.852	0.852	0.518	1e-68

>sp|Q6CQA6|GPN3_KLULA GPN-loop GTPase 3 homolog KLLA0D18557g OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=KLLA0D18557g PE=3 SV=2

 Score =  271 bits (694), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 132/258 (51%), Positives = 187/258 (72%), Gaps = 6/258 (2%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +ST+C+++  H +++ R  HIVNLDPAAE   Y   +DIR+LISLEDVMEE GLGPNG 
Sbjct: 15  GKSTFCNAIISHMQSIGRRAHIVNLDPAAEATKYEFTIDIRDLISLEDVMEEFGLGPNGS 74

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSR-NFN 148
           LIYC E+L +NL DWL EE+ +Y +D+YL+FDCPGQIEL+TH+PVL   V HL+++ NFN
Sbjct: 75  LIYCFEYLLNNL-DWLDEEIGDY-NDEYLIFDCPGQIELYTHIPVLPTIVRHLQNQLNFN 132

Query: 149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT---NKKEIEDYLN 205
           +CA YLL++ F+ D +KF SG ++++SAM+ LELPH+NILSK+DLV    NKK ++ +LN
Sbjct: 133 LCATYLLEAPFVIDTSKFFSGALSAMSAMILLELPHINILSKLDLVKDSHNKKALKKFLN 192

Query: 206 PESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ 265
           P+   L  ++N+   P+F KLN+++  LVD++ MV F+PL+ +   S+  +LS ID+  Q
Sbjct: 193 PDPLLLTDKVNEETNPKFHKLNEAIANLVDDFGMVQFLPLEAKNPESVSTILSYIDDVTQ 252

Query: 266 WGEDADLKIKDFDPEDDD 283
           W E  + K  +   E DD
Sbjct: 253 WAEAQEPKEPNDQIEIDD 270

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|Q54NK8|GPN3_DICDI GPN-loop GTPase 3 homolog OS=Dictyostelium discoideum GN=gpn3 PE=3 SV=1

 Score =  269 bits (687), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 126/257 (49%), Positives = 195/257 (75%), Gaps = 6/257 (2%)

Query: 21  IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVM 79
           ++ V  P    +STYC ++ ++CE ++R++HIVNLDPAAE F+YPV++DI+ L+++++VM
Sbjct: 5   VQLVMGPAGSGKSTYCDTMRKYCEEIKRSVHIVNLDPAAEVFEYPVSVDIKNLVTVDEVM 64

Query: 80  EELGLGPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFV 139
           +EL  GPNGGL+Y ME+L +N+D WL +EL +Y +DDYL+ DCPGQIEL++H+PV+R  V
Sbjct: 65  DELHYGPNGGLVYAMEYLIENMD-WLTDELGDY-EDDYLIIDCPGQIELYSHIPVMRILV 122

Query: 140 DHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK-- 197
           DHL+   ++VC+V+L+DSQFI D  KFISG +  LSAMV+LE+PH+N+L+K+D++     
Sbjct: 123 DHLQQIGYSVCSVFLVDSQFILDNCKFISGALMCLSAMVRLEVPHINVLTKIDVLKTSDQ 182

Query: 198 -KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYV 256
            KEIE +L+ E Q L+ ELN     ++ ++NK++  L++++S+V F+PLD+  + S+  +
Sbjct: 183 YKEIEKFLDLEVQNLVEELNLETHDRYHRMNKAIGSLLEDFSLVGFVPLDITDQESLNVL 242

Query: 257 LSQIDNCIQWGEDADLK 273
           L  IDN IQ+GED + K
Sbjct: 243 LQHIDNSIQYGEDLEPK 259

Dictyostelium discoideum (taxid: 44689)

>sp|Q6BI59|GPN3_DEBHA GPN-loop GTPase 3 homolog DEHA2G13222g OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=DEHA2G13222g PE=3 SV=2

 Score =  266 bits (680), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 131/244 (53%), Positives = 182/244 (74%), Gaps = 7/244 (2%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +ST+C+S+  H +++ R  HIVNLDPAAE  +Y   +DIR+LISL+DVMEE+ LGPNG 
Sbjct: 15  GKSTFCNSIITHMQSIGRRAHIVNLDPAAEPSEYEFTIDIRDLISLQDVMEEMDLGPNGA 74

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFN 148
           LIYC E L +NL DWL EE+ ++ +D+YL+FDCPGQIEL+TH+PVL   V HL+ S NFN
Sbjct: 75  LIYCFEFLMNNL-DWLDEEIGDF-NDEYLIFDCPGQIELYTHIPVLPTIVRHLQTSLNFN 132

Query: 149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN---KKEIEDYLN 205
           +CA YLL++ F+ D +KF SG ++++SAM+ LELPH+NILSK+DL+ N   KKE++ +LN
Sbjct: 133 LCATYLLEAPFVIDRSKFFSGALSAMSAMILLELPHINILSKIDLIKNEVSKKELKKFLN 192

Query: 206 PESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNCI 264
           P+   L +  +    P+FAKLNK++  LVD++ MV F+PLD  K+S S+  +LS ID+  
Sbjct: 193 PDPLLLNASSDNESNPKFAKLNKAIANLVDDFGMVQFLPLDCNKDSDSVATILSYIDDVT 252

Query: 265 QWGE 268
           QW E
Sbjct: 253 QWSE 256

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|Q6FSS0|GPN3_CANGA GPN-loop GTPase 3 homolog CAGL0G08294g OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=CAGL0G08294g PE=3 SV=1

 Score =  266 bits (679), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 126/248 (50%), Positives = 183/248 (73%), Gaps = 6/248 (2%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +ST+C+S+  H +T+ R  HIVNLDPAAE   Y   +DIR+LISL+DVMEEL LGPNG 
Sbjct: 15  GKSTFCNSIISHMQTIGRRAHIVNLDPAAEPSKYEFTIDIRDLISLDDVMEELDLGPNGA 74

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSR-NFN 148
           LIYC E+L  NL DWL EE+ +Y +D+YL+FDCPGQIEL+TH+PVL N V HL+ + NFN
Sbjct: 75  LIYCFEYLMKNL-DWLDEEIGDY-NDEYLIFDCPGQIELYTHIPVLPNIVRHLQGQLNFN 132

Query: 149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN---KKEIEDYLN 205
           +CA YLL++ F+ D +KF SG ++++SAM+ LELPH+N+LSK+D++ +   KK+++ +LN
Sbjct: 133 LCATYLLEAPFVIDSSKFFSGALSAMSAMILLELPHINVLSKLDMIKDEYGKKKLKRFLN 192

Query: 206 PESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ 265
           P++  L +E +Q++ P+F  LN+ +  LVD++ MV F+PL+     S+  +LS +D+  Q
Sbjct: 193 PDAMLLANEADQNLNPKFHHLNQCIANLVDDFGMVQFLPLEANNPESVATILSYVDDVTQ 252

Query: 266 WGEDADLK 273
           W E  + K
Sbjct: 253 WAEAQEQK 260

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

>sp|Q6ZM63|GPN3_DANRE GPN-loop GTPase 3 OS=Danio rerio GN=gpn3 PE=2 SV=2

 Score =  265 bits (678), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 131/260 (50%), Positives = 190/260 (73%), Gaps = 11/260 (4%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE--LGLGPN 87
            +STYC+++  HC+ + R++ +VNLDPAAE+F+YPV  DIRELI ++DVME+  L  GPN
Sbjct: 15  GKSTYCATMLEHCQALNRSVQVVNLDPAAEHFEYPVIADIRELIQVDDVMEDDSLRFGPN 74

Query: 88  GGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNF 147
           GGLI+CME+  +N D WL E L  +++DDY++FDCPGQIEL+TH+PV++  V+ L+   F
Sbjct: 75  GGLIFCMEYFSNNFD-WLEESL-GHVEDDYILFDCPGQIELYTHLPVMKQLVEQLQQWEF 132

Query: 148 NVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT--NKKEIEDYLN 205
            VC V+L+DSQF+ +  KFISG MA+LSAMV LE+P VNI++KMDL++   KKEIE YL+
Sbjct: 133 RVCGVFLVDSQFMVETFKFISGVMAALSAMVMLEIPQVNIMTKMDLLSPKAKKEIEKYLD 192

Query: 206 PESQFLLSELNQHM-APQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI 264
           P+   ++ + +  + + +F+KL K++  L+D+YSMV F+P D   E  I  VL  ID  I
Sbjct: 193 PDMYSMMEDNSVALRSKKFSKLTKAICGLIDDYSMVRFLPFDRTDEEGINIVLQHIDFSI 252

Query: 265 QWGEDADLKIKDFDPEDDDE 284
           Q+GED ++K    +P++ DE
Sbjct: 253 QYGEDLEVK----EPKEVDE 268

Danio rerio (taxid: 7955)

>sp|Q06543|GPN3_YEAST GPN-loop GTPase 3 homolog YLR243W OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YLR243W PE=1 SV=1

 Score =  263 bits (672), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 128/250 (51%), Positives = 181/250 (72%), Gaps = 8/250 (3%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +ST+C+S+  H +TV R  HIVNLDPAAE   Y   +DIR+LISL+DVMEE+ LGPNG 
Sbjct: 15  GKSTFCNSIISHMQTVGRRAHIVNLDPAAEATKYEFTIDIRDLISLDDVMEEMDLGPNGA 74

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSR-NFN 148
           LIYC E+L  NL DWL EE+ ++ +D+YL+FDCPGQIEL+TH+PVL N V HL  + NFN
Sbjct: 75  LIYCFEYLLKNL-DWLDEEIGDF-NDEYLIFDCPGQIELYTHIPVLPNIVRHLTQQLNFN 132

Query: 149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT---NKKEIEDYLN 205
           +CA YLL++ F+ D +KF SG ++++SAM+ LELPH+N+LSK+DL+    NKK+++ +LN
Sbjct: 133 LCATYLLEAPFVIDSSKFFSGALSAMSAMILLELPHINVLSKLDLIKGDINKKKLKRFLN 192

Query: 206 PESQFLLSE--LNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC 263
           P++  L+    +NQ   P+F +LN+ +  LVD++ MV F+PL+     SI  +LS +D+ 
Sbjct: 193 PDAMLLMETEGMNQASNPKFLRLNQCIANLVDDFGMVQFLPLESNNPDSIETILSYVDDI 252

Query: 264 IQWGEDADLK 273
            QW E  + K
Sbjct: 253 TQWAEGQEQK 262

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

>sp|Q4PF70|GPN3_USTMA GPN-loop GTPase 3 homolog UM01243 OS=Ustilago maydis (strain 521 / FGSC 9021) GN=UM01243 PE=3 SV=1

 Score =  263 bits (671), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 132/267 (49%), Positives = 190/267 (71%), Gaps = 18/267 (6%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +ST+CS+L  H +++ R +H+ NLDPAAE F+Y  ++DI+ELISLEDVMEE+ LGPNGG
Sbjct: 15  GKSTFCSALIAHAQSLGRNVHLFNLDPAAERFEYQPSIDIKELISLEDVMEEMNLGPNGG 74

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSR-NFN 148
           LIYC E+L DNL     ++     +DDY++ DCPGQIEL+TH P++   V+ L S+ +F 
Sbjct: 75  LIYCFEYLLDNL--DWLDDELGQFNDDYIIIDCPGQIELYTHFPIMSRLVNILSSQYHFR 132

Query: 149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV-----------TNK 197
           +CA YLL+SQFI D TK+ +G ++++SAM+ LE+PH+N+LSKMDLV             K
Sbjct: 133 ICATYLLESQFIDDKTKYFAGVLSAMSAMINLEVPHINLLSKMDLVEKGEIGSEAKRGRK 192

Query: 198 KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVL 257
           +E+E YL+P+   L+ E+N    P+F  LN++L++L+D++SMVSFMPLD   E S+  +L
Sbjct: 193 REMERYLDPDPLLLMDEVNSRTNPKFHSLNQALVQLIDDFSMVSFMPLDSTDEDSVGTIL 252

Query: 258 SQIDNCIQWGEDADLKIKDFDPEDDDE 284
           S IDN +Q+GED + K    +P+D DE
Sbjct: 253 SHIDNAVQYGEDEEPK----EPKDMDE 275

Ustilago maydis (strain 521 / FGSC 9021) (taxid: 237631)

>sp|O14443|GPN3_SCHPO GPN-loop GTPase 3 homolog fet5 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=fet5 PE=2 SV=1

 Score =  261 bits (668), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 133/264 (50%), Positives = 194/264 (73%), Gaps = 11/264 (4%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +ST+C +L  + ++V R+ H+VNLDPAAENF++   +DIR+LIS++DVMEEL  GPNGG
Sbjct: 15  GKSTFCGALMSYMKSVGRSCHLVNLDPAAENFEWEPTVDIRDLISIDDVMEELDYGPNGG 74

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFN 148
           LIYC E L +NL DWL EE+ +Y D+DYL+FD PGQIEL+THVP+L   + HL+ + NF 
Sbjct: 75  LIYCFEFLMENL-DWLNEEIGDY-DEDYLIFDMPGQIELYTHVPILPALIRHLQVTLNFR 132

Query: 149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN-----KKEIEDY 203
            CAVYLL+SQF+ D TKF +G ++++SAMV +E+PH+N+LSKMDL+ +     K E++ +
Sbjct: 133 PCAVYLLESQFLVDRTKFFAGVLSAMSAMVMMEVPHINLLSKMDLLKDNNNITKAELKRF 192

Query: 204 LNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC 263
           LN +   L  E+N+   P+F +LN+ +++L+D+++MV+F+PL+   E S+  VLS ID+ 
Sbjct: 193 LNTDPLLLTGEINETTNPKFHELNRCIVQLIDDFNMVNFLPLESGNEESVSRVLSYIDDA 252

Query: 264 IQWGEDADLKIKD-FDPED--DDE 284
            QW ED + K  D F+ +D  DDE
Sbjct: 253 TQWYEDQEPKDPDRFEADDLEDDE 276

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

>sp|Q750Q9|GPN3_ASHGO GPN-loop GTPase 3 homolog AGL117C OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=AGL117C PE=3 SV=1

 Score =  259 bits (663), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 124/248 (50%), Positives = 181/248 (72%), Gaps = 6/248 (2%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +ST+C+ +  + ++V R  HIVNLDPAAE  +Y   +DIR+LISL+DVMEEL LGPNG 
Sbjct: 15  GKSTFCNGIISYMQSVGRRAHIVNLDPAAEASEYEFTVDIRDLISLDDVMEELSLGPNGS 74

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSR-NFN 148
           L+YC E+L +NL DWL EE+ +Y +D+YL+FDCPGQIEL+TH+PVL   V HL+++ NFN
Sbjct: 75  LVYCFEYLLENL-DWLDEEIGDY-NDEYLIFDCPGQIELYTHIPVLPTIVRHLQNQLNFN 132

Query: 149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN---KKEIEDYLN 205
           +CA YLL++ F+ D +KF SG ++++SAM+ LELPH+N+LSK+DL+ +   KK ++ +LN
Sbjct: 133 LCASYLLEAPFVIDTSKFFSGALSAMSAMILLELPHINVLSKVDLIKDEYSKKRLKRFLN 192

Query: 206 PESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ 265
           P+   L+   N     +F +LNK++  LVD++ MV F+PL+ +   S+  +LS ID+  Q
Sbjct: 193 PDPMLLVDSANADTNSKFHQLNKAIANLVDDFGMVQFLPLEAKNPDSVSTILSYIDDITQ 252

Query: 266 WGEDADLK 273
           WGE  + K
Sbjct: 253 WGEAQEPK 260

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

>sp|Q9D3W4|GPN3_MOUSE GPN-loop GTPase 3 OS=Mus musculus GN=Gpn3 PE=2 SV=1

 Score =  259 bits (663), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 129/249 (51%), Positives = 180/249 (72%), Gaps = 7/249 (2%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE--LGLGPN 87
            +STYCS++ +HCE + R++ +VNLDPAAE+F+YPV  DIRELI ++DVME+  L  GPN
Sbjct: 15  GKSTYCSTMVQHCEALNRSVQVVNLDPAAEHFNYPVMADIRELIEVDDVMEDESLRFGPN 74

Query: 88  GGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNF 147
           GGL++CME+  +N D WL E    +++DDY++FDCPGQIEL+TH+PV++  V  L+   F
Sbjct: 75  GGLVFCMEYFANNFD-WL-ENCLGHVEDDYILFDCPGQIELYTHLPVMKQLVQQLEQWEF 132

Query: 148 NVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN--KKEIEDYLN 205
            VC V+L+DSQF+ +  KFISG +A+LSAMV LE+P VNI++KMDL++   KKEIE +L+
Sbjct: 133 RVCGVFLVDSQFMVESFKFISGILAALSAMVSLEIPQVNIMTKMDLLSKKAKKEIEKFLD 192

Query: 206 PESQFLLSELNQHMAPQ-FAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI 264
           P+   L+ +    +  Q F KL K++  LVD+YSMV F+P D   E S+  VL  ID  I
Sbjct: 193 PDMYSLIDDSTGDLRSQKFKKLTKAVCGLVDDYSMVRFLPYDQSDEESMNIVLQHIDFAI 252

Query: 265 QWGEDADLK 273
           Q+GED + K
Sbjct: 253 QYGEDLEFK 261

Mus musculus (taxid: 10090)

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	284
255567152	267	XPA-binding protein, putative [Ricinus c	0.894	0.951	0.870	1e-128
225468099	268	PREDICTED: GPN-loop GTPase 3 homolog [Vi	0.866	0.917	0.882	1e-127
388500596	267	unknown [Lotus japonicus]	0.894	0.951	0.830	1e-125
356526825	267	PREDICTED: GPN-loop GTPase 3-like [Glyci	0.894	0.951	0.834	1e-125
224131986	268	predicted protein [Populus trichocarpa]	0.897	0.951	0.843	1e-125
118489704	268	unknown [Populus trichocarpa x Populus d	0.897	0.951	0.843	1e-125
388493224	267	unknown [Lotus japonicus]	0.894	0.951	0.826	1e-125
255638486	267	unknown [Glycine max]	0.894	0.951	0.830	1e-124
108710748	266	expressed protein [Oryza sativa Japonica	0.890	0.951	0.818	1e-123
115452899	265	Os03g0337700 [Oryza sativa Japonica Grou	0.887	0.950	0.817	1e-122

>gi|255567152|ref|XP_002524557.1| XPA-binding protein, putative [Ricinus communis] gi|223536110|gb|EEF37765.1| XPA-binding protein, putative [Ricinus communis]

 Score =  464 bits (1195), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 221/254 (87%), Positives = 245/254 (96%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLY+HCETV R++HIVNLDPAAENFDYPV+MDIRELISL+DVMEELGLGPNG 
Sbjct: 14  GKSTYCSSLYQHCETVGRSIHIVNLDPAAENFDYPVSMDIRELISLDDVMEELGLGPNGA 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCM+ LEDNLDDWL+EELDNY+DDDYLVFDCPGQIELF+HV VLRNFV+HLK +NFNV
Sbjct: 74  LMYCMDELEDNLDDWLSEELDNYMDDDYLVFDCPGQIELFSHVSVLRNFVEHLKRKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           CAVYLLDSQFITDVTKFISGCMASLSAM+QLELPHVNILSKMDLVTNKK+IEDYLNPES+
Sbjct: 134 CAVYLLDSQFITDVTKFISGCMASLSAMIQLELPHVNILSKMDLVTNKKDIEDYLNPESR 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
            LLSELN+ MAPQF KLNK+LIELVDEYSMVSF+PLDLRKESSI+YVL+QIDNCIQ+GED
Sbjct: 194 VLLSELNKRMAPQFVKLNKALIELVDEYSMVSFVPLDLRKESSIQYVLAQIDNCIQFGED 253

Query: 270 ADLKIKDFDPEDDD 283
           AD+KIKDFDPEDD+
Sbjct: 254 ADVKIKDFDPEDDE 267

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225468099|ref|XP_002266090.1| PREDICTED: GPN-loop GTPase 3 homolog [Vitis vinifera] gi|296088830|emb|CBI38288.3| unnamed protein product [Vitis vinifera]

 Score =  461 bits (1186), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 217/246 (88%), Positives = 240/246 (97%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLY+HCET+RRT+HIVNLDPAAE+FDYPVAMDIREL+SL+DVMEELGLGPNGG
Sbjct: 14  GKSTYCSSLYQHCETMRRTIHIVNLDPAAESFDYPVAMDIRELVSLDDVMEELGLGPNGG 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCMEHLE+NLDDWL +ELDNYLDDDYLVFDCPGQIELF+HVP+LRNFVDHLK +NFNV
Sbjct: 74  LMYCMEHLEENLDDWLTDELDNYLDDDYLVFDCPGQIELFSHVPMLRNFVDHLKRKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           CAVYLLDSQF+TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK++IEDYLNPE +
Sbjct: 134 CAVYLLDSQFMTDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKRDIEDYLNPEPR 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
           FLLSELNQ MAPQF KLNK+LIELVDEYSMVSF+PLDLRKESSIRY+LSQIDNCIQ+GED
Sbjct: 194 FLLSELNQRMAPQFGKLNKALIELVDEYSMVSFLPLDLRKESSIRYILSQIDNCIQFGED 253

Query: 270 ADLKIK 275
           AD+K+K
Sbjct: 254 ADVKVK 259

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388500596|gb|AFK38364.1| unknown [Lotus japonicus]

 Score =  454 bits (1168), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 211/254 (83%), Positives = 242/254 (95%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSL++HCET RRT+H+VNLDPAAENFDYPVAMD+RELISL+DVMEELGLGPNGG
Sbjct: 14  GKSTYCSSLHQHCETTRRTIHVVNLDPAAENFDYPVAMDVRELISLDDVMEELGLGPNGG 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCMEHLE+NLDDWL EELDNYLDDDYLVFDCPGQIEL++HVPVL+NFV+HL+ +NFNV
Sbjct: 74  LVYCMEHLEENLDDWLDEELDNYLDDDYLVFDCPGQIELYSHVPVLKNFVEHLQQKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           C VYLLDSQF+TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKK++ D+L+PE  
Sbjct: 134 CVVYLLDSQFMTDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKDLGDFLDPEPT 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
           FLLSELNQ MAPQ+AKLNK+LIELV+ YSMVSF+PLDLRKE SI+YVL+QID CIQ+GED
Sbjct: 194 FLLSELNQRMAPQYAKLNKALIELVNNYSMVSFIPLDLRKEKSIQYVLAQIDTCIQYGED 253

Query: 270 ADLKIKDFDPEDDD 283
           AD+K++DFDPEDD+
Sbjct: 254 ADVKVRDFDPEDDE 267

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526825|ref|XP_003532017.1| PREDICTED: GPN-loop GTPase 3-like [Glycine max]

 Score =  452 bits (1164), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 212/254 (83%), Positives = 239/254 (94%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLY HC   RR++H+VNLDPAAENFDYPVAMDIRELISL+DVMEELGLGPNGG
Sbjct: 14  GKSTYCSSLYEHCVAARRSIHVVNLDPAAENFDYPVAMDIRELISLDDVMEELGLGPNGG 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCMEHLEDNLDDWL EELDNYLDDDYLVFDCPGQIEL++HVPVL+NFV+HLK +NF+V
Sbjct: 74  LVYCMEHLEDNLDDWLTEELDNYLDDDYLVFDCPGQIELYSHVPVLKNFVEHLKRKNFSV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           CAVYLLDSQF+TDVTKFISGCMA LSAMVQLELPHVNILSKMDLVT KK++ED+L+PE  
Sbjct: 134 CAVYLLDSQFMTDVTKFISGCMACLSAMVQLELPHVNILSKMDLVTKKKDLEDFLDPEPT 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
           FLLSELNQ M PQ+AKLNK+LIELV+ YSMVSF+PLDLRKE SI+YVL+QIDNCIQ+GED
Sbjct: 194 FLLSELNQRMGPQYAKLNKALIELVNNYSMVSFIPLDLRKEKSIQYVLAQIDNCIQYGED 253

Query: 270 ADLKIKDFDPEDDD 283
           AD+K+KDFDPEDD+
Sbjct: 254 ADVKVKDFDPEDDE 267

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131986|ref|XP_002321227.1| predicted protein [Populus trichocarpa] gi|222862000|gb|EEE99542.1| predicted protein [Populus trichocarpa]

 Score =  452 bits (1164), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 215/255 (84%), Positives = 239/255 (93%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLYRHCET  R+++IVNLDPAAE FDYPVAMDIRELI L+DVMEELGLGPNG 
Sbjct: 14  GKSTYCSSLYRHCETAGRSINIVNLDPAAEQFDYPVAMDIRELICLDDVMEELGLGPNGA 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCME LEDNLDDWL +ELDNY+DDDYLVFDCPGQIELF+HVPVLRNFV+HLKS+NFNV
Sbjct: 74  LMYCMEELEDNLDDWLTDELDNYMDDDYLVFDCPGQIELFSHVPVLRNFVEHLKSKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           C VYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK++I  YLNP+ Q
Sbjct: 134 CVVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKRDIGKYLNPQGQ 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
            LLSELNQ MAPQF KLNK+LI+LVD+YSMVSF+PLDLRKESSI+Y+LSQIDNCIQ+GED
Sbjct: 194 VLLSELNQRMAPQFFKLNKALIDLVDQYSMVSFVPLDLRKESSIQYILSQIDNCIQYGED 253

Query: 270 ADLKIKDFDPEDDDE 284
           AD+K+KDFDPED D+
Sbjct: 254 ADVKVKDFDPEDIDD 268

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489704|gb|ABK96653.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  452 bits (1164), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 215/255 (84%), Positives = 238/255 (93%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLYRHCET  R++ IVNLDPAAE FDYPVAMDIRELI L+DVMEELGLGPNG 
Sbjct: 14  GKSTYCSSLYRHCETTGRSIQIVNLDPAAEQFDYPVAMDIRELICLDDVMEELGLGPNGA 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCME LEDNLDDWL +ELDNY+DDDYLVFDCPGQIELF+HVPVLRNFV+HLKS+NFNV
Sbjct: 74  LMYCMEELEDNLDDWLTDELDNYMDDDYLVFDCPGQIELFSHVPVLRNFVEHLKSKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           C VYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK++I  YLNP+ Q
Sbjct: 134 CVVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKRDIGKYLNPQGQ 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
            LLSELNQ MAPQF KLNK+LI+LVD+YSMVSF+PLDLRKESSI+Y+LSQIDNCIQ+GED
Sbjct: 194 VLLSELNQRMAPQFFKLNKALIDLVDQYSMVSFVPLDLRKESSIQYILSQIDNCIQYGED 253

Query: 270 ADLKIKDFDPEDDDE 284
           AD+K+KDFDPED D+
Sbjct: 254 ADVKVKDFDPEDIDD 268

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388493224|gb|AFK34678.1| unknown [Lotus japonicus]

 Score =  452 bits (1163), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 210/254 (82%), Positives = 242/254 (95%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSL++HCET RRT+H+VNLDPAAENFDYPVAMD+RELISL+DVMEELGLGPNG 
Sbjct: 14  GKSTYCSSLHQHCETTRRTIHVVNLDPAAENFDYPVAMDVRELISLDDVMEELGLGPNGS 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCMEHLE+NLDDWL EELDNYLDDDYLVFDCPGQIEL++HVPVL+NFV+HL+ +NFNV
Sbjct: 74  LVYCMEHLEENLDDWLDEELDNYLDDDYLVFDCPGQIELYSHVPVLKNFVEHLQQKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           C VYLLDSQF+TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKK+++D+L+PE  
Sbjct: 134 CVVYLLDSQFMTDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKDLDDFLDPEPT 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
           FLLSELNQ MAPQ+AKLNK+LIELV+ YSMVSF+PLDLRKE SI+YVL+QID CIQ+GED
Sbjct: 194 FLLSELNQRMAPQYAKLNKALIELVNNYSMVSFIPLDLRKEKSIQYVLAQIDTCIQYGED 253

Query: 270 ADLKIKDFDPEDDD 283
           AD+K++DFDPEDD+
Sbjct: 254 ADVKVRDFDPEDDE 267

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638486|gb|ACU19552.1| unknown [Glycine max]

 Score =  452 bits (1162), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 211/254 (83%), Positives = 238/254 (93%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLY HC   RR++H+VNLDPAAENFDYPVAMDIRELISL+DVMEELGLGPNGG
Sbjct: 14  GKSTYCSSLYEHCVAARRSIHVVNLDPAAENFDYPVAMDIRELISLDDVMEELGLGPNGG 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           L+YCMEHLEDNLDDWL EELDNYLDDDYLVFDCPGQIEL++H PVL+NFV+HLK +NF+V
Sbjct: 74  LVYCMEHLEDNLDDWLTEELDNYLDDDYLVFDCPGQIELYSHAPVLKNFVEHLKRKNFSV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           CAVYLLDSQF+TDVTKFISGCMA LSAMVQLELPHVNILSKMDLVT KK++ED+L+PE  
Sbjct: 134 CAVYLLDSQFMTDVTKFISGCMACLSAMVQLELPHVNILSKMDLVTKKKDLEDFLDPEPT 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
           FLLSELNQ M PQ+AKLNK+LIELV+ YSMVSF+PLDLRKE SI+YVL+QIDNCIQ+GED
Sbjct: 194 FLLSELNQRMGPQYAKLNKALIELVNNYSMVSFIPLDLRKEKSIQYVLAQIDNCIQYGED 253

Query: 270 ADLKIKDFDPEDDD 283
           AD+K+KDFDPEDD+
Sbjct: 254 ADVKVKDFDPEDDE 267

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108710748|gb|ABF98543.1| expressed protein [Oryza sativa Japonica Group] gi|215769078|dbj|BAH01307.1| unnamed protein product [Oryza sativa Japonica Group] gi|218193640|gb|EEC76067.1| hypothetical protein OsI_13279 [Oryza sativa Indica Group] gi|222625678|gb|EEE59810.1| hypothetical protein OsJ_12343 [Oryza sativa Japonica Group]

 Score =  447 bits (1150), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 207/253 (81%), Positives = 240/253 (94%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLY+HCETV RT+H+VNLDPAAE+F YPV+ DIRELISL+DVMEELG+GPNGG
Sbjct: 14  GKSTYCSSLYQHCETVGRTIHMVNLDPAAEHFSYPVSTDIRELISLDDVMEELGMGPNGG 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           LIYCMEHLEDNLDDWL E+L+ YLDDDYLVFDCPGQIELFTHVPVLRNFV+HLK +NFNV
Sbjct: 74  LIYCMEHLEDNLDDWLDEQLEGYLDDDYLVFDCPGQIELFTHVPVLRNFVEHLKRKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           CAVYLLDSQF++DVTK+ISGCMASLSAM+QLELPH+NILSKMDLV+NKK++E+YLNPE+Q
Sbjct: 134 CAVYLLDSQFVSDVTKYISGCMASLSAMIQLELPHINILSKMDLVSNKKDVEEYLNPEAQ 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
            LLS+LN+ MAP F KLNKSL ELVD+YSMV+F+PLDLRKESSI+YVLS IDNCIQ+GED
Sbjct: 194 VLLSQLNRQMAPNFGKLNKSLAELVDDYSMVNFIPLDLRKESSIQYVLSHIDNCIQYGED 253

Query: 270 ADLKIKDFDPEDD 282
           AD+K++DFDPE+D
Sbjct: 254 ADVKVRDFDPEED 266

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115452899|ref|NP_001050050.1| Os03g0337700 [Oryza sativa Japonica Group] gi|108708035|gb|ABF95830.1| expressed protein [Oryza sativa Japonica Group] gi|113548521|dbj|BAF11964.1| Os03g0337700 [Oryza sativa Japonica Group]

 Score =  445 bits (1144), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 206/252 (81%), Positives = 237/252 (94%)

Query: 30  NQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGG 89
            +STYCSSLY+HCETV RT+H+VNLDPAAE+F YPV+ DIRELISL+DVMEELG+GPNGG
Sbjct: 14  GKSTYCSSLYQHCETVGRTIHMVNLDPAAEHFSYPVSTDIRELISLDDVMEELGMGPNGG 73

Query: 90  LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNV 149
           LIYCMEHLEDNLDDWL E+LD YLDDDYLVFDCPGQIELFTHVPVLRNFV+HLK +NFNV
Sbjct: 74  LIYCMEHLEDNLDDWLDEQLDGYLDDDYLVFDCPGQIELFTHVPVLRNFVEHLKRKNFNV 133

Query: 150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQ 209
           CAVY LDSQF++DVTK+ISGCMASLSAM+QLELPH+NILSKMDLV NKK++E+YLNPE+Q
Sbjct: 134 CAVYFLDSQFVSDVTKYISGCMASLSAMIQLELPHINILSKMDLVANKKDVEEYLNPEAQ 193

Query: 210 FLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED 269
            LLS+LN+ MAP+F KLNKSL ELVD+YSMV+F+PLDLRKESSI+YVLS IDNCIQ+G D
Sbjct: 194 VLLSQLNRQMAPKFGKLNKSLAELVDDYSMVNFIPLDLRKESSIQYVLSHIDNCIQYGVD 253

Query: 270 ADLKIKDFDPED 281
           AD+K++DFDPED
Sbjct: 254 ADVKVRDFDPED 265

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	284
TAIR|locus:2135793	271	AT4G12790 [Arabidopsis thalian	0.890	0.933	0.727	2.4e-99
DICTYBASE|DDB_G0285197	285	gpn3 "GPN-loop GTPase 3" [Dict	0.922	0.919	0.453	1.8e-64
ZFIN|ZDB-GENE-040724-141	285	gpn3 "GPN-loop GTPase 3" [Dani	0.873	0.870	0.482	1.8e-62
POMBASE|SPAC4D7.12c	276	fet5 "ATP binding protein Fet5	0.887	0.913	0.475	4.8e-62
SGD|S000004233	272	GPN3 "Putative GTPase with a r	0.848	0.886	0.489	4.8e-62
MGI|MGI:1289326	284	Gpn3 "GPN-loop GTPase 3" [Mus	0.873	0.873	0.486	1e-61
RGD|1303034	284	Gpn3 "GPN-loop GTPase 3" [Ratt	0.873	0.873	0.486	1e-61
CGD|CAL0002280	273	orf19.3130 [Candida albicans (	0.869	0.904	0.482	2.7e-61
UNIPROTKB|Q5A0W6	273	CaO19.10642 "GPN-loop GTPase 3	0.869	0.904	0.482	2.7e-61
UNIPROTKB|E1C8Z1	284	GPN3 "Uncharacterized protein"	0.873	0.873	0.482	4.3e-61

TAIR|locus:2135793 AT4G12790 [Arabidopsis thaliana (taxid:3702)]

 Score = 986 (352.1 bits), Expect = 2.4e-99, P = 2.4e-99
 Identities = 184/253 (72%), Positives = 215/253 (84%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGL 90
             +STYCSSLY HCET+ RTMH+VNLDPAAE F+YPVAMDIRELISLEDVME+L LGPNG L
Sbjct:    15 KSTYCSSLYEHCETIGRTMHVVNLDPAAEIFNYPVAMDIRELISLEDVMEDLKLGPNGAL 74

Query:    91 IYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVC 150
             +YCME+LED+L DW              +FDCPGQIELFTHVPVL+NFV+HLK +NFNVC
Sbjct:    75 MYCMEYLEDSLHDWVDEELENYRDDDYLIFDCPGQIELFTHVPVLKNFVEHLKQKNFNVC 134

Query:   151 AVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQF 210
              VYLLDSQFITDVTKFISGCM+SL+AM+QLELPHVNILSKMDL+ +K  I+DYLNPE + 
Sbjct:   135 VVYLLDSQFITDVTKFISGCMSSLAAMIQLELPHVNILSKMDLLQDKSNIDDYLNPEPRT 194

Query:   211 LLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDA 270
             LL+ELN+ M PQ+AKLNK+LIE+V EY MV+F+P++LRKE SI+YVLSQID CIQ+GEDA
Sbjct:   195 LLAELNKRMGPQYAKLNKALIEMVGEYGMVNFIPINLRKEKSIQYVLSQIDVCIQFGEDA 254

Query:   271 DLKIKDFDPEDDD 283
             D+ IKD D   DD
Sbjct:   255 DVNIKDDDDFSDD 267

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

DICTYBASE|DDB_G0285197 gpn3 "GPN-loop GTPase 3" [Dictyostelium discoideum (taxid:44689)]

 Score = 657 (236.3 bits), Expect = 1.8e-64, P = 1.8e-64
 Identities = 123/271 (45%), Positives = 194/271 (71%)

Query:    21 IKCVFSPPPN-QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVM 79
             ++ V  P  + +STYC ++ ++CE ++R++HIVNLDPAAE F+YPV++DI+ L+++++VM
Sbjct:     5 VQLVMGPAGSGKSTYCDTMRKYCEEIKRSVHIVNLDPAAEVFEYPVSVDIKNLVTVDEVM 64

Query:    80 EELGLGPNGGLIYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFV 139
             +EL  GPNGGL+Y ME+L +N+D W              + DCPGQIEL++H+PV+R  V
Sbjct:    65 DELHYGPNGGLVYAMEYLIENMD-WLTDELGDYEDDYL-IIDCPGQIELYSHIPVMRILV 122

Query:   140 DHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK-- 197
             DHL+   ++VC+V+L+DSQFI D  KFISG +  LSAMV+LE+PH+N+L+K+D++     
Sbjct:   123 DHLQQIGYSVCSVFLVDSQFILDNCKFISGALMCLSAMVRLEVPHINVLTKIDVLKTSDQ 182

Query:   198 -KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYV 256
              KEIE +L+ E Q L+ ELN     ++ ++NK++  L++++S+V F+PLD+  + S+  +
Sbjct:   183 YKEIEKFLDLEVQNLVEELNLETHDRYHRMNKAIGSLLEDFSLVGFVPLDITDQESLNVL 242

Query:   257 LSQIDNCIQWGEDADLK---IKDFDPEDDDE 284
             L  IDN IQ+GED + K   +++ D +DDDE
Sbjct:   243 LQHIDNSIQYGEDLEPKEPPLENDDDDDDDE 273

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005525 "GTP binding" evidence=IEA

ZFIN|ZDB-GENE-040724-141 gpn3 "GPN-loop GTPase 3" [Danio rerio (taxid:7955)]

 Score = 638 (229.6 bits), Expect = 1.8e-62, P = 1.8e-62
 Identities = 125/259 (48%), Positives = 180/259 (69%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE--LGLGPNG 88
             +STYC+++  HC+ + R++ +VNLDPAAE+F+YPV  DIRELI ++DVME+  L  GPNG
Sbjct:    16 KSTYCATMLEHCQALNRSVQVVNLDPAAEHFEYPVIADIRELIQVDDVMEDDSLRFGPNG 75

Query:    89 GLIYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLKSRNFN 148
             GLI+CME+  +N D W              +FDCPGQIEL+TH+PV++  V+ L+   F 
Sbjct:    76 GLIFCMEYFSNNFD-WLEESLGHVEDDYI-LFDCPGQIELYTHLPVMKQLVEQLQQWEFR 133

Query:   149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK--KEIEDYLNP 206
             VC V+L+DSQF+ +  KFISG MA+LSAMV LE+P VNI++KMDL++ K  KEIE YL+P
Sbjct:   134 VCGVFLVDSQFMVETFKFISGVMAALSAMVMLEIPQVNIMTKMDLLSPKAKKEIEKYLDP 193

Query:   207 ESQFLLSELNQHM-APQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ 265
             +   ++ + +  + + +F+KL K++  L+D+YSMV F+P D   E  I  VL  ID  IQ
Sbjct:   194 DMYSMMEDNSVALRSKKFSKLTKAICGLIDDYSMVRFLPFDRTDEEGINIVLQHIDFSIQ 253

Query:   266 WGEDADLKIKDFDPEDDDE 284
             +GED ++K    +P++ DE
Sbjct:   254 YGEDLEVK----EPKEVDE 268

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

POMBASE|SPAC4D7.12c fet5 "ATP binding protein Fet5 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 634 (228.2 bits), Expect = 4.8e-62, P = 4.8e-62
 Identities = 125/263 (47%), Positives = 183/263 (69%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGL 90
             +ST+C +L  + ++V R+ H+VNLDPAAENF++   +DIR+LIS++DVMEEL  GPNGGL
Sbjct:    16 KSTFCGALMSYMKSVGRSCHLVNLDPAAENFEWEPTVDIRDLISIDDVMEELDYGPNGGL 75

Query:    91 IYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNV 149
             IYC E L +NLD W              +FD PGQIEL+THVP+L   + HL+ + NF  
Sbjct:    76 IYCFEFLMENLD-WLNEEIGDYDEDYL-IFDMPGQIELYTHVPILPALIRHLQVTLNFRP 133

Query:   150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN-----KKEIEDYL 204
             CAVYLL+SQF+ D TKF +G ++++SAMV +E+PH+N+LSKMDL+ +     K E++ +L
Sbjct:   134 CAVYLLESQFLVDRTKFFAGVLSAMSAMVMMEVPHINLLSKMDLLKDNNNITKAELKRFL 193

Query:   205 NPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI 264
             N +   L  E+N+   P+F +LN+ +++L+D+++MV+F+PL+   E S+  VLS ID+  
Sbjct:   194 NTDPLLLTGEINETTNPKFHELNRCIVQLIDDFNMVNFLPLESGNEESVSRVLSYIDDAT 253

Query:   265 QWGEDADLKIKD-FDPED--DDE 284
             QW ED + K  D F+ +D  DDE
Sbjct:   254 QWYEDQEPKDPDRFEADDLEDDE 276

GO:0005525 "GTP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0008150 "biological_process" evidence=ND

SGD|S000004233 GPN3 "Putative GTPase with a role in biogenesis of RNA pol II and polIII" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 634 (228.2 bits), Expect = 4.8e-62, P = 4.8e-62
 Identities = 122/249 (48%), Positives = 170/249 (68%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGL 90
             +ST+C+S+  H +TV R  HIVNLDPAAE   Y   +DIR+LISL+DVMEE+ LGPNG L
Sbjct:    16 KSTFCNSIISHMQTVGRRAHIVNLDPAAEATKYEFTIDIRDLISLDDVMEEMDLGPNGAL 75

Query:    91 IYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLKSR-NFNV 149
             IYC E+L  NLD W              +FDCPGQIEL+TH+PVL N V HL  + NFN+
Sbjct:    76 IYCFEYLLKNLD-WLDEEIGDFNDEYL-IFDCPGQIELYTHIPVLPNIVRHLTQQLNFNL 133

Query:   150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT---NKKEIEDYLNP 206
             CA YLL++ F+ D +KF SG ++++SAM+ LELPH+N+LSK+DL+    NKK+++ +LNP
Sbjct:   134 CATYLLEAPFVIDSSKFFSGALSAMSAMILLELPHINVLSKLDLIKGDINKKKLKRFLNP 193

Query:   207 ESQFLLSE--LNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI 264
             ++  L+    +NQ   P+F +LN+ +  LVD++ MV F+PL+     SI  +LS +D+  
Sbjct:   194 DAMLLMETEGMNQASNPKFLRLNQCIANLVDDFGMVQFLPLESNNPDSIETILSYVDDIT 253

Query:   265 QWGEDADLK 273
             QW E  + K
Sbjct:   254 QWAEGQEQK 262

GO:0005525 "GTP binding" evidence=IEA;ISA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044376 "RNA polymerase II complex localization to nucleus" evidence=IMP

GO:1990022 "RNA polymerase III complex localization to nucleus" evidence=IMP

GO:0005048 "signal sequence binding" evidence=ISS

GO:0005575 "cellular_component" evidence=ND

MGI|MGI:1289326 Gpn3 "GPN-loop GTPase 3" [Mus musculus (taxid:10090)]

 Score = 631 (227.2 bits), Expect = 1.0e-61, P = 1.0e-61
 Identities = 126/259 (48%), Positives = 176/259 (67%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE--LGLGPNG 88
             +STYCS++ +HCE + R++ +VNLDPAAE+F+YPV  DIRELI ++DVME+  L  GPNG
Sbjct:    16 KSTYCSTMVQHCEALNRSVQVVNLDPAAEHFNYPVMADIRELIEVDDVMEDESLRFGPNG 75

Query:    89 GLIYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLKSRNFN 148
             GL++CME+  +N D W              +FDCPGQIEL+TH+PV++  V  L+   F 
Sbjct:    76 GLVFCMEYFANNFD-WLENCLGHVEDDYI-LFDCPGQIELYTHLPVMKQLVQQLEQWEFR 133

Query:   149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK--KEIEDYLNP 206
             VC V+L+DSQF+ +  KFISG +A+LSAMV LE+P VNI++KMDL++ K  KEIE +L+P
Sbjct:   134 VCGVFLVDSQFMVESFKFISGILAALSAMVSLEIPQVNIMTKMDLLSKKAKKEIEKFLDP 193

Query:   207 ESQFLLSELNQHMAPQ-FAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ 265
             +   L+ +    +  Q F KL K++  LVD+YSMV F+P D   E S+  VL  ID  IQ
Sbjct:   194 DMYSLIDDSTGDLRSQKFKKLTKAVCGLVDDYSMVRFLPYDQSDEESMNIVLQHIDFAIQ 253

Query:   266 WGEDADLKIKDFDPEDDDE 284
             +GED + K    +P + +E
Sbjct:   254 YGEDLEFK----EPREHEE 268

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0005525 "GTP binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

RGD|1303034 Gpn3 "GPN-loop GTPase 3" [Rattus norvegicus (taxid:10116)]

 Score = 631 (227.2 bits), Expect = 1.0e-61, P = 1.0e-61
 Identities = 126/259 (48%), Positives = 176/259 (67%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE--LGLGPNG 88
             +STYCS++ +HCE + R++ +VNLDPAAE+F+YPV  DIRELI ++DVME+  L  GPNG
Sbjct:    16 KSTYCSTMVQHCEALNRSVQVVNLDPAAEHFNYPVMADIRELIEVDDVMEDDSLRFGPNG 75

Query:    89 GLIYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLKSRNFN 148
             GL++CME+  +N D W              +FDCPGQIEL+TH+PV++  V  L+   F 
Sbjct:    76 GLVFCMEYFANNFD-WLENCLGHVEDDYI-LFDCPGQIELYTHLPVMKQLVQQLEQWEFR 133

Query:   149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK--KEIEDYLNP 206
             VC V+L+DSQF+ +  KFISG +A+LSAM+ LE+P VNI++KMDL++ K  KEIE +L+P
Sbjct:   134 VCGVFLVDSQFMVESFKFISGILAALSAMISLEIPQVNIMTKMDLLSKKAKKEIEKFLDP 193

Query:   207 ESQFLLSELNQHMAPQ-FAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ 265
             +   LL +    +  Q F KL K +  LVD+YSMV F+P D   E S+  VL  ID  IQ
Sbjct:   194 DMYSLLEDSTGDLRSQKFKKLTKPVCGLVDDYSMVRFLPYDQSDEESMNIVLQHIDFAIQ 253

Query:   266 WGEDADLKIKDFDPEDDDE 284
             +GED + K    +P++ +E
Sbjct:   254 YGEDLEFK----EPKEHEE 268

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0043234 "protein complex" evidence=ISO

CGD|CAL0002280 orf19.3130 [Candida albicans (taxid:5476)]

 Score = 627 (225.8 bits), Expect = 2.7e-61, P = 2.7e-61
 Identities = 125/259 (48%), Positives = 180/259 (69%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGL 90
             +ST+C+S+  + +++ R  HIVNLDPAA   +Y   +D+++LISL+DVMEE+ LGPNGGL
Sbjct:    16 KSTFCNSMIAYMQSIGRRAHIVNLDPAANPTEYEFTIDVKDLISLQDVMEEMELGPNGGL 75

Query:    91 IYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNV 149
             +YC E L +NLD W              +FDCPGQIEL+TH+PVL   V HL+ S NFN+
Sbjct:    76 VYCFEFLLNNLD-WLDEEIGDYNDEYL-IFDCPGQIELYTHIPVLPTIVRHLQTSLNFNL 133

Query:   150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN---KKEIEDYLNP 206
             CA YLL++ FI D +KF SG ++++SAM+ LELPH+NILSK+DLV +   KK+++ +LNP
Sbjct:   134 CATYLLEAPFIIDNSKFFSGALSAMSAMILLELPHINILSKIDLVKDEYSKKQLKKFLNP 193

Query:   207 ESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNCIQ 265
             +   LL++   ++ P+FAKL +S+  LVD++ MV F+PLD  K+S S+  +LS ID+  Q
Sbjct:   194 DP-LLLAKQEDYINPKFAKLTQSIANLVDDFGMVQFLPLDCSKDSRSVETILSYIDDVTQ 252

Query:   266 WGEDADLKIKDFDPEDDDE 284
             W E  + K    +P D+ E
Sbjct:   253 WSEAQEPK----EPHDEVE 267

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q5A0W6 CaO19.10642 "GPN-loop GTPase 3 homolog CaO19.3130/CaO19.10642" [Candida albicans SC5314 (taxid:237561)]

 Score = 627 (225.8 bits), Expect = 2.7e-61, P = 2.7e-61
 Identities = 125/259 (48%), Positives = 180/259 (69%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGL 90
             +ST+C+S+  + +++ R  HIVNLDPAA   +Y   +D+++LISL+DVMEE+ LGPNGGL
Sbjct:    16 KSTFCNSMIAYMQSIGRRAHIVNLDPAANPTEYEFTIDVKDLISLQDVMEEMELGPNGGL 75

Query:    91 IYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNV 149
             +YC E L +NLD W              +FDCPGQIEL+TH+PVL   V HL+ S NFN+
Sbjct:    76 VYCFEFLLNNLD-WLDEEIGDYNDEYL-IFDCPGQIELYTHIPVLPTIVRHLQTSLNFNL 133

Query:   150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN---KKEIEDYLNP 206
             CA YLL++ FI D +KF SG ++++SAM+ LELPH+NILSK+DLV +   KK+++ +LNP
Sbjct:   134 CATYLLEAPFIIDNSKFFSGALSAMSAMILLELPHINILSKIDLVKDEYSKKQLKKFLNP 193

Query:   207 ESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNCIQ 265
             +   LL++   ++ P+FAKL +S+  LVD++ MV F+PLD  K+S S+  +LS ID+  Q
Sbjct:   194 DP-LLLAKQEDYINPKFAKLTQSIANLVDDFGMVQFLPLDCSKDSRSVETILSYIDDVTQ 252

Query:   266 WGEDADLKIKDFDPEDDDE 284
             W E  + K    +P D+ E
Sbjct:   253 WSEAQEPK----EPHDEVE 267

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|E1C8Z1 GPN3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 625 (225.1 bits), Expect = 4.3e-61, P = 4.3e-61
 Identities = 124/257 (48%), Positives = 174/257 (67%)

Query:    31 QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE--LGLGPNG 88
             +STYCS++ +HCE + R + +VNLDPAAE F YPV  DIRELI ++DVME+  L  GPNG
Sbjct:    16 KSTYCSTMLQHCEALGRAVQVVNLDPAAEFFSYPVMADIRELIEVDDVMEDDSLRFGPNG 75

Query:    89 GLIYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELFTHVPVLRNFVDHLKSRNFN 148
             GL++CME+  +N + W              +FDCPGQIEL+TH+PV++  V+ L+   F 
Sbjct:    76 GLVFCMEYFANNFN-WLEESLGHVEDDYI-LFDCPGQIELYTHLPVMKQLVEQLQQWEFR 133

Query:   149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK--KEIEDYLNP 206
             VC V+L+DSQF+ +  KFISG +A+LSAM+ LE+P +NI++KMDL++ K  KEIE YL+P
Sbjct:   134 VCGVFLVDSQFMVESFKFISGILAALSAMISLEIPQINIMTKMDLLSKKAKKEIEKYLDP 193

Query:   207 ESQFLLSE-LNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ 265
             +   ++ +  N   +  F KL KS+  L+D+Y MV F+P D   E SI  VL  ID  IQ
Sbjct:   194 DMYSMIEDSTNILKSKMFKKLTKSICGLIDDYGMVRFLPFDRSDEESINIVLQHIDTTIQ 253

Query:   266 WGEDADLKI-KDFDPED 281
             +GED + K  K+++ ED
Sbjct:   254 YGEDLEFKEPKEYE-ED 269

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q54NK8	GPN3_DICDI	No assigned EC number	0.4902	0.8838	0.8807	yes	no
Q0P5E2	GPN3_BOVIN	No assigned EC number	0.4939	0.8521	0.8521	yes	no
Q5A0W6	GPN3_CANAL	No assigned EC number	0.5076	0.8732	0.9084	N/A	no
Q6FSS0	GPN3_CANGA	No assigned EC number	0.5080	0.8521	0.8929	yes	no
Q28I42	GPN3_XENTR	No assigned EC number	0.4923	0.8908	0.8877	yes	no
Q6CQA6	GPN3_KLULA	No assigned EC number	0.5116	0.8873	0.9298	yes	no
O14443	GPN3_SCHPO	No assigned EC number	0.5037	0.8908	0.9166	yes	no
Q4IQT8	GPN3_GIBZE	No assigned EC number	0.4059	0.9295	0.8770	yes	no
Q06543	GPN3_YEAST	No assigned EC number	0.512	0.8521	0.8897	yes	no
Q750Q9	GPN3_ASHGO	No assigned EC number	0.5	0.8521	0.8929	yes	no
Q6BI59	GPN3_DEBHA	No assigned EC number	0.5368	0.8345	0.8649	yes	no
Q9D3W4	GPN3_MOUSE	No assigned EC number	0.5180	0.8521	0.8521	yes	no
Q6ZM63	GPN3_DANRE	No assigned EC number	0.5038	0.8767	0.8736	yes	no
Q6CBB5	GPN3_YARLI	No assigned EC number	0.4754	0.8380	0.8782	yes	no
Q4WT40	GPN3_ASPFU	No assigned EC number	0.4516	0.8908	0.8634	yes	no
P0CN94	GPN3_CRYNJ	No assigned EC number	0.5039	0.8697	0.8606	yes	no
P0CN95	GPN3_CRYNB	No assigned EC number	0.5039	0.8697	0.8606	N/A	no
Q6R518	GPN3_RAT	No assigned EC number	0.5180	0.8521	0.8521	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pg.C_LG_XIV1116	hypothetical protein (269 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	grail3.0004003701	hypothetical protein (230 aa)			•	•					0.534
	estExt_fgenesh4_pm.C_LG_VI0124	hypothetical protein (284 aa)			•	•					0.511
	estExt_fgenesh4_pm.C_1070023	hypothetical protein (554 aa)				•					0.444
	grail3.3692000102	hypothetical protein (121 aa)			•						0.439
	estExt_fgenesh4_pm.C_LG_VIII0372	SubName- Full=Putative uncharacterized protein; (160 aa)			•						0.425
	estExt_Genewise1_v1.C_LG_X0940	SubName- Full=Putative uncharacterized protein; (159 aa)			•						0.413
	estExt_fgenesh4_pm.C_LG_XVIII0351	SubName- Full=Putative uncharacterized protein; (160 aa)			•						0.402
	estExt_Genewise1_v1.C_LG_VI0968	SubName- Full=Putative uncharacterized protein; (160 aa)			•						0.402
	gw1.III.419.1	hypothetical protein (133 aa)			•						0.401
	gw1.13170.2.1	hypothetical protein (131 aa)			•						0.401

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	284
pfam03029	235	pfam03029, ATP_bind_1, Conserved hypothetical ATP	2e-86
PRK13768	253	PRK13768, PRK13768, GTPase; Provisional	5e-40
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	4e-17

>gnl|CDD|217326 pfam03029, ATP_bind_1, Conserved hypothetical ATP binding protein

 Score =  257 bits (659), Expect = 2e-86
 Identities = 95/236 (40%), Positives = 147/236 (62%), Gaps = 11/236 (4%)

Query: 32  STYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLI 91
           +T+  +L      + R++++VNLDPAAEN  Y   +DIRELI++ DVME+ GLGPNG L 
Sbjct: 10  TTFVGALSEILPLLGRSVYVVNLDPAAENLPYEADIDIRELITVADVMEDDGLGPNGALT 69

Query: 92  YCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCA 151
             M+ L   L DWL EEL+   +DDY +FD PGQIELFTH   L   V+ L++ +  + A
Sbjct: 70  VAMDFLRITL-DWLLEELEY--EDDYYLFDTPGQIELFTHWESLARGVEALEA-SLRLGA 125

Query: 152 VYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFL 211
           VYL+D++ +TD + F SG + +LS M++L LP V  L+K DL++ +  ++ + +P+   L
Sbjct: 126 VYLVDTRRLTDPSDFFSGLLYALSIMLRLGLPFVVALNKFDLLSLEFALKWFTDPDDLQL 185

Query: 212 LSELNQHMAPQFAKLNKSLIELVDEYSMV-SFMPLDLRKESSIRYVLSQIDNCIQW 266
           L EL        +KLN+++ E +D + +V  F+P       S+  +L+ ID  +Q+
Sbjct: 186 LLEL------DPSKLNEAIREALDLFYLVPRFLPDARETGESMEDLLTLIDEALQY 235

Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity. Length = 235

>gnl|CDD|237498 PRK13768, PRK13768, GTPase; Provisional

 Score =  139 bits (352), Expect = 5e-40
 Identities = 64/190 (33%), Positives = 105/190 (55%), Gaps = 9/190 (4%)

Query: 51  IVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLDDWLAEELD 110
           IVNLDPA E   Y    D+R+ ++  ++M++ GLGPNG LI  ++ L    D+ + EE++
Sbjct: 35  IVNLDPAVEYLPYTPDFDVRDYVTAREIMKKYGLGPNGALIASVDLLLTKADE-IKEEIE 93

Query: 111 NYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGC 170
             LD DY++ D PGQ+ELF      R  V+ L S +     V+L+D+      + F+S  
Sbjct: 94  -SLDADYVLVDTPGQMELFAFRESGRKLVERL-SGSSKSVVVFLIDAVLAKTPSDFVSLL 151

Query: 171 MASLSAMVQLELPHVNILSKMDLVTNK--KEIEDYL-NPESQFLLSELNQHMAPQFAKLN 227
           + +LS  ++L LP + +L+K DL++ +  + I  +L +PE   LL EL          L+
Sbjct: 152 LLALSVQLRLGLPQIPVLNKADLLSEEELERILKWLEDPEY--LLEELKLE-KGLQGLLS 208

Query: 228 KSLIELVDEY 237
             L+  ++E 
Sbjct: 209 LELLRALEET 218

Length = 253

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score = 77.7 bits (191), Expect = 4e-17
 Identities = 48/206 (23%), Positives = 66/206 (32%), Gaps = 18/206 (8%)

Query: 32  STYCSSLYRHCETVRRTMHIVNLDPAAENFDYP-----VAMDIRELISLEDVMEELGLGP 86
           +T  + L            I NLDPA     Y         D         +  E   G 
Sbjct: 19  TTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGA 78

Query: 87  NGGLIYC----MEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHL 142
           NG LI       E  ++  ++WL EEL     DD  +     +I+LF         ++ L
Sbjct: 79  NGILIVYDSTLRESSDELTEEWL-EELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQL 137

Query: 143 KSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIED 202
                    V L+ +             +   SA   L  P+VN L K  L    +EIE 
Sbjct: 138 NR-----EVVLLVLAPKAVLPEVANPALLE-TSAK-SLTGPNVNELFKELLRKLLEEIEK 190

Query: 203 Y-LNPESQFLLSELNQHMAPQFAKLN 227
             L  E + L    N       A  N
Sbjct: 191 LVLKNELRQLDRLNNPIEQAALASFN 216

Length = 219

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	284
KOG1534	273	consensus Putative transcription factor FET5 [Tran	100.0
KOG1533	290	consensus Predicted GTPase [General function predi	100.0
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	100.0
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	100.0
PRK13768	253	GTPase; Provisional	100.0
COG1159	298	Era GTPase [General function prediction only]	99.88
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.78
PRK00089	292	era GTPase Era; Reviewed	99.74
COG1160	444	Predicted GTPases [General function prediction onl	99.68
PRK12298	390	obgE GTPase CgtA; Reviewed	99.64
PRK15494	339	era GTPase Era; Provisional	99.64
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.62
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.58
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.58
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.56
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.55
COG0536	369	Obg Predicted GTPase [General function prediction	99.55
cd02117	212	NifH_like This family contains the NifH (iron prot	99.54
PRK12299	335	obgE GTPase CgtA; Reviewed	99.54
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.54
cd02032	267	Bchl_like This family of proteins contains bchL an	99.53
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.53
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	99.52
CHL00072	290	chlL photochlorophyllide reductase subunit L	99.51
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.51
PRK12297	424	obgE GTPase CgtA; Reviewed	99.5
cd02040	270	NifH NifH gene encodes component II (iron protein)	99.49
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	99.49
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.49
PRK12296	500	obgE GTPase CgtA; Reviewed	99.48
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.47
PRK13869	405	plasmid-partitioning protein RepA; Provisional	99.46
PHA02519	387	plasmid partition protein SopA; Reviewed	99.45
COG1192	259	Soj ATPases involved in chromosome partitioning [C	99.45
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.44
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	99.44
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.44
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.44
PRK13232	273	nifH nitrogenase reductase; Reviewed	99.44
cd00881	189	GTP_translation_factor GTP translation factor fami	99.43
PRK09866	741	hypothetical protein; Provisional	99.43
CHL00175	281	minD septum-site determining protein; Validated	99.43
PRK13230	279	nitrogenase reductase-like protein; Reviewed	99.43
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.42
PRK13705	388	plasmid-partitioning protein SopA; Provisional	99.42
PHA02518	211	ParA-like protein; Provisional	99.42
PRK13849	231	putative crown gall tumor protein VirC1; Provision	99.42
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	99.41
PRK10037	250	cell division protein; Provisional	99.41
PRK03003	472	GTP-binding protein Der; Reviewed	99.41
PRK13233	275	nifH nitrogenase reductase; Reviewed	99.41
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.4
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	99.4
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.4
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.4
TIGR00064	272	ftsY signal recognition particle-docking protein F	99.39
PRK13235	274	nifH nitrogenase reductase; Reviewed	99.38
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	99.38
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	99.38
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	99.38
PRK00093	435	GTP-binding protein Der; Reviewed	99.38
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.38
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.37
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.37
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.36
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.36
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.36
PRK10416	318	signal recognition particle-docking protein FtsY;	99.36
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.35
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.35
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.35
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	99.34
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.34
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.34
TIGR01287	275	nifH nitrogenase iron protein. This model describe	99.34
cd02036	179	MinD Bacterial cell division requires the formatio	99.34
KOG2749	415	consensus mRNA cleavage and polyadenylation factor	99.34
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	99.33
PRK11058	426	GTPase HflX; Provisional	99.33
PRK00093	435	GTP-binding protein Der; Reviewed	99.33
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.33
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.33
PRK10818	270	cell division inhibitor MinD; Provisional	99.32
COG1160	444	Predicted GTPases [General function prediction onl	99.31
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.31
PRK03003	472	GTP-binding protein Der; Reviewed	99.29
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.29
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.29
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.28
PRK12736	394	elongation factor Tu; Reviewed	99.27
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.27
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.27
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.27
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.26
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.26
PRK13231	264	nitrogenase reductase-like protein; Reviewed	99.26
cd03114	148	ArgK-like The function of this protein family is u	99.26
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.26
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.26
CHL00071	409	tufA elongation factor Tu	99.26
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.26
PRK00049	396	elongation factor Tu; Reviewed	99.26
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.26
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.26
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.26
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.25
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.25
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.25
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.25
PLN03127	447	Elongation factor Tu; Provisional	99.25
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.25
PRK12735	396	elongation factor Tu; Reviewed	99.25
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.25
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.24
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.24
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.24
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.24
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	99.24
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.23
cd03110	179	Fer4_NifH_child This protein family's function is	99.23
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.23
PRK13234	295	nifH nitrogenase reductase; Reviewed	99.23
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.22
PTZ00133	182	ADP-ribosylation factor; Provisional	99.22
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.22
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	99.22
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.21
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.21
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.21
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.21
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.2
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.2
PRK04213	201	GTP-binding protein; Provisional	99.2
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.2
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.2
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.19
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.19
PRK11670	369	antiporter inner membrane protein; Provisional	99.19
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.19
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.18
PRK00771	437	signal recognition particle protein Srp54; Provisi	99.18
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.18
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.18
PRK14974	336	cell division protein FtsY; Provisional	99.18
PRK09602	396	translation-associated GTPase; Reviewed	99.18
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.18
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.18
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.18
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.17
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.17
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.17
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.17
COG1084	346	Predicted GTPase [General function prediction only	99.17
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.17
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.17
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	99.17
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.17
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.16
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.15
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.15
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	99.15
cd03115	173	SRP The signal recognition particle (SRP) mediates	99.14
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.14
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.14
PRK13236	296	nitrogenase reductase; Reviewed	99.14
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.13
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.13
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	99.13
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.13
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.13
cd02035	217	ArsA ArsA ATPase functionas as an efflux pump loca	99.13
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.13
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	99.13
COG0486	454	ThdF Predicted GTPase [General function prediction	99.13
PRK10867	433	signal recognition particle protein; Provisional	99.12
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.12
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.12
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.12
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.12
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.12
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.12
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.12
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.12
PLN03118	211	Rab family protein; Provisional	99.12
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.11
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	99.11
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.11
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.11
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.11
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.11
PRK11519	719	tyrosine kinase; Provisional	99.11
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.1
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.1
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.1
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.1
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.09
PLN00223	181	ADP-ribosylation factor; Provisional	99.09
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.09
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.09
PRK12317	425	elongation factor 1-alpha; Reviewed	99.09
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.09
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.08
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	99.08
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.08
PTZ00141	446	elongation factor 1- alpha; Provisional	99.08
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.07
PLN03110	216	Rab GTPase; Provisional	99.06
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.06
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	99.06
COG2262	411	HflX GTPases [General function prediction only]	99.06
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.06
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.06
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.06
TIGR00959	428	ffh signal recognition particle protein. This mode	99.06
cd03111	106	CpaE_like This protein family consists of proteins	99.06
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	99.06
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.06
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.05
COG1341	398	Predicted GTPase or GTP-binding protein [General f	99.05
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.05
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	99.05
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.05
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	99.05
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.05
PTZ00369	189	Ras-like protein; Provisional	99.05
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	99.05
PLN03126	478	Elongation factor Tu; Provisional	99.04
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.04
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.04
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.04
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.03
PRK12739	691	elongation factor G; Reviewed	99.03
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	99.03
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.02
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.02
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.01
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.01
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	99.01
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.0
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.0
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	99.0
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.0
COG0455	262	flhG Antiactivator of flagellar biosynthesis FleN,	98.99
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	98.99
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	98.99
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.99
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.99
PLN00043	447	elongation factor 1-alpha; Provisional	98.98
PRK05433	600	GTP-binding protein LepA; Provisional	98.98
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	98.98
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.97
PRK10218	607	GTP-binding protein; Provisional	98.97
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.97
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.97
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	98.96
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	98.96
PLN03108	210	Rab family protein; Provisional	98.95
COG0218	200	Predicted GTPase [General function prediction only	98.95
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	98.95
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	98.95
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.95
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.93
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.93
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	98.91
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.91
PRK00007	693	elongation factor G; Reviewed	98.9
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.9
cd02033	329	BchX Chlorophyllide reductase converts chlorophyll	98.89
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	98.88
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	98.88
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	98.88
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	98.88
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	98.88
CHL00189	742	infB translation initiation factor 2; Provisional	98.87
PRK12740	668	elongation factor G; Reviewed	98.85
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.85
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.85
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	98.85
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	98.84
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.84
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.83
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.83
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.82
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	98.79
PRK05306	787	infB translation initiation factor IF-2; Validated	98.78
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	98.78
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	98.77
PRK04004	586	translation initiation factor IF-2; Validated	98.77
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	98.76
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.76
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.76
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	98.75
PRK13351	687	elongation factor G; Reviewed	98.75
COG1100	219	GTPase SAR1 and related small G proteins [General	98.74
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	98.74
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	98.74
COG5623	424	CLP1 Predicted GTPase subunit of the pre-mRNA clea	98.72
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.72
PTZ00258	390	GTP-binding protein; Provisional	98.71
COG0489	265	Mrp ATPases involved in chromosome partitioning [C	98.71
COG2894	272	MinD Septum formation inhibitor-activating ATPase	98.71
PF09140	261	MipZ: ATPase MipZ; InterPro: IPR015223 Cell divisi	98.71
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	98.7
COG1163	365	DRG Predicted GTPase [General function prediction	98.7
cd02034	116	CooC The accessory protein CooC, which contains a	98.69
cd04105	203	SR_beta Signal recognition particle receptor, beta	98.69
COG2229	187	Predicted GTPase [General function prediction only	98.69
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.69
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.67
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	98.66
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	98.65
PRK13886	241	conjugal transfer protein TraL; Provisional	98.65
cd03112	158	CobW_like The function of this protein family is u	98.63
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	98.63
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.62
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	98.6
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	98.59
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.59
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	98.58
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	98.58
PTZ00099	176	rab6; Provisional	98.55
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	98.55
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.54
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.54
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	98.51
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	98.47
KOG0780	483	consensus Signal recognition particle, subunit Srp	98.47
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	98.46
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.46
PRK07560	731	elongation factor EF-2; Reviewed	98.43
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.42
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	98.41
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.41
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.39
KOG3022	300	consensus Predicted ATPase, nucleotide-binding [Ce	98.38
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	98.38
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.35
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	98.34
PRK14845	1049	translation initiation factor IF-2; Provisional	98.32
PTZ00416	836	elongation factor 2; Provisional	98.32
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.32
KOG0781	587	consensus Signal recognition particle receptor, al	98.3
COG1149	284	MinD superfamily P-loop ATPase containing an inser	98.27
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.25
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.22
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.22
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.22
KOG0090	238	consensus Signal recognition particle receptor, be	98.2
KOG1145	683	consensus Mitochondrial translation initiation fac	98.2
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.18
KOG0410	410	consensus Predicted GTP binding protein [General f	98.17
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	98.17
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.16
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.14
KOG0462	650	consensus Elongation factor-type GTP-binding prote	98.13
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.12
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.1
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	98.08
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	98.08
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.07
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	98.06
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	98.05
COG3596	296	Predicted GTPase [General function prediction only	98.04
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	98.04
KOG0395	196	consensus Ras-related GTPase [General function pre	98.03
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	98.03
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.02
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.01
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	97.99
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.98
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	97.98
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	97.97
PRK09601	364	GTP-binding protein YchF; Reviewed	97.96
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.95
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	97.94
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	97.94
PRK00090	222	bioD dithiobiotin synthetase; Reviewed	97.93
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.91
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.9
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.88
KOG2825	323	consensus Putative arsenite-translocating ATPase [	97.88
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.84
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.83
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	97.79
COG1217	603	TypA Predicted membrane GTPase involved in stress	97.79
PRK12289	352	GTPase RsgA; Reviewed	97.79
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.77
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	97.77
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.76
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	97.75
PRK06067	234	flagellar accessory protein FlaH; Validated	97.74
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.72
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	97.71
KOG0460	449	consensus Mitochondrial translation elongation fac	97.71
PF13479	213	AAA_24: AAA domain	97.68
PRK05541	176	adenylylsulfate kinase; Provisional	97.67
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	97.65
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	97.62
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.6
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.6
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.58
PRK00889	175	adenylylsulfate kinase; Provisional	97.53
PRK07667	193	uridine kinase; Provisional	97.52
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	97.52
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	97.51
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.5
COG3276	447	SelB Selenocysteine-specific translation elongatio	97.5
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	97.49
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.49
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.49
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	97.46
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.46
PRK00098	298	GTPase RsgA; Reviewed	97.46
PRK06696	223	uridine kinase; Validated	97.46
PRK13796	365	GTPase YqeH; Provisional	97.45
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	97.45
COG0012	372	Predicted GTPase, probable translation factor [Tra	97.43
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.4
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	97.39
COG1348	278	NifH Nitrogenase subunit NifH (ATPase) [Inorganic	97.39
PRK04328	249	hypothetical protein; Provisional	97.38
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.37
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.36
smart00382	148	AAA ATPases associated with a variety of cellular	97.34
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.33
cd03116	159	MobB Molybdenum is an essential trace element in t	97.31
PRK05480	209	uridine/cytidine kinase; Provisional	97.29
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	97.29
PRK03846	198	adenylylsulfate kinase; Provisional	97.29
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	97.28
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.27
PRK06762	166	hypothetical protein; Provisional	97.26
PRK12374	231	putative dithiobiotin synthetase; Provisional	97.26
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.26
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	97.26
PHA00729	226	NTP-binding motif containing protein	97.25
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	97.24
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.18
PLN00023	334	GTP-binding protein; Provisional	97.17
PF13173	128	AAA_14: AAA domain	97.15
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.15
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.15
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.14
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.14
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.14
PF13245	76	AAA_19: Part of AAA domain	97.14
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.13
PRK06526	254	transposase; Provisional	97.13
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	97.12
PRK00279	215	adk adenylate kinase; Reviewed	97.11
TIGR00313	475	cobQ cobyric acid synthase CobQ.	97.1
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.1
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.1
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.09
PRK07952	244	DNA replication protein DnaC; Validated	97.09
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.08
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.08
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	97.08
PRK01077	451	cobyrinic acid a,c-diamide synthase; Validated	97.07
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	97.06
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.06
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	97.05
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.04
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	97.04
PRK09354	349	recA recombinase A; Provisional	97.03
PRK05439	311	pantothenate kinase; Provisional	97.03
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	97.03
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	97.02
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.01
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.01
PRK01889	356	GTPase RsgA; Reviewed	97.0
PRK08118	167	topology modulation protein; Reviewed	96.99
PRK09183	259	transposase/IS protein; Provisional	96.96
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.96
PRK09302	509	circadian clock protein KaiC; Reviewed	96.94
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	96.94
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.94
PRK08233	182	hypothetical protein; Provisional	96.94
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	96.92
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.92
KOG0465	721	consensus Mitochondrial elongation factor [Transla	96.91
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.91
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.9
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.9
PRK08506	472	replicative DNA helicase; Provisional	96.89
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.89
PRK05632	684	phosphate acetyltransferase; Reviewed	96.88
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	96.88
PRK13808	333	adenylate kinase; Provisional	96.87
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.84
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.83
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.82
COG0523	323	Putative GTPases (G3E family) [General function pr	96.81
PRK08181	269	transposase; Validated	96.81
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.8
KOG1143	591	consensus Predicted translation elongation factor	96.8
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.8
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	96.79

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=100.00  E-value=1.6e-59  Score=405.31  Aligned_cols=262  Identities=61%  Similarity=1.088  Sum_probs=242.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      .++++|+||| |||||+|.++.+|....||++.+|||||+++.+.|+..+|||++|++.|||+.+.+||||++++|||++
T Consensus         3 ~ya~lV~GpAgSGKSTyC~~~~~h~e~~gRs~~vVNLDPAae~f~y~~~iDiRdlIsvdDVmEdl~~GPNGgLv~cmEyl   82 (273)
T KOG1534|consen    3 RYAQLVMGPAGSGKSTYCSSMYEHCETVGRSVHVVNLDPAAEHFNYPVTIDIRDLISVDDVMEDLDLGPNGGLVYCMEYL   82 (273)
T ss_pred             ceeEEEEccCCCCcchHHHHHHHHHHhhCceeEEeecCHHHHhhCCcccccHHHhccHHHHHHHhccCCCccchhHHHHH
Confidence            3579999999 999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM  177 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~  177 (284)
                      ..|+ +||.+.+..+ +.+|+++|||||+|+|+|.+..++++++++..+++.+++||+|+....+-.+|++.++.++++|
T Consensus        83 ~~Nl-dwL~~~~Gd~-eddylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAM  160 (273)
T KOG1534|consen   83 LENL-DWLEEEIGDV-EDDYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAM  160 (273)
T ss_pred             HHHH-HHHHhhccCc-cCCEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHH
Confidence            9999 9999887766 8899999999999999999999999999988889999999999999999999999999999999


Q ss_pred             HhcCCCEEEEecCCccccc--hhhhhhhcCcchHHHHH--HhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccH
Q 023298          178 VQLELPHVNILSKMDLVTN--KKEIEDYLNPESQFLLS--ELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSI  253 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~--~~~l~~~l~~~~~~l~~--~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l  253 (284)
                      .+++.|+|+|++|.|++++  +.++++|++.+...+.+  +++. .++|+.+|++.|++++++|++++|+|+...+.+++
T Consensus       161 i~lE~P~INvlsKMDLlk~~~k~~l~~Fl~~d~~~l~~~~~~~~-~s~Kf~~L~~~i~~~v~d~~Mv~FlPl~~~~eeSi  239 (273)
T KOG1534|consen  161 ISLEVPHINVLSKMDLLKDKNKKELERFLNPDEYLLLEDSEINL-RSPKFKKLTKCIAQLVDDYSMVNFLPLDSSDEESI  239 (273)
T ss_pred             HHhcCcchhhhhHHHHhhhhhHHHHHHhcCCchhhhhccccccc-ccHHHHHHHHHHHHHhccccceeeeecCCCCHHHH
Confidence            9999999999999999974  33789999877666653  3443 34799999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCCCCCCCCCCCCCC
Q 023298          254 RYVLSQIDNCIQWGEDADLKIKDFDPEDDD  283 (284)
Q Consensus       254 ~~Ll~~I~~~l~~g~d~~~~~~~~~~~~~~  283 (284)
                      +.++..|+.+.|+||+.||++||.+|.|++
T Consensus       240 ~~iL~~ID~aiQy~Ed~E~k~~d~~e~d~~  269 (273)
T KOG1534|consen  240 NIILSYIDDAIQYGEDLEPKEPDEDEDDDS  269 (273)
T ss_pred             HHHHHHHHHHHHhccccCccCCCccccccc
Confidence            999999999999999999999987665553

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=100.00  E-value=6.1e-55  Score=382.12  Aligned_cols=246  Identities=42%  Similarity=0.769  Sum_probs=227.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      |++++||||| |||||+|..+++.++..||+|++|||||++...+|++++||++++++.++|+++++||||++++|||.+
T Consensus         2 ~fgqvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~~~Y~~~v~I~elit~edvm~~~~LGPNg~l~yc~E~l   81 (290)
T KOG1533|consen    2 PFGQVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDNLPYECAVDIRELITVEDVMEELGLGPNGALKYCMEYL   81 (290)
T ss_pred             CcceEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcccCCCCCCcccHHHHccHHHHHHHhCCCCchhHHHHHHHH
Confidence            6789999999 999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM  177 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~  177 (284)
                      ..++ +||.++|+.. .+.|++||||||+|.|+++....++.+.|.+.+++.+++.|+|+..+++|+.|++.++.++.+|
T Consensus        82 ~~~i-dwl~~~l~~~-~~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~iS~lL~sl~tM  159 (290)
T KOG1533|consen   82 EANI-DWLLEKLKPL-TDHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKFISSLLVSLATM  159 (290)
T ss_pred             Hhhh-HHHHHHhhhc-cCcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHHHHHHHHHHHHH
Confidence            9999 9999999986 7899999999999999999999999999988899999999999999999999999999999999


Q ss_pred             HhcCCCEEEEecCCccccchhhh---hhhcC--cchHHHHHHhhh-cchhHHHHHHHHHHHHHhccCCceEEEEeccCcc
Q 023298          178 VQLELPHVNILSKMDLVTNKKEI---EDYLN--PESQFLLSELNQ-HMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES  251 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~~~~l---~~~l~--~~~~~l~~~l~~-~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~  251 (284)
                      +.++.|||+|++|+|++++-..+   .++..  .|.++|...++. +..++|++|+.+|++++++|++++|.+++..+++
T Consensus       160 l~melphVNvlSK~Dl~~~ygkl~f~ld~yt~v~Dl~yL~~~ld~dp~~~kYrkLne~ic~~IeD~~LVSF~~L~v~nke  239 (290)
T KOG1533|consen  160 LHMELPHVNVLSKADLLKKYGKLPFNLDFYTEVQDLSYLEDLLDVDPRLRKYRKLNEAICELIEDFNLVSFEVLDVDNKE  239 (290)
T ss_pred             HhhcccchhhhhHhHHHHhhcccccccchhhhhhhHHHHHHHhccChhhhHHHHHHHHHHHHHhccCceeeEEeeccCHH
Confidence            99999999999999998754222   12222  256677666654 4567999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHhcCC
Q 023298          252 SIRYVLSQIDNCIQW  266 (284)
Q Consensus       252 ~l~~Ll~~I~~~l~~  266 (284)
                      ++.+|.+.||++.+|
T Consensus       240 Sml~l~~~IDkAnGy  254 (290)
T KOG1533|consen  240 SMLRLQQTIDKANGY  254 (290)
T ss_pred             HHHHHHHHHHhccCe
Confidence            999999999999995

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=100.00  E-value=3e-54  Score=387.45  Aligned_cols=235  Identities=47%  Similarity=0.839  Sum_probs=185.2

Q ss_pred             EECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhcHH
Q 023298           24 VFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLD  102 (284)
Q Consensus        24 viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~~~  102 (284)
                      |+||| |||||+|.++++|+...||+|.+|||||+++.+||++++||||+|+++++|+++++||||++++|||++..|+ 
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDPa~~~~~y~~~iDird~i~~~evm~~~~LGPNGal~~~me~l~~~~-   79 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLDPAVENLPYPPDIDIRDLISVEEVMEEYGLGPNGALIYCMEYLEENI-   79 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--TT-S--SS--SEEGGGT--HHHHHTT-T--HHHHHHHHHHHHGGGH-
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcchHhcccccCchHHHHhhhhhhhhhhhcCcCCcHHHHHHHHHHHHHH-
Confidence            79999 9999999999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             HHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCC
Q 023298          103 DWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLEL  182 (284)
Q Consensus       103 ~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~  182 (284)
                      +|+.+++++. +.+|++||||||+|.|.|+..+.+++++|++ +.+.+++||+|+..+.+|..|+++++.+++.+.+++.
T Consensus        80 d~l~~~i~~~-~~~y~l~DtPGQiElf~~~~~~~~i~~~L~~-~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~l  157 (238)
T PF03029_consen   80 DWLDEEIEKY-EDDYLLFDTPGQIELFTHSDSGRKIVERLQK-NGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLEL  157 (238)
T ss_dssp             HHHHHHHHHH-H-SEEEEE--SSHHHHHHSHHHHHHHHTSSS-----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHhhc-CCcEEEEeCCCCEEEEEechhHHHHHHHHhh-hcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCC
Confidence            9999999877 7799999999999999999999999999976 6788999999999999999999999999999999999


Q ss_pred             CEEEEecCCccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCc-eEEEEeccCcccHHHHHHHH
Q 023298          183 PHVNILSKMDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMV-SFMPLDLRKESSIRYVLSQI  260 (284)
Q Consensus       183 p~IlVlNK~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~-~~ipiSa~~~~~l~~Ll~~I  260 (284)
                      |+|+|+||+|++++.. ...++. .+++.+...++..    +++++.+|++++++|+.. +|+|+|+++++|+.+|++.|
T Consensus       158 P~vnvlsK~Dl~~~~~~~~l~~~-~d~~~l~~~~~~~----~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~i  232 (238)
T PF03029_consen  158 PHVNVLSKIDLLSKYLEFILEWF-EDPDSLEDLLESD----YKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAI  232 (238)
T ss_dssp             EEEEEE--GGGS-HHHHHHHHHH-HSHHHHHHHHHT-----HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHH
T ss_pred             CEEEeeeccCcccchhHHHHHHh-cChHHHHHHHHHH----HHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHH
Confidence            9999999999987220 222333 2455555544432    889999999999999998 99999999999999999999


Q ss_pred             HHhcCC
Q 023298          261 DNCIQW  266 (284)
Q Consensus       261 ~~~l~~  266 (284)
                      +++++|
T Consensus       233 d~a~~y  238 (238)
T PF03029_consen  233 DKANQY  238 (238)
T ss_dssp             HHHHH-
T ss_pred             HHHhcC
Confidence            999876

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=100.00  E-value=3.6e-46  Score=333.37  Aligned_cols=247  Identities=23%  Similarity=0.420  Sum_probs=221.8

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCME   95 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e   95 (284)
                      .+|.+++|+|+| |||||+|+.|..|+...+.++++|||||+....||+..+||||.+...++|++|+|||||+++.|++
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~TsLN   96 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTSLN   96 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhhHH
Confidence            568899999999 9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhcHHHHHHHHhhccC-CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           96 HLEDNLDDWLAEELDNYL-DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        96 ~~~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                      ++..++++.++ -+++.+ ..+||+||||||+|.|.|+..|..+...|.. .+..+++|++|+.+..+|..|+++++.+.
T Consensus        97 LF~tk~dqv~~-~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~las-s~ptvv~YvvDt~rs~~p~tFMSNMlYAc  174 (366)
T KOG1532|consen   97 LFATKFDQVIE-LIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLAS-SFPTVVVYVVDTPRSTSPTTFMSNMLYAC  174 (366)
T ss_pred             HHHHHHHHHHH-HHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhh-cCCeEEEEEecCCcCCCchhHHHHHHHHH
Confidence            99999975432 233222 5689999999999999999999999999854 46789999999999999999999999999


Q ss_pred             HHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccH
Q 023298          175 SAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSI  253 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l  253 (284)
                      +.+.+.++|+|+|+||+|+.+.+ -..+|+. |++.+.+++++..++....|.+++.-.+++| ..++++.+|+.+|.|+
T Consensus       175 Silyktklp~ivvfNK~Dv~d~~-fa~eWm~-DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~  252 (366)
T KOG1532|consen  175 SILYKTKLPFIVVFNKTDVSDSE-FALEWMT-DFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGF  252 (366)
T ss_pred             HHHHhccCCeEEEEecccccccH-HHHHHHH-HHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcH
Confidence            99999999999999999998777 4567774 8889999998766778889999999999884 7799999999999999


Q ss_pred             HHHHHHHHHhcCCC
Q 023298          254 RYVLSQIDNCIQWG  267 (284)
Q Consensus       254 ~~Ll~~I~~~l~~g  267 (284)
                      ++++.+|++.+.+.
T Consensus       253 ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  253 DDFFTAVDESVDEY  266 (366)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999776543

>PRK13768 GTPase; Provisional

Probab=100.00  E-value=2e-38  Score=287.31  Aligned_cols=246  Identities=29%  Similarity=0.523  Sum_probs=214.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      +++++|.|++ |||||+|.+++.+++..|++|++||+|||.+..+|.+++|+++.++..++|.++++||||+++++++++
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~~D~~~~~~~~~~~~~i~~~~~~~~v~~~~~l~p~~~~~~~~~~~   81 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVNLDPAVEYLPYTPDFDVRDYVTAREIMKKYGLGPNGALIASVDLL   81 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEECCCccccCCCCCCcchhhheeHHHHHHHcCCCCchHHHHHHHHH
Confidence            4678999999 999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM  177 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~  177 (284)
                      ..+. +|+.+.++.. +.+|+++||||+++.+.++..++.+.++++... ..+++|++|+....++.++....+..+..+
T Consensus        82 ~~~~-~~l~~~l~~~-~~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~-~~~ii~liD~~~~~~~~d~~~~~~l~~~~~  158 (253)
T PRK13768         82 LTKA-DEIKEEIESL-DADYVLVDTPGQMELFAFRESGRKLVERLSGSS-KSVVVFLIDAVLAKTPSDFVSLLLLALSVQ  158 (253)
T ss_pred             HHHH-HHHHHHHHhc-CCCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcC-CeEEEEEechHHhCCHHHHHHHHHHHHHHH
Confidence            8888 7888888776 679999999999999988898999999987544 678999999987777888766665556666


Q ss_pred             HhcCCCEEEEecCCccccchhhh---hhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC-ceEEEEeccCcccH
Q 023298          178 VQLELPHVNILSKMDLVTNKKEI---EDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM-VSFMPLDLRKESSI  253 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~~~~l---~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~-~~~ipiSa~~~~~l  253 (284)
                      .+.++|+++|+||+|++++. +.   .++++ +++.+.+++....+.. ++|+.+|++.+++++. .+++|+|+++++|+
T Consensus       159 ~~~~~~~i~v~nK~D~~~~~-~~~~~~~~l~-~~~~~~~~l~~~~~~~-~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl  235 (253)
T PRK13768        159 LRLGLPQIPVLNKADLLSEE-ELERILKWLE-DPEYLLEELKLEKGLQ-GLLSLELLRALEETGLPVRVIPVSAKTGEGF  235 (253)
T ss_pred             HHcCCCEEEEEEhHhhcCch-hHHHHHHHHh-CHHHHHHHHhcccchH-HHHHHHHHHHHHHHCCCCcEEEEECCCCcCH
Confidence            67899999999999998754 33   33443 6777777776655555 8999999999999875 58999999999999


Q ss_pred             HHHHHHHHHhcCCCCCC
Q 023298          254 RYVLSQIDNCIQWGEDA  270 (284)
Q Consensus       254 ~~Ll~~I~~~l~~g~d~  270 (284)
                      ++|++.|.+.++.++|.
T Consensus       236 ~~L~~~I~~~l~~~~~~  252 (253)
T PRK13768        236 DELYAAIQEVFCGGEDL  252 (253)
T ss_pred             HHHHHHHHHHcCCCCCC
Confidence            99999999999999985

>COG1159 Era GTPase [General function prediction only]

Probab=99.88  E-value=8e-22  Score=179.52  Aligned_cols=172  Identities=15%  Similarity=0.194  Sum_probs=135.0

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .|.|+|.| ||||||..+|-      |+++.+|-=-||.+..      .|+..++                         
T Consensus         8 fVaIiGrPNvGKSTLlN~l~------G~KisIvS~k~QTTR~------~I~GI~t-------------------------   50 (298)
T COG1159           8 FVAIIGRPNVGKSTLLNALV------GQKISIVSPKPQTTRN------RIRGIVT-------------------------   50 (298)
T ss_pred             EEEEEcCCCCcHHHHHHHHh------cCceEeecCCcchhhh------heeEEEE-------------------------
Confidence            38899999 99999998875      5899999988888742      1222110                         


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCC-CCCHHHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQF-ITDVTKFISGCMASLSAM  177 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~-~~~~~~~i~~~l~~l~~~  177 (284)
                                  ..++|+||+||||.++  .++.+++.|++... +....++++|++|+.. +...+.++...+.     
T Consensus        51 ------------~~~~QiIfvDTPGih~--pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk-----  111 (298)
T COG1159          51 ------------TDNAQIIFVDTPGIHK--PKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQLK-----  111 (298)
T ss_pred             ------------cCCceEEEEeCCCCCC--cchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHHHHHHh-----
Confidence                        1167999999999999  67888888888765 4566789999999987 6777777765543     


Q ss_pred             HhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHH
Q 023298          178 VQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll  257 (284)
                       +.+.|+++++||+|.++++..+..+.                          ..+...+.|.+++|+||++|.|++.|+
T Consensus       112 -~~~~pvil~iNKID~~~~~~~l~~~~--------------------------~~~~~~~~f~~ivpiSA~~g~n~~~L~  164 (298)
T COG1159         112 -KTKTPVILVVNKIDKVKPKTVLLKLI--------------------------AFLKKLLPFKEIVPISALKGDNVDTLL  164 (298)
T ss_pred             -hcCCCeEEEEEccccCCcHHHHHHHH--------------------------HHHHhhCCcceEEEeeccccCCHHHHH
Confidence             45789999999999988762233332                          222345677899999999999999999


Q ss_pred             HHHHHhcCCCCCCCCCCC
Q 023298          258 SQIDNCIQWGEDADLKIK  275 (284)
Q Consensus       258 ~~I~~~l~~g~d~~~~~~  275 (284)
                      +.+.+.||+||...|.+-
T Consensus       165 ~~i~~~Lpeg~~~yp~d~  182 (298)
T COG1159         165 EIIKEYLPEGPWYYPEDQ  182 (298)
T ss_pred             HHHHHhCCCCCCcCChhh
Confidence            999999999999998776

>TIGR00436 era GTP-binding protein Era

Probab=99.78  E-value=8e-18  Score=153.60  Aligned_cols=171  Identities=13%  Similarity=0.123  Sum_probs=112.5

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .|.|+|++ ||||||...|..      .++..+.--||.+...      ++.                            
T Consensus         2 ~V~liG~pnvGKSTLln~L~~------~~~~~vs~~~~TTr~~------i~~----------------------------   41 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHG------QKISITSPKAQTTRNR------ISG----------------------------   41 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhC------CcEeecCCCCCcccCc------EEE----------------------------
Confidence            48899999 999999999975      4555444334432210      000                            


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV  178 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~  178 (284)
                               +....+.+++++||||+.+.  .+.....|.+.. .....+++++|++|+....+...++..      .+.
T Consensus        42 ---------i~~~~~~qii~vDTPG~~~~--~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~~~i~~------~l~  104 (270)
T TIGR00436        42 ---------IHTTGASQIIFIDTPGFHEK--KHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDGEFVLT------KLQ  104 (270)
T ss_pred             ---------EEEcCCcEEEEEECcCCCCC--cchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchHHHHHH------HHH
Confidence                     00001457899999999873  334444454433 223345789999999876444333322      233


Q ss_pred             hcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHH
Q 023298          179 QLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLS  258 (284)
Q Consensus       179 ~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~  258 (284)
                      +.+.|+++|+||+|+..+. .+.+..                          .++....++..++|+||++|.|+++|++
T Consensus       105 ~~~~p~ilV~NK~Dl~~~~-~~~~~~--------------------------~~~~~~~~~~~v~~iSA~~g~gi~~L~~  157 (270)
T TIGR00436       105 NLKRPVVLTRNKLDNKFKD-KLLPLI--------------------------DKYAILEDFKDIVPISALTGDNTSFLAA  157 (270)
T ss_pred             hcCCCEEEEEECeeCCCHH-HHHHHH--------------------------HHHHhhcCCCceEEEecCCCCCHHHHHH
Confidence            5689999999999997433 222111                          1112234456899999999999999999


Q ss_pred             HHHHhcCCCCCCCCCCC
Q 023298          259 QIDNCIQWGEDADLKIK  275 (284)
Q Consensus       259 ~I~~~l~~g~d~~~~~~  275 (284)
                      .|.+.+|++|...|.+-
T Consensus       158 ~l~~~l~~~~~~~~~~~  174 (270)
T TIGR00436       158 FIEVHLPEGPFRYPEDY  174 (270)
T ss_pred             HHHHhCCCCCCCCCCcc
Confidence            99999999998777654

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>PRK00089 era GTPase Era; Reviewed

Probab=99.74  E-value=8.3e-17  Score=148.03  Aligned_cols=172  Identities=20%  Similarity=0.279  Sum_probs=113.9

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .+.|+|++ ||||||+..|.      |.++..+.-.||.+...      ++.            +               
T Consensus         7 ~V~iiG~pn~GKSTLin~L~------g~~~~~vs~~~~tt~~~------i~~------------i---------------   47 (292)
T PRK00089          7 FVAIVGRPNVGKSTLLNALV------GQKISIVSPKPQTTRHR------IRG------------I---------------   47 (292)
T ss_pred             EEEEECCCCCCHHHHHHHHh------CCceeecCCCCCccccc------EEE------------E---------------
Confidence            48899999 99999999886      46666666555543210      000            0               


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCC-CCCHHHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQF-ITDVTKFISGCMASLSAM  177 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~-~~~~~~~i~~~l~~l~~~  177 (284)
                               .. ..+.+++++||||+.+  ......+.+..... .....++++|++|+.. +......+...      +
T Consensus        48 ---------~~-~~~~qi~~iDTPG~~~--~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~------l  109 (292)
T PRK00089         48 ---------VT-EDDAQIIFVDTPGIHK--PKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEK------L  109 (292)
T ss_pred             ---------EE-cCCceEEEEECCCCCC--chhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHH------H
Confidence                     00 0145899999999876  33344444544332 3334678999999986 33333333222      2


Q ss_pred             HhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHH
Q 023298          178 VQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll  257 (284)
                      ...+.|+++|+||+|+...+..+...+                          ..+.+.+++..++|+||+++.|++.|+
T Consensus       110 ~~~~~pvilVlNKiDl~~~~~~l~~~~--------------------------~~l~~~~~~~~i~~iSA~~~~gv~~L~  163 (292)
T PRK00089        110 KKVKTPVILVLNKIDLVKDKEELLPLL--------------------------EELSELMDFAEIVPISALKGDNVDELL  163 (292)
T ss_pred             hhcCCCEEEEEECCcCCCCHHHHHHHH--------------------------HHHHhhCCCCeEEEecCCCCCCHHHHH
Confidence            245789999999999984331333222                          112234567889999999999999999


Q ss_pred             HHHHHhcCCCCCCCCCCC
Q 023298          258 SQIDNCIQWGEDADLKIK  275 (284)
Q Consensus       258 ~~I~~~l~~g~d~~~~~~  275 (284)
                      +.+.+.+++++...+.+-
T Consensus       164 ~~L~~~l~~~~~~y~~~~  181 (292)
T PRK00089        164 DVIAKYLPEGPPYYPEDQ  181 (292)
T ss_pred             HHHHHhCCCCCCCCCCCC
Confidence            999999999998766553

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.68  E-value=6.2e-16  Score=148.02  Aligned_cols=162  Identities=13%  Similarity=0.168  Sum_probs=117.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .|.++|-| ||||||...|+.      ++.++|+-=|+.+.          |-        .|+-+              
T Consensus         5 ~VAIVGRPNVGKSTLFNRL~g------~r~AIV~D~pGvTR----------Dr--------~y~~~--------------   46 (444)
T COG1160           5 VVAIVGRPNVGKSTLFNRLTG------RRIAIVSDTPGVTR----------DR--------IYGDA--------------   46 (444)
T ss_pred             EEEEECCCCCcHHHHHHHHhC------CeeeEeecCCCCcc----------CC--------cccee--------------
Confidence            49999999 999999999886      89999998888863          21        11111              


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAM  177 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~  177 (284)
                              ++.   +..+.+|||+|..... ...++..+..+ +.++..+++++|++|+...-++ +..++.+|.     
T Consensus        47 --------~~~---~~~f~lIDTgGl~~~~-~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr-----  109 (444)
T COG1160          47 --------EWL---GREFILIDTGGLDDGD-EDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILR-----  109 (444)
T ss_pred             --------EEc---CceEEEEECCCCCcCC-chHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH-----
Confidence                    111   4569999999987421 12445555444 3455667899999999876444 454666543     


Q ss_pred             HhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHH
Q 023298          178 VQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll  257 (284)
                       +.++|+|+|+||+|..+.+....+                               +..+||.+++||||.+|.|+.+|+
T Consensus       110 -~~~kpviLvvNK~D~~~~e~~~~e-------------------------------fyslG~g~~~~ISA~Hg~Gi~dLl  157 (444)
T COG1160         110 -RSKKPVILVVNKIDNLKAEELAYE-------------------------------FYSLGFGEPVPISAEHGRGIGDLL  157 (444)
T ss_pred             -hcCCCEEEEEEcccCchhhhhHHH-------------------------------HHhcCCCCceEeehhhccCHHHHH
Confidence             677999999999997633211111                               245788999999999999999999


Q ss_pred             HHHHHhcCCCCCC
Q 023298          258 SQIDNCIQWGEDA  270 (284)
Q Consensus       258 ~~I~~~l~~g~d~  270 (284)
                      +.+.+.+| +++.
T Consensus       158 d~v~~~l~-~~e~  169 (444)
T COG1160         158 DAVLELLP-PDEE  169 (444)
T ss_pred             HHHHhhcC-Cccc
Confidence            99999998 4443

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.64  E-value=6.2e-15  Score=141.44  Aligned_cols=128  Identities=18%  Similarity=0.216  Sum_probs=85.8

Q ss_pred             CEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHh--cCCCEEEEecC
Q 023298          116 DYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQ--LELPHVNILSK  190 (284)
Q Consensus       116 ~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~--~~~p~IlVlNK  190 (284)
                      +++++||||+++... ...++.+++++++.   .++++|++|+...  .++..-+..++..+.....  .++|.|+|+||
T Consensus       208 ~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~r---advlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNK  284 (390)
T PRK12298        208 SFVVADIPGLIEGASEGAGLGIRFLKHLER---CRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNK  284 (390)
T ss_pred             EEEEEeCCCccccccchhhHHHHHHHHHHh---CCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeC
Confidence            489999999987432 22356777787765   3689999998743  2333333344333333221  46899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC-ceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM-VSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~-~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      +|+..++ ++.+.+                          .++.+.+++ ..++|+||+++.|+++|++.|.+.+++++.
T Consensus       285 iDl~~~~-el~~~l--------------------------~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~~~~  337 (390)
T PRK12298        285 IDLLDEE-EAEERA--------------------------KAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEENPR  337 (390)
T ss_pred             CccCChH-HHHHHH--------------------------HHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhhCcc
Confidence            9987543 332221                          112223344 379999999999999999999999999877


Q ss_pred             CCCC
Q 023298          270 ADLK  273 (284)
Q Consensus       270 ~~~~  273 (284)
                      ..|.
T Consensus       338 ~~~~  341 (390)
T PRK12298        338 EEAE  341 (390)
T ss_pred             cCCc
Confidence            6543

>PRK15494 era GTPase Era; Provisional

Probab=99.64  E-value=7.2e-15  Score=138.63  Aligned_cols=125  Identities=18%  Similarity=0.211  Sum_probs=84.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.+++|+||||+++.  .......+.+.. .....+++++|++|+... ......+..      .+...+.|.|+|+||+
T Consensus        99 ~~qi~~~DTpG~~~~--~~~l~~~~~r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~------~l~~~~~p~IlViNKi  170 (339)
T PRK15494         99 DTQVILYDTPGIFEP--KGSLEKAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILD------KLRSLNIVPIFLLNKI  170 (339)
T ss_pred             CeEEEEEECCCcCCC--cccHHHHHHHHHHHHhhhCCEEEEEEECCCCCCHHHHHHHH------HHHhcCCCEEEEEEhh
Confidence            457899999999873  334455555543 223335789999998653 222222222      2234577999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc-cCCceEEEEeccCcccHHHHHHHHHHhcCCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE-YSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDA  270 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~-~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~  270 (284)
                      |+..+  .+.+..                           +.+.. ..+..++|+||++|.|++.|++.|.+.+++||..
T Consensus       171 Dl~~~--~~~~~~---------------------------~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~~l~~~~~~  221 (339)
T PRK15494        171 DIESK--YLNDIK---------------------------AFLTENHPDSLLFPISALSGKNIDGLLEYITSKAKISPWL  221 (339)
T ss_pred             cCccc--cHHHHH---------------------------HHHHhcCCCcEEEEEeccCccCHHHHHHHHHHhCCCCCCC
Confidence            98532  121111                           11122 2356899999999999999999999999999999


Q ss_pred             CCCCC
Q 023298          271 DLKIK  275 (284)
Q Consensus       271 ~~~~~  275 (284)
                      .|.+-
T Consensus       222 ~~~~~  226 (339)
T PRK15494        222 YAEDD  226 (339)
T ss_pred             CCCCC
Confidence            88766

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.62  E-value=1.4e-14  Score=136.06  Aligned_cols=196  Identities=12%  Similarity=0.066  Sum_probs=112.1

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhh
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYC   93 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~   93 (284)
                      +--++.++-|.|++ |||||++..|..++...|++|.+|++||+...+.-.   =+.+.+    =|+++.-.|+. ++.+
T Consensus        52 ~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s~~~~ga---llgd~~----r~~~~~~~~~~-~~r~  123 (332)
T PRK09435         52 HTGNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPSSTRTGGS---ILGDKT----RMERLSRHPNA-FIRP  123 (332)
T ss_pred             cCCCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCccccchh---hhchHh----HHHhhcCCCCe-EEEe
Confidence            34567889999999 999999999999999999999999999998743210   000111    12222222321 1111


Q ss_pred             ---hHh---hhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH
Q 023298           94 ---MEH---LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI  167 (284)
Q Consensus        94 ---~e~---~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i  167 (284)
                         ...   +.....+.+ +.++.. +++++||||+|.-..-     ..  +  ..   .+++++++++..   .+++..
T Consensus       124 ~~~~~~l~~~a~~~~~~~-~~~~~~-g~d~viieT~Gv~qs~-----~~--i--~~---~aD~vlvv~~p~---~gd~iq  186 (332)
T PRK09435        124 SPSSGTLGGVARKTRETM-LLCEAA-GYDVILVETVGVGQSE-----TA--V--AG---MVDFFLLLQLPG---AGDELQ  186 (332)
T ss_pred             cCCcccccchHHHHHHHH-HHHhcc-CCCEEEEECCCCccch-----hH--H--HH---hCCEEEEEecCC---chHHHH
Confidence               000   111111111 123332 7899999999965311     11  1  21   246677776522   333321


Q ss_pred             HHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc----c-CC-ce
Q 023298          168 SGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE----Y-SM-VS  241 (284)
Q Consensus       168 ~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~----~-~~-~~  241 (284)
                       ....   .  .++...++|+||+|+.+.. .......                       .+...+..    . +. ..
T Consensus       187 -~~k~---g--i~E~aDIiVVNKaDl~~~~-~a~~~~~-----------------------el~~~L~l~~~~~~~w~~p  236 (332)
T PRK09435        187 -GIKK---G--IMELADLIVINKADGDNKT-AARRAAA-----------------------EYRSALRLLRPKDPGWQPP  236 (332)
T ss_pred             -HHHh---h--hhhhhheEEeehhcccchh-HHHHHHH-----------------------HHHHHHhcccccccCCCCC
Confidence             1111   0  1233459999999997643 2222211                       01111111    1 12 57


Q ss_pred             EEEEeccCcccHHHHHHHHHHhcC
Q 023298          242 FMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       242 ~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ++++||+++.|+++|++.|.+.++
T Consensus       237 Vi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        237 VLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999865

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.58  E-value=1.9e-14  Score=124.06  Aligned_cols=114  Identities=21%  Similarity=0.434  Sum_probs=74.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ...+.+|||||+..      ....+.+.+.   ..++++++||+.....+...     ..+......+.|.|+|+||+|+
T Consensus        69 ~~~i~~iDtPG~~~------f~~~~~~~~~---~~D~ailvVda~~g~~~~~~-----~~l~~~~~~~~p~ivvlNK~D~  134 (188)
T PF00009_consen   69 NRKITLIDTPGHED------FIKEMIRGLR---QADIAILVVDANDGIQPQTE-----EHLKILRELGIPIIVVLNKMDL  134 (188)
T ss_dssp             SEEEEEEEESSSHH------HHHHHHHHHT---TSSEEEEEEETTTBSTHHHH-----HHHHHHHHTT-SEEEEEETCTS
T ss_pred             ccceeecccccccc------eeecccceec---ccccceeeeecccccccccc-----cccccccccccceEEeeeeccc
Confidence            56899999999654      2233334443   35789999999755333322     1122345788999999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-----CceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-----MVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-----~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .. . ++.+..+                   ++..   .+++.++     ...++|+||.+|.|++.|++.|.+.+|
T Consensus       135 ~~-~-~~~~~~~-------------------~~~~---~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  135 IE-K-ELEEIIE-------------------EIKE---KLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             SH-H-HHHHHHH-------------------HHHH---HHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             hh-h-hHHHHHH-------------------HHHH---HhccccccCccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence            73 2 3333321                   1111   1222322     468999999999999999999999987

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>cd04163 Era Era subfamily

Probab=99.58  E-value=8.4e-14  Score=114.28  Aligned_cols=162  Identities=19%  Similarity=0.249  Sum_probs=98.5

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhh
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLE   98 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~   98 (284)
                      ..+.++|++ |||||++.++.      |+++..++-+++.....      ++.                           
T Consensus         4 ~~i~~~G~~g~GKttl~~~l~------~~~~~~~~~~~~~~~~~------~~~---------------------------   44 (168)
T cd04163           4 GFVAIVGRPNVGKSTLLNALV------GQKISIVSPKPQTTRNR------IRG---------------------------   44 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHh------CCceEeccCCCCceece------EEE---------------------------
Confidence            348999999 99999999986      35665555444432100      000                           


Q ss_pred             hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHH
Q 023298           99 DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSA  176 (284)
Q Consensus        99 ~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~  176 (284)
                                .....+..++++||||+.+...  .....+.+... .....+++++++|+... .+....+..      .
T Consensus        45 ----------~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~------~  106 (168)
T cd04163          45 ----------IYTDDDAQIIFVDTPGIHKPKK--KLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILE------L  106 (168)
T ss_pred             ----------EEEcCCeEEEEEECCCCCcchH--HHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHH------H
Confidence                      0000034789999999876322  22222322211 12224689999999865 333333322      2


Q ss_pred             HHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHH
Q 023298          177 MVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYV  256 (284)
Q Consensus       177 ~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~L  256 (284)
                      +.+.+.|.++|+||+|+......+.++.                          ..+....+...++++|+++++|++.+
T Consensus       107 ~~~~~~~~iiv~nK~Dl~~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~s~~~~~~~~~l  160 (168)
T cd04163         107 LKKSKTPVILVLNKIDLVKDKEDLLPLL--------------------------EKLKELGPFAEIFPISALKGENVDEL  160 (168)
T ss_pred             HHHhCCCEEEEEEchhccccHHHHHHHH--------------------------HHHHhccCCCceEEEEeccCCChHHH
Confidence            2345789999999999874221333322                          11113344678999999999999999


Q ss_pred             HHHHHHhc
Q 023298          257 LSQIDNCI  264 (284)
Q Consensus       257 l~~I~~~l  264 (284)
                      ++.|.+.+
T Consensus       161 ~~~l~~~~  168 (168)
T cd04163         161 LEEIVKYL  168 (168)
T ss_pred             HHHHHhhC
Confidence            99997653

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.56  E-value=1.6e-13  Score=127.42  Aligned_cols=203  Identities=12%  Similarity=0.096  Sum_probs=109.0

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhh--hc---Cccc
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVME--EL---GLGP   86 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~--~~---~lgP   86 (284)
                      ......+..+.|+|++ |||||++..++.++...|++|.+|++||+...+...  + +.+-+.+.+.-.  ..   .+.+
T Consensus        28 ~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~~D~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~  104 (300)
T TIGR00750        28 MPYTGNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAVDPSSPFTGGS--I-LGDRTRMQRLATDPGAFIRSMPT  104 (300)
T ss_pred             CcccCCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCCcchhh--h-cccchhhhhcccCCCceeeecCc
Confidence            3455567789999999 999999999999999999999999999988532110  0 001001110000  00   1111


Q ss_pred             CchhhhhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH
Q 023298           87 NGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF  166 (284)
Q Consensus        87 ng~l~~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~  166 (284)
                      .| ......   ....+. .+.++.. ++++|||||||.-.     ...    ..+..   .+.++++.+..   ...+ 
T Consensus       105 ~~-~~~~~~---~~~~~~-~~~l~~~-g~D~viidT~G~~~-----~e~----~i~~~---aD~i~vv~~~~---~~~e-  162 (300)
T TIGR00750       105 RG-HLGGLS---QATREL-ILLLDAA-GYDVIIVETVGVGQ-----SEV----DIANM---ADTFVVVTIPG---TGDD-  162 (300)
T ss_pred             cc-cccchh---HHHHHH-HHHHHhC-CCCEEEEeCCCCch-----hhh----HHHHh---hceEEEEecCC---ccHH-
Confidence            11 111111   111111 1223333 78999999999432     111    11222   23444444332   1222 


Q ss_pred             HHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CC-ceEEE
Q 023298          167 ISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SM-VSFMP  244 (284)
Q Consensus       167 i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~-~~~ip  244 (284)
                      +.....   .  -.++|.++|+||+|+.... .......                   .+...+..+.+.. ++ ..+++
T Consensus       163 l~~~~~---~--l~~~~~ivv~NK~Dl~~~~-~~~~~~~-------------------~~~~~l~~l~~~~~~~~~~v~~  217 (300)
T TIGR00750       163 LQGIKA---G--LMEIADIYVVNKADGEGAT-NVTIARL-------------------MLALALEEIRRREDGWRPPVLT  217 (300)
T ss_pred             HHHHHH---H--HhhhccEEEEEcccccchh-HHHHHHH-------------------HHHHHHhhccccccCCCCCEEE
Confidence            111111   1  1467899999999987543 2111000                   0000111111221 22 35899


Q ss_pred             EeccCcccHHHHHHHHHHhcC
Q 023298          245 LDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       245 iSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +||++++|++.|++.|.+...
T Consensus       218 iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       218 TSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             EEccCCCCHHHHHHHHHHHHH
Confidence            999999999999999988754

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.

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.55  E-value=7.8e-14  Score=127.59  Aligned_cols=187  Identities=14%  Similarity=0.199  Sum_probs=114.4

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .+.|||+| +|||||+.++-      |+||..+---++.+.-         +.         .|+               
T Consensus        74 ~vavIG~PNvGKStLtN~mi------g~kv~~vS~K~~TTr~---------~i---------lgi---------------  114 (379)
T KOG1423|consen   74 YVAVIGAPNVGKSTLTNQMI------GQKVSAVSRKVHTTRH---------RI---------LGI---------------  114 (379)
T ss_pred             EEEEEcCCCcchhhhhhHhh------CCccccccccccceee---------ee---------eEE---------------
Confidence            37899999 99999998875      4777666555544321         00         011               


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHH----HhcCCCeEEEEEecCCCC---CCHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHL----KSRNFNVCAVYLLDSQFI---TDVTKFISGCMA  172 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l----~~~d~~~vil~LiDa~~~---~~~~~~i~~~l~  172 (284)
                               +.. ++.|.||.||||.++...++.-.. +...+    .+++.+++++.++|+...   .+|.  +..+  
T Consensus       115 ---------~ts-~eTQlvf~DTPGlvs~~~~r~~~l-~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~p~--vl~~--  179 (379)
T KOG1423|consen  115 ---------ITS-GETQLVFYDTPGLVSKKMHRRHHL-MMSVLQNPRDAAQNADCVVVVVDASATRTPLHPR--VLHM--  179 (379)
T ss_pred             ---------Eec-CceEEEEecCCcccccchhhhHHH-HHHhhhCHHHHHhhCCEEEEEEeccCCcCccChH--HHHH--
Confidence                     111 167999999999998544333222 12212    234556889999999742   2221  1111  


Q ss_pred             HHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-------------CC
Q 023298          173 SLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-------------SM  239 (284)
Q Consensus       173 ~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-------------~~  239 (284)
                       +...  ...|-|+|+||+|.++.+..+.+...    .|    .   ++....+...+.+-+.+.             .|
T Consensus       180 -l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~----~L----t---~g~l~~~kl~v~~~f~~~p~~~~~~~~~gwshf  245 (379)
T KOG1423|consen  180 -LEEY--SKIPSILVMNKIDKLKQKRLLLNLKD----LL----T---NGELAKLKLEVQEKFTDVPSDEKWRTICGWSHF  245 (379)
T ss_pred             -HHHH--hcCCceeeccchhcchhhhHHhhhHH----hc----c---ccccchhhhhHHHHhccCCcccccccccCcccc
Confidence             1111  35799999999999875523322221    11    0   011111112222222222             36


Q ss_pred             ceEEEEeccCcccHHHHHHHHHHhcCCCCCCCCCCC
Q 023298          240 VSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKIK  275 (284)
Q Consensus       240 ~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~~~~~  275 (284)
                      .++++|||++|+|+++|-+.+....|.||+.++.+-
T Consensus       246 e~vF~vSaL~G~GikdlkqyLmsqa~~gpW~y~a~i  281 (379)
T KOG1423|consen  246 ERVFMVSALYGEGIKDLKQYLMSQAPPGPWKYPADI  281 (379)
T ss_pred             eeEEEEecccccCHHHHHHHHHhcCCCCCCCCCccc
Confidence            789999999999999999999999999999998654

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.55  E-value=9.9e-14  Score=128.63  Aligned_cols=167  Identities=20%  Similarity=0.303  Sum_probs=122.5

Q ss_pred             EECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhcHH
Q 023298           24 VFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLD  102 (284)
Q Consensus        24 viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~~~  102 (284)
                      ++|-| +|||||...+++             .-|....+|++                  .|.||-+++..         
T Consensus       164 LVG~PNaGKSTlls~vS~-------------AkPKIadYpFT------------------TL~PnLGvV~~---------  203 (369)
T COG0536         164 LVGLPNAGKSTLLSAVSA-------------AKPKIADYPFT------------------TLVPNLGVVRV---------  203 (369)
T ss_pred             cccCCCCcHHHHHHHHhh-------------cCCcccCCccc------------------cccCcccEEEe---------
Confidence            78999 999999999998             55666666553                  46688766642         


Q ss_pred             HHHHHHhhccCCCCEEEEeCCCCcccc-cccchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHh
Q 023298          103 DWLAEELDNYLDDDYLVFDCPGQIELF-THVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQ  179 (284)
Q Consensus       103 ~~l~~~l~~~~~~~~viiDtPg~~e~~-~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~  179 (284)
                             . . +.++|+.|.||.+|.. ....++.+|++++++.   -+++|+||.+..  .+|.+-+..+...|..+..
T Consensus       204 -------~-~-~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt---~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~  271 (369)
T COG0536         204 -------D-G-GESFVVADIPGLIEGASEGVGLGLRFLRHIERT---RVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSP  271 (369)
T ss_pred             -------c-C-CCcEEEecCcccccccccCCCccHHHHHHHHhh---heeEEEEecCcccCCCHHHHHHHHHHHHHHhhH
Confidence                   1 1 5679999999999985 3567789999999874   479999999866  3566666666666666632


Q ss_pred             --cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHH
Q 023298          180 --LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       180 --~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll  257 (284)
                        .++|.++|+||+|+.....+++.+.                          ..+.+..+...+.+|||.+++|++.|+
T Consensus       272 ~L~~K~~ivv~NKiD~~~~~e~~~~~~--------------------------~~l~~~~~~~~~~~ISa~t~~g~~~L~  325 (369)
T COG0536         272 KLAEKPRIVVLNKIDLPLDEEELEELK--------------------------KALAEALGWEVFYLISALTREGLDELL  325 (369)
T ss_pred             HhccCceEEEEeccCCCcCHHHHHHHH--------------------------HHHHHhcCCCcceeeehhcccCHHHHH
Confidence              5899999999999655442333332                          112233444555559999999999999


Q ss_pred             HHHHHhcCCCC
Q 023298          258 SQIDNCIQWGE  268 (284)
Q Consensus       258 ~~I~~~l~~g~  268 (284)
                      ..+.+.+....
T Consensus       326 ~~~~~~l~~~~  336 (369)
T COG0536         326 RALAELLEETK  336 (369)
T ss_pred             HHHHHHHHHhh
Confidence            99998887765

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=99.54  E-value=8e-14  Score=122.68  Aligned_cols=41  Identities=17%  Similarity=0.201  Sum_probs=38.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .+.|+|.| |||||+|.|||.+|++.|+||++||+|||++.+
T Consensus         2 ~iav~gKGGvGKTt~~~nLA~~la~~G~rvLliD~D~q~~~~   43 (212)
T cd02117           2 QIAIYGKGGIGKSTTSQNLSAALAEMGKKVLQVGCDPKADST   43 (212)
T ss_pred             EEEEECCCcCcHHHHHHHHHHHHHHCCCcEEEEeCCCCCCcc
Confidence            47788999 999999999999999999999999999999754

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.54  E-value=1.8e-13  Score=128.97  Aligned_cols=124  Identities=15%  Similarity=0.205  Sum_probs=80.6

Q ss_pred             CCCEEEEeCCCCcccccc-cchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh--cCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTH-VPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ--LELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~-~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~--~~~p~IlVlNK  190 (284)
                      ..+++++||||+++.... ..++..++++++.+   .+++|++|++...+-.. +..+...+.....  .++|.++|+||
T Consensus       205 ~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a---~vlI~ViD~s~~~s~e~-~~~~~~EL~~~~~~L~~kp~IIV~NK  280 (335)
T PRK12299        205 YKSFVIADIPGLIEGASEGAGLGHRFLKHIERT---RLLLHLVDIEAVDPVED-YKTIRNELEKYSPELADKPRILVLNK  280 (335)
T ss_pred             CcEEEEEeCCCccCCCCccccHHHHHHHHhhhc---CEEEEEEcCCCCCCHHH-HHHHHHHHHHhhhhcccCCeEEEEEC
Confidence            346899999999875432 24566777777653   58999999875432222 3334333333322  47899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      +|+.... +.....          .               .......+ ..++++||++++|+++|++.|.+.+++..
T Consensus       281 iDL~~~~-~~~~~~----------~---------------~~~~~~~~-~~i~~iSAktg~GI~eL~~~L~~~l~~~~  331 (335)
T PRK12299        281 IDLLDEE-EEREKR----------A---------------ALELAALG-GPVFLISAVTGEGLDELLRALWELLEEAR  331 (335)
T ss_pred             cccCCch-hHHHHH----------H---------------HHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHHHHHhhh
Confidence            9986543 221100          0               01112222 57999999999999999999999887643

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.54  E-value=2.4e-13  Score=127.77  Aligned_cols=119  Identities=19%  Similarity=0.319  Sum_probs=79.9

Q ss_pred             CCEEEEeCCCCcccccc-cchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHh--cCCCEEEEec
Q 023298          115 DDYLVFDCPGQIELFTH-VPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQ--LELPHVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~-~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~--~~~p~IlVlN  189 (284)
                      .++.++||||+++.... ...+..+.++++.+   ++++|++|+...  .++-+-+..+...+..+..  .++|.++|+|
T Consensus       205 ~~~~i~D~PGli~~a~~~~gLg~~flrhiera---d~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~N  281 (329)
T TIGR02729       205 RSFVIADIPGLIEGASEGAGLGHRFLKHIERT---RVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLN  281 (329)
T ss_pred             eEEEEEeCCCcccCCcccccHHHHHHHHHHhh---CEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEe
Confidence            57899999999875432 34566777877653   579999998754  2344444444444443322  4789999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+|+.... ...++.+                          ++.+.++ ..++++||++++|+++|++.|.+.+
T Consensus       282 K~DL~~~~-~~~~~~~--------------------------~l~~~~~-~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       282 KIDLLDEE-ELAELLK--------------------------ELKKALG-KPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             CccCCChH-HHHHHHH--------------------------HHHHHcC-CcEEEEEccCCcCHHHHHHHHHHHh
Confidence            99986543 2222110                          1112222 5799999999999999999998765

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=99.53  E-value=1.4e-13  Score=124.99  Aligned_cols=40  Identities=18%  Similarity=0.172  Sum_probs=37.3

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      |.|.|.| |||||+|.|||.+|+++|+||++||+|||++..
T Consensus         3 i~v~gKGGvGKTT~a~nLA~~la~~G~rvlliD~Dpq~~~~   43 (267)
T cd02032           3 LAVYGKGGIGKSTTSSNLSVALAKRGKKVLQIGCDPKHDST   43 (267)
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCcEEEEecCCCCCcc
Confidence            6677999 999999999999999999999999999999854

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>cd01898 Obg Obg subfamily

Probab=99.53  E-value=7e-13  Score=110.81  Aligned_cols=119  Identities=21%  Similarity=0.289  Sum_probs=73.3

Q ss_pred             CEEEEeCCCCcccccc-cchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH--hcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTH-VPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV--QLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~-~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~--~~~~p~IlVlNK~D  192 (284)
                      ++.++||||+.+.... +.....+.+.+..   .+++++++|+....++...+..+...+....  ..++|.++|+||+|
T Consensus        49 ~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~---~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~D  125 (170)
T cd01898          49 SFVVADIPGLIEGASEGKGLGHRFLRHIER---TRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKID  125 (170)
T ss_pred             eEEEEecCcccCcccccCCchHHHHHHHHh---CCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchh
Confidence            7899999998653322 1223334444433   4689999999754222333444443333222  13689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +..+. ...++.                          .+.........++++||+++.|++++++.|.+.+
T Consensus       126 l~~~~-~~~~~~--------------------------~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  170 (170)
T cd01898         126 LLDEE-ELFELL--------------------------KELLKELWGKPVFPISALTGEGLDELLRKLAELL  170 (170)
T ss_pred             cCCch-hhHHHH--------------------------HHHHhhCCCCCEEEEecCCCCCHHHHHHHHHhhC
Confidence            87644 332222                          1111222236789999999999999999887653

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=99.52  E-value=1e-13  Score=125.88  Aligned_cols=40  Identities=18%  Similarity=0.207  Sum_probs=37.1

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      +.|.|.| |||||+|.|||.+|++.|+||++||+|||++.+
T Consensus         3 i~~~gKGGVGKTT~~~nLA~~La~~g~rVLliD~D~q~~~~   43 (268)
T TIGR01281         3 LAVYGKGGIGKSTTSSNLSVAFAKLGKRVLQIGCDPKHDST   43 (268)
T ss_pred             EEEEcCCcCcHHHHHHHHHHHHHhCCCeEEEEecCcccccc
Confidence            5566999 999999999999999999999999999999855

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=99.51  E-value=1.3e-13  Score=127.44  Aligned_cols=41  Identities=12%  Similarity=0.099  Sum_probs=38.8

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      +.|.|.| |||||+|.|||.+|++.|+||++||+|||++.+.
T Consensus         3 ia~~gKGGVGKTTta~nLA~~La~~G~rVLlID~DpQ~n~t~   44 (290)
T CHL00072          3 LAVYGKGGIGKSTTSCNISIALARRGKKVLQIGCDPKHDSTF   44 (290)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeccCCCcccc
Confidence            7899999 9999999999999999999999999999998654

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.51  E-value=8.2e-13  Score=115.41  Aligned_cols=113  Identities=20%  Similarity=0.268  Sum_probs=69.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCC-EEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELP-HVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p-~IlVlNK~  191 (284)
                      +.+++++||||+..      ....+...+   ...+++++++|+...-.+ ...+..      .+.+.++| .|+|+||+
T Consensus        64 ~~~i~~iDtPG~~~------~~~~~~~~~---~~~D~~ilVvda~~g~~~~~~~~~~------~~~~~~~~~iIvviNK~  128 (195)
T cd01884          64 NRHYAHVDCPGHAD------YIKNMITGA---AQMDGAILVVSATDGPMPQTREHLL------LARQVGVPYIVVFLNKA  128 (195)
T ss_pred             CeEEEEEECcCHHH------HHHHHHHHh---hhCCEEEEEEECCCCCcHHHHHHHH------HHHHcCCCcEEEEEeCC
Confidence            56899999999643      122233333   335789999999754222 222222      23356787 67999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC----CceEEEEeccCcccH----------HHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS----MVSFMPLDLRKESSI----------RYVL  257 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~----~~~~ipiSa~~~~~l----------~~Ll  257 (284)
                      |++.++ +..+..                      ...+.+.+...+    ...|+|+||.+|.|.          ..|+
T Consensus       129 D~~~~~-~~~~~~----------------------~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~~~~~~w~~~~~~l~  185 (195)
T cd01884         129 DMVDDE-ELLELV----------------------EMEVRELLSKYGFDGDNTPIVRGSALKALEGDDPNKWVKKILELL  185 (195)
T ss_pred             CCCCcH-HHHHHH----------------------HHHHHHHHHHhcccccCCeEEEeeCccccCCCCCCcchhcHhHHH
Confidence            997533 322211                      112233344443    378999999999974          5777


Q ss_pred             HHHHHhc
Q 023298          258 SQIDNCI  264 (284)
Q Consensus       258 ~~I~~~l  264 (284)
                      ++|+...
T Consensus       186 ~~l~~~~  192 (195)
T cd01884         186 DALDSYI  192 (195)
T ss_pred             HHHHhCC
Confidence            7777654

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.50  E-value=4.3e-13  Score=129.83  Aligned_cols=166  Identities=20%  Similarity=0.298  Sum_probs=104.9

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      -|.++|.+ |||||+...|+.             ..|.....+++                  .+.||-+.+.       
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~-------------ak~kIa~ypfT------------------Tl~PnlG~v~-------  201 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSN-------------AKPKIANYHFT------------------TLVPNLGVVE-------  201 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHc-------------CCCccccCCcc------------------eeceEEEEEE-------
Confidence            48899999 999999999986             22433332221                  1224422211       


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSA  176 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~  176 (284)
                               +..  +.+++++||||+++... ...++..++++++.   ..+++|++|++..  .++.+-+..+...+..
T Consensus       202 ---------~~~--~~~~~laD~PGliega~~~~gLg~~fLrhier---~~llI~VID~s~~~~~dp~e~~~~i~~EL~~  267 (424)
T PRK12297        202 ---------TDD--GRSFVMADIPGLIEGASEGVGLGHQFLRHIER---TRVIVHVIDMSGSEGRDPIEDYEKINKELKL  267 (424)
T ss_pred             ---------EeC--CceEEEEECCCCcccccccchHHHHHHHHHhh---CCEEEEEEeCCccccCChHHHHHHHHHHHhh
Confidence                     110  35799999999987432 23455667777765   3689999999754  2343333333333333


Q ss_pred             HHh--cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHH
Q 023298          177 MVQ--LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIR  254 (284)
Q Consensus       177 ~~~--~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~  254 (284)
                      ...  .++|.++|+||+|+......+..+                              .+.++ ..++|+||++++|++
T Consensus       268 y~~~L~~kP~IVV~NK~DL~~~~e~l~~l------------------------------~~~l~-~~i~~iSA~tgeGI~  316 (424)
T PRK12297        268 YNPRLLERPQIVVANKMDLPEAEENLEEF------------------------------KEKLG-PKVFPISALTGQGLD  316 (424)
T ss_pred             hchhccCCcEEEEEeCCCCcCCHHHHHHH------------------------------HHHhC-CcEEEEeCCCCCCHH
Confidence            321  478999999999973222011111                              12222 579999999999999


Q ss_pred             HHHHHHHHhcCCCCC
Q 023298          255 YVLSQIDNCIQWGED  269 (284)
Q Consensus       255 ~Ll~~I~~~l~~g~d  269 (284)
                      +|++.|.+.+...+.
T Consensus       317 eL~~~L~~~l~~~~~  331 (424)
T PRK12297        317 ELLYAVAELLEETPE  331 (424)
T ss_pred             HHHHHHHHHHHhCcc
Confidence            999999988877654

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=99.49  E-value=2.6e-13  Score=122.86  Aligned_cols=42  Identities=19%  Similarity=0.227  Sum_probs=38.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      +.+.|+|.| |||||+|.|||.+|++.|+||++||+|||++.+
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~~G~kVlliD~Dpq~n~~   44 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAEMGKKVMIVGCDPKADST   44 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHhCCCeEEEEEcCCCCCch
Confidence            457777999 999999999999999999999999999999865

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=99.49  E-value=2.8e-13  Score=123.16  Aligned_cols=43  Identities=16%  Similarity=0.209  Sum_probs=38.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      +++.|.|.| |||||+|.|||.+|++.|+||++||+|||++.+.
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~~la~~G~kVLliD~Dpq~~~t~   46 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSAAFAKLGKKVLQIGCDPKHDSTF   46 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeccCCcchhh
Confidence            346677999 9999999999999999999999999999998653

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.49  E-value=2.7e-13  Score=114.46  Aligned_cols=152  Identities=22%  Similarity=0.281  Sum_probs=91.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      |.++|.| |||||+...|..      +++.+=|- |+.+-       +...           +                 
T Consensus         3 ialvG~PNvGKStLfN~Ltg------~~~~v~n~-pG~Tv-------~~~~-----------g-----------------   40 (156)
T PF02421_consen    3 IALVGNPNVGKSTLFNALTG------AKQKVGNW-PGTTV-------EKKE-----------G-----------------   40 (156)
T ss_dssp             EEEEESTTSSHHHHHHHHHT------TSEEEEES-TTSSS-------EEEE-----------E-----------------
T ss_pred             EEEECCCCCCHHHHHHHHHC------CCceecCC-CCCCe-------eeee-----------E-----------------
Confidence            7899999 999999998886      45555443 44431       1100           0                 


Q ss_pred             HHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh
Q 023298          101 LDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ  179 (284)
Q Consensus       101 ~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~  179 (284)
                             .+. +.+.++.++|+||....... ..-+++.. .+.. ...+++++++|+....+ +.      .-+.++..
T Consensus        41 -------~~~-~~~~~~~lvDlPG~ysl~~~-s~ee~v~~~~l~~-~~~D~ii~VvDa~~l~r-~l------~l~~ql~e  103 (156)
T PF02421_consen   41 -------IFK-LGDQQVELVDLPGIYSLSSK-SEEERVARDYLLS-EKPDLIIVVVDATNLER-NL------YLTLQLLE  103 (156)
T ss_dssp             -------EEE-ETTEEEEEEE----SSSSSS-SHHHHHHHHHHHH-TSSSEEEEEEEGGGHHH-HH------HHHHHHHH
T ss_pred             -------EEE-ecCceEEEEECCCcccCCCC-CcHHHHHHHHHhh-cCCCEEEEECCCCCHHH-HH------HHHHHHHH
Confidence                   011 11458999999998764332 22344433 3432 33678999999975421 11      22345567


Q ss_pred             cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHH
Q 023298          180 LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQ  259 (284)
Q Consensus       180 ~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~  259 (284)
                      +++|+++|+||+|...++ .+.-    +.+               .|+    +   .. ...++|+||.+++|+++|.++
T Consensus       104 ~g~P~vvvlN~~D~a~~~-g~~i----d~~---------------~Ls----~---~L-g~pvi~~sa~~~~g~~~L~~~  155 (156)
T PF02421_consen  104 LGIPVVVVLNKMDEAERK-GIEI----DAE---------------KLS----E---RL-GVPVIPVSARTGEGIDELKDA  155 (156)
T ss_dssp             TTSSEEEEEETHHHHHHT-TEEE-----HH---------------HHH----H---HH-TS-EEEEBTTTTBTHHHHHHH
T ss_pred             cCCCEEEEEeCHHHHHHc-CCEE----CHH---------------HHH----H---Hh-CCCEEEEEeCCCcCHHHHHhh
Confidence            899999999999997654 2211    101               111    1   11 368999999999999999987


Q ss_pred             H
Q 023298          260 I  260 (284)
Q Consensus       260 I  260 (284)
                      |
T Consensus       156 I  156 (156)
T PF02421_consen  156 I  156 (156)
T ss_dssp             H
T ss_pred             C
Confidence            6

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.48  E-value=5.9e-13  Score=130.82  Aligned_cols=123  Identities=18%  Similarity=0.265  Sum_probs=78.0

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCCC---CHHHHHHHHHHHHHHHH-----------
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT---DVTKFISGCMASLSAMV-----------  178 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~---~~~~~i~~~l~~l~~~~-----------  178 (284)
                      +.+++++||||+++... ...++..++++++.   .++++|++|++...   +|-.-+..+...+..+.           
T Consensus       205 ~~~f~laDtPGliegas~g~gLg~~fLrhier---advLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~  281 (500)
T PRK12296        205 DTRFTVADVPGLIPGASEGKGLGLDFLRHIER---CAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGD  281 (500)
T ss_pred             CeEEEEEECCCCccccchhhHHHHHHHHHHHh---cCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhh
Confidence            45799999999986432 22344556666654   46899999997532   23222222222232222           


Q ss_pred             hcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHH
Q 023298          179 QLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLS  258 (284)
Q Consensus       179 ~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~  258 (284)
                      ..++|.|+|+||+|+.... ++.+.+                          .+.+...+ ..++++||++++|+++|+.
T Consensus       282 l~~kP~IVVlNKiDL~da~-el~e~l--------------------------~~~l~~~g-~~Vf~ISA~tgeGLdEL~~  333 (500)
T PRK12296        282 LAERPRLVVLNKIDVPDAR-ELAEFV--------------------------RPELEARG-WPVFEVSAASREGLRELSF  333 (500)
T ss_pred             hcCCCEEEEEECccchhhH-HHHHHH--------------------------HHHHHHcC-CeEEEEECCCCCCHHHHHH
Confidence            2478999999999986433 222221                          11122233 5799999999999999999


Q ss_pred             HHHHhcCCC
Q 023298          259 QIDNCIQWG  267 (284)
Q Consensus       259 ~I~~~l~~g  267 (284)
                      .|.+.+..-
T Consensus       334 ~L~ell~~~  342 (500)
T PRK12296        334 ALAELVEEA  342 (500)
T ss_pred             HHHHHHHhh
Confidence            988877553

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.47  E-value=9.1e-13  Score=117.52  Aligned_cols=210  Identities=14%  Similarity=0.074  Sum_probs=105.7

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      ++|+|.. +||||++..+.......|+.....++|-...+..-...      .++..  +.+|+...|.++..-...  .
T Consensus         2 v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t------~~~~~--~~~g~~~~~~~~~~~~~~--~   71 (224)
T cd04165           2 VAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRT------SSVSN--EILGFDSDGEVVNYPDNH--L   71 (224)
T ss_pred             EEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCch------hhhhh--hhcccCCCCceecCCCCc--c
Confidence            6789999 99999999999865556666666666644332211000      01111  112222222221100000  0


Q ss_pred             HHHHH-HHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHH
Q 023298          101 LDDWL-AEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMV  178 (284)
Q Consensus       101 ~~~~l-~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~  178 (284)
                        .+- .+..+ ..++.+.+|||||+..      ..+.+...+.. ...+++++++|+.....+ +..+.      ..+.
T Consensus        72 --~~~~~~~~~-~~~~~i~liDtpG~~~------~~~~~~~~~~~-~~~D~~llVvda~~g~~~~d~~~l------~~l~  135 (224)
T cd04165          72 --SESDIEICE-KSSKLVTFIDLAGHER------YLKTTLFGLTG-YAPDYAMLVVAANAGIIGMTKEHL------GLAL  135 (224)
T ss_pred             --ccccceeee-eCCcEEEEEECCCcHH------HHHHHHHhhcc-cCCCEEEEEEECCCCCcHHHHHHH------HHHH
Confidence              000 01112 1256789999999532      22333444421 235688999998754332 22222      2334


Q ss_pred             hcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHH----HHHHHH--HHHHHhccCCceEEEEeccCccc
Q 023298          179 QLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQF----AKLNKS--LIELVDEYSMVSFMPLDLRKESS  252 (284)
Q Consensus       179 ~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~----~~l~~~--i~~~l~~~~~~~~ipiSa~~~~~  252 (284)
                      ..++|+++|+||+|++++. .+.+.++    .+.+.+....-.+.    +.....  .+.-........++++|+.+|+|
T Consensus       136 ~~~ip~ivvvNK~D~~~~~-~~~~~~~----~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~G  210 (224)
T cd04165         136 ALNIPVFVVVTKIDLAPAN-ILQETLK----DLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEG  210 (224)
T ss_pred             HcCCCEEEEEECccccCHH-HHHHHHH----HHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccC
Confidence            6789999999999987643 3333221    11111110000000    000000  00001112235899999999999


Q ss_pred             HHHHHHHHHH
Q 023298          253 IRYVLSQIDN  262 (284)
Q Consensus       253 l~~Ll~~I~~  262 (284)
                      ++.|.+.+..
T Consensus       211 i~~L~~~L~~  220 (224)
T cd04165         211 LDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHh
Confidence            9999887753

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=99.46  E-value=9.6e-13  Score=127.01  Aligned_cols=109  Identities=25%  Similarity=0.265  Sum_probs=66.3

Q ss_pred             ceEEEEEC-CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC---CCCcccc------ccc-------cccHHHHhh
Q 023298           19 LVIKCVFS-PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF---DYPVAMD------IRE-------LISLEDVME   80 (284)
Q Consensus        19 ~~~~~viG-~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~---~~~~~~d------ir~-------~i~~~~vm~   80 (284)
                      +.++.|.. .| |||||+|.|||.+|+..|+||++||+|||++.+   .+.++.+      +.+       -.++.+++.
T Consensus       121 ~~vIav~n~KGGvGKTTta~nLA~~LA~~G~rVLlIDlDpQ~~lt~~~g~~~~~~~~~~~tl~~~l~~~~~~~~~~~~i~  200 (405)
T PRK13869        121 LQVIAVTNFKGGSGKTTTSAHLAQYLALQGYRVLAVDLDPQASLSALLGVLPETDVGANETLYAAIRYDDTRRPLRDVIR  200 (405)
T ss_pred             ceEEEEEcCCCCCCHHHHHHHHHHHHHhcCCceEEEcCCCCCCHHHHcCCCccccccccccHHHHHhccccCCCHHHhee
Confidence            35444544 37 999999999999999999999999999999843   2222211      111       122333332


Q ss_pred             -----hcCcccCchhhhhhHhhhh-------cH----HHHHHHHhhccC-CCCEEEEeCCCCcc
Q 023298           81 -----ELGLGPNGGLIYCMEHLED-------NL----DDWLAEELDNYL-DDDYLVFDCPGQIE  127 (284)
Q Consensus        81 -----~~~lgPng~l~~~~e~~~~-------~~----~~~l~~~l~~~~-~~~~viiDtPg~~e  127 (284)
                           +..+.|++.-+..++....       ..    ...|++.|+... +++||||||||...
T Consensus       201 ~t~~~~ldliPa~~~l~~~e~~~~~~~~~~~~~~~~~~~~L~~~L~~~~~~yD~IiIDtpP~l~  264 (405)
T PRK13869        201 PTYFDGLHLVPGNLELMEFEHTTPKALSDKGTRDGLFFTRVAQAFDEVADDYDVVVIDCPPQLG  264 (405)
T ss_pred             ccCCCCeeEecCCHHHHHHHHHhHHHHhhhcccchhHHHHHHHHHHHhhccCCEEEEECCCchh
Confidence                 3445665543433332110       00    023555665443 68999999999765

>PHA02519 plasmid partition protein SopA; Reviewed

Probab=99.45  E-value=1.2e-12  Score=125.55  Aligned_cols=109  Identities=14%  Similarity=0.087  Sum_probs=65.2

Q ss_pred             ceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEec-CcCCCCCC---CCcccccccccc-----------HHHHh--
Q 023298           19 LVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNL-DPAAENFD---YPVAMDIRELIS-----------LEDVM--   79 (284)
Q Consensus        19 ~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdL-DPq~~~~~---~~~~~dir~~i~-----------~~~vm--   79 (284)
                      +.++.|... | |||||+|.|||.+|+..|+||++||+ |||++.+.   +.++.++.+.-+           ..+++  
T Consensus       106 ~~vIav~n~KGGVGKTTta~nLA~~LA~~G~rVLlIDl~DpQ~nlt~~~g~~~~~~~~~~~tl~~~~~~~~~~~~~~i~~  185 (387)
T PHA02519        106 PVVLAVMSHKGGVYKTSSAVHTAQWLALQGHRVLLIEGNDPQGTASMYHGYVPDLHIHADDTLLPFYLGERDNAEYAIKP  185 (387)
T ss_pred             ceEEEEecCCCCCcHHHHHHHHHHHHHhCCCcEEEEeCCCCCCCcccccCcCccccccccccHHHHHhCCCcchHhheec
Confidence            344444444 6 99999999999999999999999996 99999643   322222211111           11221  


Q ss_pred             ---hhcCcccCchhhhhhHhhhh----------cHHHHHHHHhhccC-CCCEEEEeCCCCcc
Q 023298           80 ---EELGLGPNGGLIYCMEHLED----------NLDDWLAEELDNYL-DDDYLVFDCPGQIE  127 (284)
Q Consensus        80 ---~~~~lgPng~l~~~~e~~~~----------~~~~~l~~~l~~~~-~~~~viiDtPg~~e  127 (284)
                         .+.++.|.+..+...+....          .....|++.++... +++||||||||...
T Consensus       186 t~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~L~~l~~~YD~IlID~pPslg  247 (387)
T PHA02519        186 TCWPGLDIIPSCLALHRIETDLMQYHDAGKLPHPPHLMLRAAIESVWDNYDIIVIDSAPNLG  247 (387)
T ss_pred             CCCCCEEEEECChHHHHHHHHHHHhhhccccccCHHHHHHHHHHHhhccCCEEEEECCCCcc
Confidence               22344565443332221110          11124555555443 68999999999775

>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.45  E-value=1.1e-12  Score=118.41  Aligned_cols=109  Identities=22%  Similarity=0.221  Sum_probs=65.3

Q ss_pred             ceEEEEECC-C-CcHHHHHHHHHHHHH-hcCCceEEEecCcCCCCCCCCc---c--ccccccccHHH----------Hhh
Q 023298           19 LVIKCVFSP-P-PNQSTYCSSLYRHCE-TVRRTMHIVNLDPAAENFDYPV---A--MDIRELISLED----------VME   80 (284)
Q Consensus        19 ~~~~~viG~-~-sGKTT~~~~La~~l~-~~g~~v~iVdLDPq~~~~~~~~---~--~dir~~i~~~~----------vm~   80 (284)
                      +.++.|+.. | |||||++.|||.+|+ ..|+||++||+|||++.+.|-.   .  ..+.++.....          .+.
T Consensus         2 ~~iI~v~n~KGGvGKTT~a~nLa~~La~~~~~kVLliDlDpQ~s~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (259)
T COG1192           2 MKIIAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLIDLDPQGSLTSWLGLRPDLEGDLYNLLSGLKERPDILDYTVVIE   81 (259)
T ss_pred             CEEEEEEecCCCccHHHHHHHHHHHHHHhcCCcEEEEeCCCcchhhHhcCCCcccchhHHHHHhcccccccchhcccCCC
Confidence            455556665 6 999999999999999 5669999999999988654321   1  11111111000          234


Q ss_pred             hcCcccCchhhh-h--hHhhhhcHHHHHHHHhhccC-CCCEEEEeCCCCcc
Q 023298           81 ELGLGPNGGLIY-C--MEHLEDNLDDWLAEELDNYL-DDDYLVFDCPGQIE  127 (284)
Q Consensus        81 ~~~lgPng~l~~-~--~e~~~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e  127 (284)
                      ++++.|++.-.. .  .+......+..+++.++... +++||+|||||...
T Consensus        82 ~ld~ips~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~yD~iiID~pp~l~  132 (259)
T COG1192          82 GLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVKDDYDYIIIDTPPSLG  132 (259)
T ss_pred             CceEecCChHHHhHHHHHHhhhhHHHHHHHHhhhhccCCCEEEECCCCchh
Confidence            456777655443 1  11111222233444443222 68999999999764

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.44  E-value=2.8e-12  Score=123.89  Aligned_cols=115  Identities=10%  Similarity=0.098  Sum_probs=76.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +..+.++||||+..  ......+.+..... .....++++|++|+.....+ +..+..++      .+.++|+++|+||+
T Consensus        46 ~~~~~liDTpG~~~--~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l------~~~~~piilVvNK~  117 (429)
T TIGR03594        46 GREFILIDTGGIEE--DDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWL------RKSGKPVILVANKI  117 (429)
T ss_pred             CeEEEEEECCCCCC--cchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHH------HHhCCCEEEEEECc
Confidence            44689999999754  11222233333221 23335789999999764333 33344333      35689999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+........                               -+...++..++++||.+|.|+.+|++.+.+.++..
T Consensus       118 D~~~~~~~~~-------------------------------~~~~lg~~~~~~vSa~~g~gv~~ll~~i~~~l~~~  162 (429)
T TIGR03594       118 DGKKEDAVAA-------------------------------EFYSLGFGEPIPISAEHGRGIGDLLDAILELLPEE  162 (429)
T ss_pred             cCCcccccHH-------------------------------HHHhcCCCCeEEEeCCcCCChHHHHHHHHHhcCcc
Confidence            9865331100                               01345677899999999999999999999998764

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=99.44  E-value=1.6e-12  Score=116.10  Aligned_cols=153  Identities=14%  Similarity=0.226  Sum_probs=80.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC----Cc-cccccccc----cHHHHhh----hcCcccC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY----PV-AMDIRELI----SLEDVME----ELGLGPN   87 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~----~~-~~dir~~i----~~~~vm~----~~~lgPn   87 (284)
                      .++-+.| |||||++.|||..|++.|++|++||+|||.....+    ++ ..++.+.+    .+++.+.    +..+.|.
T Consensus         4 ~v~~~KGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lp~   83 (251)
T TIGR01969         4 TIASGKGGTGKTTITANLGVALAKLGKKVLALDADITMANLELILGMEDKPVTLHDVLAGEADIKDAIYEGPFGVKVIPA   83 (251)
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCccceeEeCCCCCCCCHHHHhcCCCCHHHheEeCCCCEEEEeC
Confidence            3444557 99999999999999999999999999998643322    11 11122211    1222211    1222343


Q ss_pred             chhhhhhHhhhhcHHHHHHHHhhccC-CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH
Q 023298           88 GGLIYCMEHLEDNLDDWLAEELDNYL-DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF  166 (284)
Q Consensus        88 g~l~~~~e~~~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~  166 (284)
                      +.-....+.  ... +.+.+.+.... +++||||||||.....        ....+..+   +.++.++++...+ -.  
T Consensus        84 ~~~~~~~~~--~~~-~~l~~~l~~l~~~yD~VIiD~p~~~~~~--------~~~~l~~a---d~vliv~~~~~~s-~~--  146 (251)
T TIGR01969        84 GVSLEGLRK--ADP-DKLEDVLKEIIDDTDFLLIDAPAGLERD--------AVTALAAA---DELLLVVNPEISS-IT--  146 (251)
T ss_pred             CCCHHHHhh--cCH-HHHHHHHHHHHhhCCEEEEeCCCccCHH--------HHHHHHhC---CeEEEEECCCCch-HH--
Confidence            321111110  011 22333333221 6899999999976521        22334333   4566667664322 11  


Q ss_pred             HHHHHHHHHHHHhcCCC-EEEEecCCcc
Q 023298          167 ISGCMASLSAMVQLELP-HVNILSKMDL  193 (284)
Q Consensus       167 i~~~l~~l~~~~~~~~p-~IlVlNK~Dl  193 (284)
                        ..+.......+.+.+ ..+|+|+++.
T Consensus       147 --~~~~~~~~~~~~~~~~~~vv~N~~~~  172 (251)
T TIGR01969       147 --DALKTKIVAEKLGTAILGVVLNRVTR  172 (251)
T ss_pred             --HHHHHHHHHHhcCCceEEEEEECCCc
Confidence              111222222344555 4689999875

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.44  E-value=1e-12  Score=109.12  Aligned_cols=101  Identities=16%  Similarity=0.262  Sum_probs=67.0

Q ss_pred             EEEeCCCCcccccccchHHHHHHHHH--hcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          118 LVFDCPGQIELFTHVPVLRNFVDHLK--SRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       118 viiDtPg~~e~~~~~~~~~~l~~~l~--~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .+|||||-.  ..+    +.+.++|.  +.+ +++|+++.|+...  .-|..|..          -.++|+|-|++|+|+
T Consensus        39 ~~IDTPGEy--iE~----~~~y~aLi~ta~d-ad~V~ll~dat~~~~~~pP~fa~----------~f~~pvIGVITK~Dl  101 (143)
T PF10662_consen   39 NTIDTPGEY--IEN----PRFYHALIVTAQD-ADVVLLLQDATEPRSVFPPGFAS----------MFNKPVIGVITKIDL  101 (143)
T ss_pred             cEEECChhh--eeC----HHHHHHHHHHHhh-CCEEEEEecCCCCCccCCchhhc----------ccCCCEEEEEECccC
Confidence            459999932  122    23334432  223 4689999999864  23455432          246899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      .++..+++.-                           .+.+...|..+++++|+.+|+|+++|.+.+.+
T Consensus       102 ~~~~~~i~~a---------------------------~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~~  143 (143)
T PF10662_consen  102 PSDDANIERA---------------------------KKWLKNAGVKEIFEVSAVTGEGIEELKDYLEE  143 (143)
T ss_pred             ccchhhHHHH---------------------------HHHHHHcCCCCeEEEECCCCcCHHHHHHHHhC
Confidence            7433133221                           23445667788999999999999999988753

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>cd01889 SelB_euk SelB subfamily

Probab=99.44  E-value=3.3e-12  Score=110.29  Aligned_cols=118  Identities=17%  Similarity=0.251  Sum_probs=70.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+...      ...+....   ...+.+++++|+....+.... ..+ .   .....+.|.++|+||+|+
T Consensus        67 ~~~~~i~DtpG~~~~------~~~~~~~~---~~~d~vi~VvD~~~~~~~~~~-~~~-~---~~~~~~~~~iiv~NK~Dl  132 (192)
T cd01889          67 NLQITLVDCPGHASL------IRTIIGGA---QIIDLMLLVVDATKGIQTQTA-ECL-V---IGEILCKKLIVVLNKIDL  132 (192)
T ss_pred             CceEEEEECCCcHHH------HHHHHHHH---hhCCEEEEEEECCCCccHHHH-HHH-H---HHHHcCCCEEEEEECccc
Confidence            568999999997431      12222222   224689999999754322221 001 1   112347899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... ......+                   ++...+...+.++  ....++|+||++|+|+++|+..+...++
T Consensus       133 ~~~~-~~~~~~~-------------------~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         133 IPEE-ERERKIE-------------------KMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CCHH-HHHHHHH-------------------HHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence            7533 2221111                   1111112223222  3468999999999999999999988765

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=99.44  E-value=2.1e-12  Score=117.90  Aligned_cols=43  Identities=19%  Similarity=0.230  Sum_probs=38.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY   63 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~   63 (284)
                      ++.|.|.| |||||++.|||..|++.|+||++||+|||++.+.+
T Consensus         3 ~iav~gKGGVGKTT~a~nLA~~La~~G~rVllvD~Dpq~~~~~~   46 (273)
T PRK13232          3 QIAIYGKGGIGKSTTTQNLTAALSTMGNKILLVGCDPKADSTRM   46 (273)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhhCCCeEEEecccccccchh
Confidence            45566999 99999999999999999999999999999997654

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.43  E-value=3.9e-12  Score=107.60  Aligned_cols=128  Identities=17%  Similarity=0.134  Sum_probs=71.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.+++++||||+...      .......+..   .+++++++|+.........  ..   +......++|.++|+||+|+
T Consensus        61 ~~~~~liDtpG~~~~------~~~~~~~~~~---~d~~i~v~d~~~~~~~~~~--~~---~~~~~~~~~~i~iv~nK~D~  126 (189)
T cd00881          61 DRRVNFIDTPGHEDF------SSEVIRGLSV---SDGAILVVDANEGVQPQTR--EH---LRIAREGGLPIIVAINKIDR  126 (189)
T ss_pred             CEEEEEEeCCCcHHH------HHHHHHHHHh---cCEEEEEEECCCCCcHHHH--HH---HHHHHHCCCCeEEEEECCCC
Confidence            447899999997541      1112223333   4678999998754322211  11   11223368999999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .... ++....+    .+.+.++... ..+.+     ...........++|+||++|.|+++++..+...+|.
T Consensus       127 ~~~~-~~~~~~~----~~~~~~~~~~-~~~~~-----~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~~  188 (189)
T cd00881         127 VGEE-DLEEVLR----EIKELLGLIG-FISTK-----EEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHLPP  188 (189)
T ss_pred             cchh-cHHHHHH----HHHHHHcccc-ccchh-----hhhcccCCcceEEEEecccCcCHHHHHHHHHhhCCC
Confidence            7533 2222211    1111111000 00000     001112235789999999999999999999998863

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>PRK09866 hypothetical protein; Provisional

Probab=99.43  E-value=7.4e-12  Score=124.97  Aligned_cols=118  Identities=11%  Similarity=0.126  Sum_probs=76.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcC--CCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLE--LPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~--~p~IlVlNK  190 (284)
                      ..|+||+||||.++.. .....+.|.+.+..   +++|+|++|+... ...+..+...      +.+.+  .|+++|+||
T Consensus       229 ~~QIIFVDTPGIhk~~-~~~L~k~M~eqL~e---ADvVLFVVDat~~~s~~DeeIlk~------Lkk~~K~~PVILVVNK  298 (741)
T PRK09866        229 PGQLTLLDTPGPNEAG-QPHLQKMLNQQLAR---ASAVLAVLDYTQLKSISDEEVREA------ILAVGQSVPLYVLVNK  298 (741)
T ss_pred             cCCEEEEECCCCCCcc-chHHHHHHHHHHhh---CCEEEEEEeCCCCCChhHHHHHHH------HHhcCCCCCEEEEEEc
Confidence            4799999999988622 12245566776654   4689999999864 4444444333      23455  499999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHH--hccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELV--DEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l--~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +|+.++.....+.+       ..               .+...+  ....+.+++||||++|.|++.|++.|.+.
T Consensus       299 IDl~dreeddkE~L-------le---------------~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~~  351 (741)
T PRK09866        299 FDQQDRNSDDADQV-------RA---------------LISGTLMKGCITPQQIFPVSSMWGYLANRARHELANN  351 (741)
T ss_pred             ccCCCcccchHHHH-------HH---------------HHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHhC
Confidence            99864221111111       00               011111  13356899999999999999999999874

>CHL00175 minD septum-site determining protein; Validated

Probab=99.43  E-value=4.6e-12  Score=115.93  Aligned_cols=40  Identities=13%  Similarity=0.082  Sum_probs=34.5

Q ss_pred             eEEEEEC-CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFS-PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG-~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +++.|+| .| |||||+|.|||.+|++.|++|++||+|||..
T Consensus        16 ~vi~v~s~KGGvGKTt~a~nLA~~La~~g~~vlliD~D~~~~   57 (281)
T CHL00175         16 RIIVITSGKGGVGKTTTTANLGMSIARLGYRVALIDADIGLR   57 (281)
T ss_pred             eEEEEEcCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCC
Confidence            3455555 57 9999999999999999999999999999854

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=99.43  E-value=3.3e-13  Score=123.58  Aligned_cols=44  Identities=16%  Similarity=0.194  Sum_probs=39.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY   63 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~   63 (284)
                      +.+.++|.| |||||+|.|||..|++.|+||++||+|||++.+.+
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La~~G~rVLliD~Dpq~n~t~~   46 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALAESGKKVLVVGCDPKADCTRN   46 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHhCCCEEEEEeeCCccccccc
Confidence            457777999 99999999999999999999999999999986543

>cd01894 EngA1 EngA1 subfamily

Probab=99.42  E-value=4.9e-12  Score=103.67  Aligned_cols=111  Identities=11%  Similarity=0.129  Sum_probs=69.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+.+...  .....+.+.. ......+++++++|+... ......+..      .+.+.+.|+++|+||+
T Consensus        44 ~~~~~i~DtpG~~~~~~--~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~------~~~~~~~piiiv~nK~  115 (157)
T cd01894          44 GREFILIDTGGIEPDDE--GISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAK------YLRKSKKPVILVVNKV  115 (157)
T ss_pred             CeEEEEEECCCCCCchh--HHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHH------HHHhcCCCEEEEEECc
Confidence            45789999999876322  2233333222 111224689999998643 222222222      2335679999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      |+.... ..   .                           +.+...+...++++|++++.|++++++.|.+.
T Consensus       116 D~~~~~-~~---~---------------------------~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         116 DNIKEE-DE---A---------------------------AEFYSLGFGEPIPISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             ccCChH-HH---H---------------------------HHHHhcCCCCeEEEecccCCCHHHHHHHHHhh
Confidence            987543 11   0                           01123344578999999999999999998764

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=99.42  E-value=5e-12  Score=121.42  Aligned_cols=109  Identities=14%  Similarity=0.102  Sum_probs=65.5

Q ss_pred             ceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEec-CcCCCCCCC---Ccccccc--c----cc-----cHHHHh--
Q 023298           19 LVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNL-DPAAENFDY---PVAMDIR--E----LI-----SLEDVM--   79 (284)
Q Consensus        19 ~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdL-DPq~~~~~~---~~~~dir--~----~i-----~~~~vm--   79 (284)
                      +.++.|... | |||||+|.|||.+|+..|+||++||+ |||++.+.+   .++.++.  +    .+     ...+++  
T Consensus       106 ~~vIai~n~KGGVGKTT~a~nLA~~LA~~G~rVLlID~~DpQ~nlt~~~g~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~  185 (388)
T PRK13705        106 PPVIGVAAHKGGVYKTSVSVHLAQDLALKGLRVLLVEGNDPQGTASMYHGWVPDLHIHAEDTLLPFYLGEKDDATYAIKP  185 (388)
T ss_pred             CeEEEEECCCCCchHHHHHHHHHHHHHhcCCCeEEEcCCCCCCchhhhcCcCccccccccccHHHHHhcCCCchhhheec
Confidence            444444444 6 99999999999999999999999996 999986432   2221111  0    00     111111  


Q ss_pred             ---hhcCcccCchhhhhhHhh-hh---------cHHHHHHHHhhccC-CCCEEEEeCCCCcc
Q 023298           80 ---EELGLGPNGGLIYCMEHL-ED---------NLDDWLAEELDNYL-DDDYLVFDCPGQIE  127 (284)
Q Consensus        80 ---~~~~lgPng~l~~~~e~~-~~---------~~~~~l~~~l~~~~-~~~~viiDtPg~~e  127 (284)
                         .+..+.|.+..+...+.. ..         +....|++.++... +++||||||||...
T Consensus       186 t~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~l~~l~~~YD~IiIDtpP~l~  247 (388)
T PRK13705        186 TCWPGLDIIPSCLALHRIETELMGKFDEGKLPTDPHLMLRLAIETVAHDYDVIVIDSAPNLG  247 (388)
T ss_pred             CCCCCEEEEeCCHHHHHHHHHHHHhhhcccccccHHHHHHHHHHhhhccCCEEEEECCCchh
Confidence               234456655444333321 11         11234556665543 68999999999765

>PHA02518 ParA-like protein; Provisional

Probab=99.42  E-value=3e-12  Score=111.42  Aligned_cols=42  Identities=19%  Similarity=0.322  Sum_probs=37.3

Q ss_pred             EEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC
Q 023298           22 KCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY   63 (284)
Q Consensus        22 ~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~   63 (284)
                      +.|.+. | |||||+|.|||.+|++.|++|++||+|||++...|
T Consensus         3 i~v~~~KGGvGKTT~a~~la~~la~~g~~vlliD~D~q~~~~~~   46 (211)
T PHA02518          3 IAVLNQKGGAGKTTVATNLASWLHADGHKVLLVDLDPQGSSTDW   46 (211)
T ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCChHHH
Confidence            555655 6 99999999999999999999999999999987655

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=99.42  E-value=2.3e-12  Score=115.47  Aligned_cols=43  Identities=9%  Similarity=0.028  Sum_probs=37.2

Q ss_pred             EEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC
Q 023298           21 IKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY   63 (284)
Q Consensus        21 ~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~   63 (284)
                      ++.|.+. | |||||++.|||.+|++.|++|++||+|||++...|
T Consensus         3 iI~v~n~KGGvGKTT~a~nLA~~la~~G~~VlliD~DpQ~s~~~w   47 (231)
T PRK13849          3 LLTFCSFKGGAGKTTALMGLCAALASDGKRVALFEADENRPLTRW   47 (231)
T ss_pred             EEEEECCCCCccHHHHHHHHHHHHHhCCCcEEEEeCCCCCCHHHH
Confidence            4555554 6 99999999999999999999999999999996555

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=99.41  E-value=2.7e-12  Score=114.55  Aligned_cols=158  Identities=12%  Similarity=0.142  Sum_probs=83.1

Q ss_pred             EEEEEC-CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC---CCCc--cccccccc----cHHHHh----hhcCcc
Q 023298           21 IKCVFS-PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF---DYPV--AMDIRELI----SLEDVM----EELGLG   85 (284)
Q Consensus        21 ~~~viG-~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~---~~~~--~~dir~~i----~~~~vm----~~~~lg   85 (284)
                      ++.|.+ .| +||||++.|||..|++.|+||++||+|||++..   ..+.  ...+.+.+    .+.+++    .+..+.
T Consensus         3 iI~v~s~KGGvGKTt~a~nla~~la~~g~~VlliD~D~q~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~i   82 (246)
T TIGR03371         3 VIAIVGVKGGVGKTTLTANLASALKLLGEPVLAIDLDPQNLLRLHFGMDWSVRDGWARALLNGEPWAAAAYRSSDGVLFL   82 (246)
T ss_pred             EEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEeCCCcchHHHHhCCCCccCCcHHHHHhcCCChHHhHhhcCCCeEEe
Confidence            456666 57 999999999999999999999999999998621   1111  11111111    122222    123344


Q ss_pred             cCchhhhh-hHhhhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC
Q 023298           86 PNGGLIYC-MEHLEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD  162 (284)
Q Consensus        86 Png~l~~~-~e~~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~  162 (284)
                      |.|..... .+.+.....+++++.++...  .++||+|||||.....        ....+..+   +.++..+...    
T Consensus        83 p~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~D~viiD~pp~~~~~--------~~~~l~~a---d~vii~~~~~----  147 (246)
T TIGR03371        83 PFGDLSADEREAYQAHDAGWLARLLQQLDLAARDWVLIDVPRGPSPI--------TRQALAAA---DLVLVVVNAD----  147 (246)
T ss_pred             cCCCCcHHHHHHHhhcCHHHHHHHHHhcccCCCCEEEEECCCCchHH--------HHHHHHhC---CeEEEEeCCC----
Confidence            54432211 11111111245555555442  2489999999955421        22334443   4455555552    


Q ss_pred             HHHHHHHHHHHHHHHHh---cCCCEEEEecCCccc
Q 023298          163 VTKFISGCMASLSAMVQ---LELPHVNILSKMDLV  194 (284)
Q Consensus       163 ~~~~i~~~l~~l~~~~~---~~~p~IlVlNK~Dll  194 (284)
                      +..+ ......+..+.+   ...+.-+|+|+++..
T Consensus       148 ~~s~-~~~~~~~~~l~~~~~~~~~~~iv~n~~~~~  181 (246)
T TIGR03371       148 AACY-ATLHQQALALFAGSGPRIGPHFLINQFDPA  181 (246)
T ss_pred             HHHH-HHHHHHHHHHhhcccccccceEEeeccCcc
Confidence            2221 111101111111   234567899999853

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK10037 cell division protein; Provisional

Probab=99.41  E-value=3.4e-12  Score=115.16  Aligned_cols=40  Identities=8%  Similarity=0.043  Sum_probs=35.0

Q ss_pred             EEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           21 IKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        21 ~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ++.|.+. | |||||+|.|||.+|+++|+||++||+|||++.
T Consensus         3 ~iav~n~KGGvGKTT~a~nLA~~La~~G~rVLlID~D~q~~~   44 (250)
T PRK10037          3 ILGLQGVRGGVGTTSITAALAWSLQMLGENVLVIDACPDNLL   44 (250)
T ss_pred             EEEEecCCCCccHHHHHHHHHHHHHhcCCcEEEEeCChhhhH
Confidence            3455544 6 99999999999999999999999999999873

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.41  E-value=2.2e-12  Score=126.75  Aligned_cols=115  Identities=8%  Similarity=0.079  Sum_probs=72.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+..  ........+..... ....+++++|++|+....+. ...+..+      +.+.++|+++|+||+
T Consensus        85 ~~~~~l~DT~G~~~--~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~------l~~~~~piilV~NK~  156 (472)
T PRK03003         85 GRRFTVVDTGGWEP--DAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATDEAVARV------LRRSGKPVILAANKV  156 (472)
T ss_pred             CcEEEEEeCCCcCC--cchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHH------HHHcCCCEEEEEECc
Confidence            44689999999763  11222233332221 22235789999999865333 2223332      235689999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+.....+..+                               +...++...+++||++|.|+++|++.|.+.++..
T Consensus       157 Dl~~~~~~~~~-------------------------------~~~~g~~~~~~iSA~~g~gi~eL~~~i~~~l~~~  201 (472)
T PRK03003        157 DDERGEADAAA-------------------------------LWSLGLGEPHPVSALHGRGVGDLLDAVLAALPEV  201 (472)
T ss_pred             cCCccchhhHH-------------------------------HHhcCCCCeEEEEcCCCCCcHHHHHHHHhhcccc
Confidence            98532201100                               0123444568999999999999999999988764

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=99.41  E-value=1.9e-12  Score=118.10  Aligned_cols=43  Identities=14%  Similarity=0.111  Sum_probs=37.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecCcCCCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq~~~~~   62 (284)
                      +++.|.|.| |||||+|.|||..|++ .|+||++||+|||++.+.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~La~~~G~rvLliD~Dpq~~~t~   47 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAMAYFHDKKVFIHGCDPKADSTR   47 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHHHhcCCeEEEeccCcCcChHH
Confidence            345566999 9999999999999997 699999999999998653

>cd01895 EngA2 EngA2 subfamily

Probab=99.40  E-value=1.1e-11  Score=102.87  Aligned_cols=122  Identities=12%  Similarity=0.162  Sum_probs=70.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+.+..........+  .+.+......+++++++|+....+....  .   .+......+.|.++|+||+
T Consensus        49 ~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~--~---~~~~~~~~~~~~iiv~nK~  123 (174)
T cd01895          49 GKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDL--R---IAGLILEEGKALVIVVNKW  123 (174)
T ss_pred             CeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHH--H---HHHHHHhcCCCEEEEEecc
Confidence            3468999999986542211111211  2222222224689999998754332221  1   1122234579999999999


Q ss_pred             ccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          192 DLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       192 Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      |+.... .....+.                       ..+.+.+...+...++++||++++|+.++.+.+.+.
T Consensus       124 Dl~~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         124 DLVEKDSKTMKEFK-----------------------KEIRRKLPFLDYAPIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             ccCCccHHHHHHHH-----------------------HHHHhhcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence            987542 0121111                       111122222334689999999999999999988764

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=99.40  E-value=4.8e-12  Score=122.35  Aligned_cols=153  Identities=8%  Similarity=0.100  Sum_probs=85.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHh--hhcCcccCchhhhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVM--EELGLGPNGGLIYCM   94 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm--~~~~lgPng~l~~~~   94 (284)
                      +|.+++++|++ |||||+|..||.++.++|++|++|+.||+.... +.   -++.+   .+.+  .-+...+....+   
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA-~e---QLk~~---a~~~~vp~~~~~~~~dp~---  168 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGA-FD---QLKQN---ATKARIPFYGSYTESDPV---  168 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhH-HH---HHHHH---hhccCCeEEeecCCCCHH---
Confidence            47899999999 999999999999999999999999999987421 10   00000   0000  000000000000   


Q ss_pred             HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                      ......+    + .+... ++++|||||||.+.  ........|.+.....+ ++.+++++|+....+... +...    
T Consensus       169 ~i~~~~l----~-~~~~~-~~DvViIDTaGr~~--~d~~lm~El~~i~~~~~-p~e~lLVlda~~Gq~a~~-~a~~----  234 (429)
T TIGR01425       169 KIASEGV----E-KFKKE-NFDIIIVDTSGRHK--QEDSLFEEMLQVAEAIQ-PDNIIFVMDGSIGQAAEA-QAKA----  234 (429)
T ss_pred             HHHHHHH----H-HHHhC-CCCEEEEECCCCCc--chHHHHHHHHHHhhhcC-CcEEEEEeccccChhHHH-HHHH----
Confidence            0001111    1 12211 67999999999765  22233333333322222 456889999864322222 2221    


Q ss_pred             HHHHhcCCCEEEEecCCccccc
Q 023298          175 SAMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~~  196 (284)
                        +.+.-.+.-+|+||.|-..+
T Consensus       235 --F~~~~~~~g~IlTKlD~~ar  254 (429)
T TIGR01425       235 --FKDSVDVGSVIITKLDGHAK  254 (429)
T ss_pred             --HHhccCCcEEEEECccCCCC
Confidence              22333478899999997543

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.40  E-value=7.5e-12  Score=104.84  Aligned_cols=120  Identities=19%  Similarity=0.211  Sum_probs=72.1

Q ss_pred             CCCEEEEeCCCCcccccc-cchHHHHHHHHHhcCCCeEEEEEecCCCCC-----CHHHHHHHHHHHHHHHH-------hc
Q 023298          114 DDDYLVFDCPGQIELFTH-VPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-----DVTKFISGCMASLSAMV-------QL  180 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~-~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-----~~~~~i~~~l~~l~~~~-------~~  180 (284)
                      ..++.++||||+.+.... ......+...+..   .+++++++|+....     ++...+..+...+....       ..
T Consensus        43 ~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~---~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (176)
T cd01881          43 GARIQVADIPGLIEGASEGRGLGNQFLAHIRR---ADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLT  119 (176)
T ss_pred             CCeEEEEeccccchhhhcCCCccHHHHHHHhc---cCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHh
Confidence            346899999998653222 1222233444433   46899999997552     33222323333222222       24


Q ss_pred             CCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHH
Q 023298          181 ELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQI  260 (284)
Q Consensus       181 ~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I  260 (284)
                      ++|.++|+||+|+.... ....+.                          ...........++++||+++.|++++++.+
T Consensus       120 ~~p~ivv~NK~Dl~~~~-~~~~~~--------------------------~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l  172 (176)
T cd01881         120 AKPVIYVLNKIDLDDAE-ELEEEL--------------------------VRELALEEGAEVVPISAKTEEGLDELIRAI  172 (176)
T ss_pred             hCCeEEEEEchhcCchh-HHHHHH--------------------------HHHHhcCCCCCEEEEehhhhcCHHHHHHHH
Confidence            78999999999997544 332221                          001122234679999999999999999988


Q ss_pred             HHh
Q 023298          261 DNC  263 (284)
Q Consensus       261 ~~~  263 (284)
                      ...
T Consensus       173 ~~~  175 (176)
T cd01881         173 YEL  175 (176)
T ss_pred             Hhh
Confidence            654

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>cd01864 Rab19 Rab19 subfamily

Probab=99.40  E-value=1.2e-11  Score=103.42  Aligned_cols=112  Identities=13%  Similarity=0.191  Sum_probs=70.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+...       ..+.+..-  ...+++++++|+..   +..+  +..++..+......+.|.++|.||+|
T Consensus        52 ~~l~i~D~~G~~~~-------~~~~~~~~--~~~d~~llv~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  119 (165)
T cd01864          52 VKLQIWDTAGQERF-------RTITQSYY--RSANGAIIAYDITR---RSSFESVPHWIEEVEKYGASNVVLLLIGNKCD  119 (165)
T ss_pred             EEEEEEECCChHHH-------HHHHHHHh--ccCCEEEEEEECcC---HHHHHhHHHHHHHHHHhCCCCCcEEEEEECcc
Confidence            36799999996431       12222221  12467889999864   3333  33444444333345789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +...+ +.. .                        ....++.+.++...++++||++|.|++++++.+.+.+
T Consensus       120 l~~~~-~~~-~------------------------~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~l  165 (165)
T cd01864         120 LEEQR-EVL-F------------------------EEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATEL  165 (165)
T ss_pred             ccccc-ccC-H------------------------HHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHhC
Confidence            86533 110 0                        0011223445667899999999999999999987653

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=99.39  E-value=6.6e-12  Score=115.16  Aligned_cols=44  Identities=7%  Similarity=-0.071  Sum_probs=39.8

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      .-.++++++++||+ |||||++.+||.++++.|++|++|+.|++.
T Consensus        68 ~~~~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r  112 (272)
T TIGR00064        68 EENKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFR  112 (272)
T ss_pred             cCCCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCC
Confidence            34567889999999 999999999999999999999999999854

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.

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=99.38  E-value=5.5e-13  Score=121.76  Aligned_cols=43  Identities=14%  Similarity=0.190  Sum_probs=38.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY   63 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~   63 (284)
                      .+.|.|.| |||||+|.|||..|++.|+||++||+|||++.+.+
T Consensus         3 ~iav~~KGGVGKTT~~~nLA~~La~~G~rVLlID~Dpq~~~t~~   46 (274)
T PRK13235          3 KVAIYGKGGIGKSTTTQNTVAGLAEMGKKVMVVGCDPKADSTRL   46 (274)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHHCCCcEEEEecCCccccccc
Confidence            46666999 99999999999999999999999999999997543

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=99.38  E-value=1.1e-11  Score=118.82  Aligned_cols=42  Identities=17%  Similarity=0.105  Sum_probs=35.9

Q ss_pred             eEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           20 VIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        20 ~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      +++.|.+. | |||||+|.|||.+|+..|+||++||+|||++.+
T Consensus       105 ~vI~v~n~KGGvGKTT~a~nLA~~La~~G~rVLlID~DpQ~~ls  148 (387)
T TIGR03453       105 QVIAVTNFKGGSGKTTTAAHLAQYLALRGYRVLAIDLDPQASLS  148 (387)
T ss_pred             eEEEEEccCCCcCHHHHHHHHHHHHHhcCCCEEEEecCCCCCHH
Confidence            44555444 6 999999999999999999999999999999853

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=99.38  E-value=1.6e-11  Score=110.60  Aligned_cols=155  Identities=17%  Similarity=0.302  Sum_probs=92.2

Q ss_pred             ceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC---CCCCccc------cccccccHHHHh----hhcC
Q 023298           19 LVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN---FDYPVAM------DIRELISLEDVM----EELG   83 (284)
Q Consensus        19 ~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~---~~~~~~~------dir~~i~~~~vm----~~~~   83 (284)
                      |.+|+|+|+ | +||||++.|||..|++.|++|++||+|||+..   |..+.+.      ..-+--.+.+.+    .+..
T Consensus         1 M~~iai~s~kGGvG~TTltAnLA~aL~~~G~~VlaID~dpqN~Lrlhfg~~~~~~~G~a~a~l~~~~W~~~~~~~~~g~~   80 (243)
T PF06564_consen    1 MKVIAIVSPKGGVGKTTLTANLAWALARLGESVLAIDLDPQNLLRLHFGLPLDDRDGWARALLDGADWQQAAYRYSDGVD   80 (243)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCcHHHHHHhcCCCCcccccHHHHHhCCCCHHHHhhccCCCCE
Confidence            456899999 5 99999999999999999999999999999983   3322100      000111233322    2445


Q ss_pred             cccCchhhhh----hHhhhhcHHHHHHHHhhccC---CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEec
Q 023298           84 LGPNGGLIYC----MEHLEDNLDDWLAEELDNYL---DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLD  156 (284)
Q Consensus        84 lgPng~l~~~----~e~~~~~~~~~l~~~l~~~~---~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiD  156 (284)
                      +.|-|.+-..    .+.+...- .|+.+.+....   .+++|+||||+....+        ..+.+..+|   .++.++-
T Consensus        81 ~LPfG~l~~~~~~~~~~l~~~~-~~l~~~l~~l~~~~~~~~iliD~P~g~~~~--------~~~al~~aD---~vL~V~~  148 (243)
T PF06564_consen   81 FLPFGQLTEAEREAFEQLAQDP-QWLARALAALKALGPYDWILIDTPPGPSPY--------TRQALAAAD---LVLVVVN  148 (243)
T ss_pred             EEcCCCCCHHHHHHHHHhhcCH-HHHHHHHHHHhccCCCCEEEEeCCCCCcHH--------HHHHHHhCC---eEEEEeC
Confidence            6687766432    22222222 56666666553   5789999999965522        223344444   3444443


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          157 SQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       157 a~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      +    ++..+.  .   +.. ........+|+|+.|..+
T Consensus       149 ~----Da~s~~--~---L~q-~~l~~~~~~liNq~~~~s  177 (243)
T PF06564_consen  149 P----DAASHA--R---LHQ-RALPAGHRFLINQYDPAS  177 (243)
T ss_pred             C----CHHHHH--H---HHH-hcccCCcEEEEeccCccc
Confidence            3    222221  1   111 123446788999999754

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=99.38  E-value=1.2e-11  Score=104.98  Aligned_cols=129  Identities=16%  Similarity=0.129  Sum_probs=75.3

Q ss_pred             EEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhcH
Q 023298           23 CVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNL  101 (284)
Q Consensus        23 ~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~~  101 (284)
                      +.-+.| +||||++.|||.++++.|+||++||+|||.....+-    .+              +|.  .       ...+
T Consensus         4 v~s~kgG~GKTt~a~~LA~~la~~g~~vllvD~D~q~~~~~~~----~~--------------~~~--~-------~~~l   56 (169)
T cd02037           4 VMSGKGGVGKSTVAVNLALALAKLGYKVGLLDADIYGPSIPKM----WR--------------GPM--K-------MGAI   56 (169)
T ss_pred             EecCCCcCChhHHHHHHHHHHHHcCCcEEEEeCCCCCCCchHH----Hh--------------Ccc--h-------HHHH
Confidence            344457 999999999999999999999999999999754321    00              111  0       0112


Q ss_pred             HHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcC
Q 023298          102 DDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLE  181 (284)
Q Consensus       102 ~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~  181 (284)
                      .+++++ +.. .+++|||+||||.....        ....+. ....+.+++++.+...    . +......+..+.+.+
T Consensus        57 ~~~~~~-~~~-~~yD~VIiD~pp~~~~~--------~~~~~~-~~~ad~viiV~~p~~~----s-~~~~~~~~~~l~~~~  120 (169)
T cd02037          57 KQFLTD-VDW-GELDYLVIDMPPGTGDE--------HLTLAQ-SLPIDGAVIVTTPQEV----A-LDDVRKAIDMFKKVN  120 (169)
T ss_pred             HHHHHH-hhc-CCCCEEEEeCCCCCcHH--------HHHHHh-ccCCCeEEEEECCchh----h-HHHHHHHHHHHHhcC
Confidence            123332 221 17899999999975411        111121 0113456666654321    1 233333344555666


Q ss_pred             CCE-EEEecCCccc
Q 023298          182 LPH-VNILSKMDLV  194 (284)
Q Consensus       182 ~p~-IlVlNK~Dll  194 (284)
                      .+. -+|+|+.+..
T Consensus       121 ~~~~gvv~N~~~~~  134 (169)
T cd02037         121 IPILGVVENMSYFV  134 (169)
T ss_pred             CCeEEEEEcCCccc
Confidence            666 4679998753

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.38  E-value=1.2e-11  Score=119.79  Aligned_cols=114  Identities=11%  Similarity=0.116  Sum_probs=71.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+..  ........+.... ......++++|++|+....+. +..+..+      +.+.++|+++|+||+
T Consensus        48 ~~~~~liDT~G~~~--~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~------l~~~~~piilv~NK~  119 (435)
T PRK00093         48 GREFILIDTGGIEP--DDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKI------LRKSNKPVILVVNKV  119 (435)
T ss_pred             CcEEEEEECCCCCC--cchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHH------HHHcCCcEEEEEECc
Confidence            45789999999875  1111222232222 122335789999999754333 3334333      335689999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+........                              ++ ...++..++++||++|.|+.++++.|.+..+.
T Consensus       120 D~~~~~~~~~------------------------------~~-~~lg~~~~~~iSa~~g~gv~~l~~~I~~~~~~  163 (435)
T PRK00093        120 DGPDEEADAY------------------------------EF-YSLGLGEPYPISAEHGRGIGDLLDAILEELPE  163 (435)
T ss_pred             cCccchhhHH------------------------------HH-HhcCCCCCEEEEeeCCCCHHHHHHHHHhhCCc
Confidence            9643210110                              01 23455678999999999999999999885443

>cd01878 HflX HflX subfamily

Probab=99.38  E-value=1.5e-11  Score=106.88  Aligned_cols=116  Identities=17%  Similarity=0.234  Sum_probs=68.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+.+.... .....+...+......+++++++|+........ +..+...+..+...++|+++|+||+|+.
T Consensus        89 ~~~~i~Dt~G~~~~~~~-~~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~-~~~~~~~l~~~~~~~~~viiV~NK~Dl~  166 (204)
T cd01878          89 REVLLTDTVGFIRDLPH-QLVEAFRSTLEEVAEADLLLHVVDASDPDYEEQ-IETVEKVLKELGAEDIPMILVLNKIDLL  166 (204)
T ss_pred             ceEEEeCCCccccCCCH-HHHHHHHHHHHHHhcCCeEEEEEECCCCChhhH-HHHHHHHHHHcCcCCCCEEEEEEccccC
Confidence            37899999998653221 111222222221122467999999874432221 2222222222223468999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ... .....                               .......++++||+++.|+++++..|.+.+
T Consensus       167 ~~~-~~~~~-------------------------------~~~~~~~~~~~Sa~~~~gi~~l~~~L~~~~  204 (204)
T cd01878         167 DDE-ELEER-------------------------------LEAGRPDAVFISAKTGEGLDELLEAIEELL  204 (204)
T ss_pred             ChH-HHHHH-------------------------------hhcCCCceEEEEcCCCCCHHHHHHHHHhhC
Confidence            543 22100                               111236799999999999999999987654

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.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.37  E-value=1.3e-11  Score=107.94  Aligned_cols=116  Identities=16%  Similarity=0.200  Sum_probs=70.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcC-CCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLE-LPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~D  192 (284)
                      .++.|+||||+..      ....+...+.   ..+++++++|+... ..+...  ..+.   .+...+ .|+++|+||+|
T Consensus        83 ~~i~~iDtPG~~~------~~~~~~~~~~---~~D~~llVvd~~~~~~~~~t~--~~l~---~~~~~~~~~iiivvNK~D  148 (203)
T cd01888          83 RHVSFVDCPGHEI------LMATMLSGAA---VMDGALLLIAANEPCPQPQTS--EHLA---ALEIMGLKHIIIVQNKID  148 (203)
T ss_pred             cEEEEEECCChHH------HHHHHHHhhh---cCCEEEEEEECCCCCCCcchH--HHHH---HHHHcCCCcEEEEEEchh
Confidence            6789999999532      1222333332   24689999999752 222211  0111   112233 47899999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      +..+. +....++                       .+.+.+..+  ....++|+||++|+|+++|++.|.+.+|+++
T Consensus       149 l~~~~-~~~~~~~-----------------------~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~~~  202 (203)
T cd01888         149 LVKEE-QALENYE-----------------------QIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPTPP  202 (203)
T ss_pred             ccCHH-HHHHHHH-----------------------HHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCCCC
Confidence            97533 2222211                       112222322  2357999999999999999999999998865

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.37  E-value=1.3e-11  Score=103.07  Aligned_cols=112  Identities=15%  Similarity=0.209  Sum_probs=64.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+.+..       .+... +..   .+++++++|+....+... ...++..+.. ....+.|+++|+||+
T Consensus        49 ~~~~~l~Dt~G~~~~~-------~~~~~~~~~---~~~~v~vvd~~~~~~~~~-~~~~~~~~~~~~~~~~~p~ilv~NK~  117 (167)
T cd04160          49 NARLKFWDLGGQESLR-------SLWDKYYAE---CHAIIYVIDSTDRERFEE-SKSALEKVLRNEALEGVPLLILANKQ  117 (167)
T ss_pred             CEEEEEEECCCChhhH-------HHHHHHhCC---CCEEEEEEECchHHHHHH-HHHHHHHHHhChhhcCCCEEEEEEcc
Confidence            4578999999976421       12222 322   468999999864321111 2222221111 112478999999999


Q ss_pred             ccccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHH
Q 023298          192 DLVTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       192 Dll~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+....  .++.++++                          ...+..  ....++++||++|+|++++++.|.+
T Consensus       118 D~~~~~~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         118 DLPDALSVEEIKEVFQ--------------------------DKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             ccccCCCHHHHHHHhc--------------------------cccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence            985432  01111111                          001111  2258999999999999999987753

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.36  E-value=3e-11  Score=100.82  Aligned_cols=119  Identities=14%  Similarity=0.222  Sum_probs=67.4

Q ss_pred             CCCEEEEeCCCCcccccccc-hH-HHHHHHHHhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVP-VL-RNFVDHLKSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~-~~-~~l~~~l~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||+.+...+.. .. ...+..+..  ..+++++++|+....+ .......++..+.... .+.|+++|+||
T Consensus        46 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~--~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK  122 (168)
T cd01897          46 YLRWQVIDTPGLLDRPLEERNTIEMQAITALAH--LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNK  122 (168)
T ss_pred             ceEEEEEECCCcCCccccCCchHHHHHHHHHHh--ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEc
Confidence            34789999999853211111 01 111122211  1357889999875322 1111222222221111 27899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.... .+.. .                          .+. .......++++||++|.|++++++.+.+.+
T Consensus       123 ~Dl~~~~-~~~~-~--------------------------~~~-~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         123 IDLLTFE-DLSE-I--------------------------EEE-EELEGEEVLKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             cccCchh-hHHH-H--------------------------HHh-hhhccCceEEEEecccCCHHHHHHHHHHHh
Confidence            9986533 2221 0                          011 122346799999999999999999988764

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>cd00157 Rho Rho (Ras homology) family

Probab=99.36  E-value=5.5e-12  Score=105.33  Aligned_cols=123  Identities=11%  Similarity=0.081  Sum_probs=69.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+.+....+       ...  ....+++++++|+....+.......++..+.. ...+.|+++|.||+|+.
T Consensus        48 ~~l~~~D~~g~~~~~~~~-------~~~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~  117 (171)
T cd00157          48 VNLGLWDTAGQEEYDRLR-------PLS--YPNTDVFLICFSVDSPSSFENVKTKWIPEIRH-YCPNVPIILVGTKIDLR  117 (171)
T ss_pred             EEEEEEeCCCcccccccc-------hhh--cCCCCEEEEEEECCCHHHHHHHHHHHHHHHHh-hCCCCCEEEEEccHHhh
Confidence            367899999987632211       111  12246899999986422222222222222221 12369999999999997


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      ... .....+......+       .       .....+....++...++++||++|+|+++++..|.+
T Consensus       118 ~~~-~~~~~~~~~~~~v-------~-------~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         118 DDE-NTLKKLEKGKEPI-------T-------PEEGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             hch-hhhhhcccCCCcc-------C-------HHHHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            644 2221110000000       0       001123335566668999999999999999998865

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.36  E-value=9.2e-12  Score=102.48  Aligned_cols=114  Identities=18%  Similarity=0.180  Sum_probs=69.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+.+..... ...++.+........+++++++|+.........       ...+.+.++|+++|+||+|+.
T Consensus        43 ~~~~liDtpG~~~~~~~~-~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~-------~~~~~~~~~~~iiv~NK~Dl~  114 (158)
T cd01879          43 KEIEIVDLPGTYSLSPYS-EDEKVARDFLLGEKPDLIVNVVDATNLERNLYL-------TLQLLELGLPVVVALNMIDEA  114 (158)
T ss_pred             eEEEEEECCCccccCCCC-hhHHHHHHHhcCCCCcEEEEEeeCCcchhHHHH-------HHHHHHcCCCEEEEEehhhhc
Confidence            468999999986643321 122333332211335789999998753221111       112345689999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ... ......                          ..+...++ ..++++||.+|.|+..+++.+..+.
T Consensus       115 ~~~-~~~~~~--------------------------~~~~~~~~-~~~~~iSa~~~~~~~~l~~~l~~~~  156 (158)
T cd01879         115 EKR-GIKIDL--------------------------DKLSELLG-VPVVPTSARKGEGIDELKDAIAELA  156 (158)
T ss_pred             ccc-cchhhH--------------------------HHHHHhhC-CCeEEEEccCCCCHHHHHHHHHHHh
Confidence            533 221111                          01111222 5799999999999999999988764

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=99.36  E-value=2e-11  Score=114.25  Aligned_cols=43  Identities=9%  Similarity=0.018  Sum_probs=39.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .++.+++++||+ |||||++.+||.++...|++|++++.|++..
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~  155 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRA  155 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccch
Confidence            467889999999 9999999999999999999999999999764

>cd04171 SelB SelB subfamily

Probab=99.35  E-value=3.1e-11  Score=99.73  Aligned_cols=110  Identities=15%  Similarity=0.154  Sum_probs=63.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcC-CCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLE-LPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~Dl  193 (284)
                      ..+.++||||+...      ...+...+..   .+++++++|+.....+...  ..+.   .....+ +|.++|+||+|+
T Consensus        51 ~~~~~~DtpG~~~~------~~~~~~~~~~---ad~ii~V~d~~~~~~~~~~--~~~~---~~~~~~~~~~ilv~NK~Dl  116 (164)
T cd04171          51 KRLGFIDVPGHEKF------IKNMLAGAGG---IDLVLLVVAADEGIMPQTR--EHLE---ILELLGIKRGLVVLTKADL  116 (164)
T ss_pred             cEEEEEECCChHHH------HHHHHhhhhc---CCEEEEEEECCCCccHhHH--HHHH---HHHHhCCCcEEEEEECccc
Confidence            46889999997431      1112222322   4689999998642112211  1111   112234 499999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      .... ......+                       .+.+.+...  ....++|+||++++|+++++..+.+
T Consensus       117 ~~~~-~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         117 VDED-WLELVEE-----------------------EIRELLAGTFLADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             cCHH-HHHHHHH-----------------------HHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence            6532 1111110                       111222221  2368999999999999999988764

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>cd00880 Era_like Era (E

Probab=99.35  E-value=2.7e-11  Score=97.78  Aligned_cols=118  Identities=14%  Similarity=0.107  Sum_probs=73.2

Q ss_pred             CCCEEEEeCCCCcccccccchH-HHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVL-RNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~-~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+++++||||+.+........ ..+...+..   .+++++++|+..........     ........+.|.++|+||+|
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~---~d~il~v~~~~~~~~~~~~~-----~~~~~~~~~~~~ivv~nK~D  115 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLER---ADLILFVVDADLRADEEEEK-----LLELLRERGKPVLLVLNKID  115 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHh---CCEEEEEEeCCCCCCHHHHH-----HHHHHHhcCCeEEEEEEccc
Confidence            3478999999987744322211 122222333   46789999998664333321     11223456899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +.... .......                       .............++++|+.++.|++++++.+.+.
T Consensus       116 ~~~~~-~~~~~~~-----------------------~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         116 LLPEE-EEEELLE-----------------------LRLLILLLLLGLPVIAVSALTGEGIDELREALIEA  162 (163)
T ss_pred             cCChh-hHHHHHH-----------------------HHHhhcccccCCceEEEeeeccCCHHHHHHHHHhh
Confidence            97644 3322210                       00111123345789999999999999999988765

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>cd04112 Rab26 Rab26 subfamily

Probab=99.35  E-value=1.8e-11  Score=105.60  Aligned_cols=124  Identities=12%  Similarity=0.153  Sum_probs=75.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.|+||||+....       .+....-  ...+++++++|+....+... +..++..+......+.|+++|.||+|+.
T Consensus        50 ~~~~i~Dt~G~~~~~-------~~~~~~~--~~ad~~i~v~D~~~~~s~~~-~~~~~~~i~~~~~~~~piiiv~NK~Dl~  119 (191)
T cd04112          50 VKLQIWDTAGQERFR-------SVTHAYY--RDAHALLLLYDITNKASFDN-IRAWLTEIKEYAQEDVVIMLLGNKADMS  119 (191)
T ss_pred             EEEEEEeCCCcHHHH-------HhhHHHc--cCCCEEEEEEECCCHHHHHH-HHHHHHHHHHhCCCCCcEEEEEEcccch
Confidence            367899999974311       1222221  12467899999864432222 3334443333333478999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCCCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLKI  274 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~~~~  274 (284)
                      ..+ ....-                         ....+...++ ..++++||++|.|+++++..|.+.+....-..+.+
T Consensus       120 ~~~-~~~~~-------------------------~~~~l~~~~~-~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~~~~~~~  172 (191)
T cd04112         120 GER-VVKRE-------------------------DGERLAKEYG-VPFMETSAKTGLNVELAFTAVAKELKHRKYEQPDE  172 (191)
T ss_pred             hcc-ccCHH-------------------------HHHHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHHHhccccCCC
Confidence            422 11100                         0011123333 47999999999999999999999888775554544


Q ss_pred             C
Q 023298          275 K  275 (284)
Q Consensus       275 ~  275 (284)
                      +
T Consensus       173 ~  173 (191)
T cd04112         173 G  173 (191)
T ss_pred             C
Confidence            4

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=99.34  E-value=3.6e-11  Score=107.84  Aligned_cols=39  Identities=10%  Similarity=0.129  Sum_probs=33.7

Q ss_pred             EEEEEC-CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           21 IKCVFS-PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        21 ~~~viG-~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++.|++ .| |||||++.|||.+|++.|+||++||+|||..
T Consensus         3 ii~v~s~kGGvGKTt~a~~lA~~la~~g~~vlliD~D~~~~   43 (261)
T TIGR01968         3 VIVITSGKGGVGKTTTTANLGTALARLGKKVVLIDADIGLR   43 (261)
T ss_pred             EEEEecCCCCccHHHHHHHHHHHHHHcCCeEEEEECCCCCC
Confidence            355555 46 9999999999999999999999999999854

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.34  E-value=2.4e-11  Score=115.27  Aligned_cols=115  Identities=16%  Similarity=0.216  Sum_probs=70.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||++....+ .....+...+.....++++++++|++....... +..+...+..+...++|+++|+||+|+
T Consensus       236 ~~~i~l~DT~G~~~~l~~-~lie~f~~tle~~~~ADlil~VvD~s~~~~~~~-~~~~~~~L~~l~~~~~piIlV~NK~Dl  313 (351)
T TIGR03156       236 GGEVLLTDTVGFIRDLPH-ELVAAFRATLEEVREADLLLHVVDASDPDREEQ-IEAVEKVLEELGAEDIPQLLVYNKIDL  313 (351)
T ss_pred             CceEEEEecCcccccCCH-HHHHHHHHHHHHHHhCCEEEEEEECCCCchHHH-HHHHHHHHHHhccCCCCEEEEEEeecC
Confidence            347899999998653222 223334333332233578999999975432222 222222222222347899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      ...+ .+...                               . .+...++++||++|.|++.|++.|.+.
T Consensus       314 ~~~~-~v~~~-------------------------------~-~~~~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       314 LDEP-RIERL-------------------------------E-EGYPEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             CChH-hHHHH-------------------------------H-hCCCCEEEEEccCCCCHHHHHHHHHhh
Confidence            6432 21100                               0 012458999999999999999998765

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.34  E-value=4.3e-11  Score=115.64  Aligned_cols=124  Identities=16%  Similarity=0.200  Sum_probs=74.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +..+.++||||+..........+.+  .+.+......+++++++|+....+..+.     ..+....+.++|.|+|+||+
T Consensus       219 ~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~-----~~~~~~~~~~~~iiiv~NK~  293 (429)
T TIGR03594       219 GKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDL-----RIAGLILEAGKALVIVVNKW  293 (429)
T ss_pred             CcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHH-----HHHHHHHHcCCcEEEEEECc
Confidence            3478999999975422111111221  2223222335789999999754333222     11122345689999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |++.++....++.                       ..+.+.+...++..++++||++|.|++++++.+.+.+.
T Consensus       294 Dl~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~~~~~  344 (429)
T TIGR03594       294 DLVKDEKTREEFK-----------------------KELRRKLPFLDFAPIVFISALTGQGVDKLLDAIDEVYE  344 (429)
T ss_pred             ccCCCHHHHHHHH-----------------------HHHHHhcccCCCCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence            9973221222221                       12223334445678999999999999999999887653

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>TIGR01287 nifH nitrogenase iron protein

Probab=99.34  E-value=3.1e-12  Score=116.67  Aligned_cols=41  Identities=17%  Similarity=0.237  Sum_probs=38.5

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .|.|.|.| |||||+|.|||..|++.|+||++||+|||++.+
T Consensus         2 ~ia~~gKGGVGKTT~a~nLA~~La~~G~~VlliD~D~q~~~~   43 (275)
T TIGR01287         2 QIAIYGKGGIGKSTTTQNIAAALAEMGKKVMIVGCDPKADST   43 (275)
T ss_pred             eeEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCCcc
Confidence            57788999 999999999999999999999999999999864

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=99.34  E-value=1.5e-11  Score=104.00  Aligned_cols=39  Identities=10%  Similarity=0.089  Sum_probs=33.8

Q ss_pred             EEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           23 CVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        23 ~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      ++-+.| +||||++.|||.+|+++|++|++||+|||....
T Consensus         4 v~~~kgG~GKtt~a~~la~~l~~~g~~vllvD~D~~~~~~   43 (179)
T cd02036           4 VTSGKGGVGKTTTTANLGTALAQLGYKVVLIDADLGLRNL   43 (179)
T ss_pred             EeeCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCc
Confidence            334457 999999999999999999999999999986543

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]

Probab=99.34  E-value=8.3e-12  Score=116.25  Aligned_cols=164  Identities=20%  Similarity=0.188  Sum_probs=94.3

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCcc---ccccccccHHHH-------hhhc
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVA---MDIRELISLEDV-------MEEL   82 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~---~dir~~i~~~~v-------m~~~   82 (284)
                      .+-|||+ ++|+||. |||||+|+.|.+|..+.|++++.||||||++....|+.   +.|...+++.|=       .-.+
T Consensus        99 ~~~~GPr-v~vVGp~d~GKsTl~r~L~nyavk~gr~Plfv~LDvgQ~sitiPGsiaA~~i~~~~D~~eGf~l~~pLV~~F  177 (415)
T KOG2749|consen   99 ESSYGPR-VMVVGPTDVGKSTLCRILLNYAVKQGRRPLFVELDVGQGSITIPGSIAAIPIEMPLDVIEGFSLTAPLVYNF  177 (415)
T ss_pred             hhccCCE-EEEECCCccchHHHHHHHHHHHHHcCCcceEEEcCCCCCceecccchhheecccccchhhCcccCCceeeec
Confidence            4667999 9999999 99999999999999999999999999999997655542   234443333210       0123


Q ss_pred             Cc-ccCchhhhhhHhhhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHH-HHHHHHhcCCCeEEEEEecCC
Q 023298           83 GL-GPNGGLIYCMEHLEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRN-FVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus        83 ~l-gPng~l~~~~e~~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~-l~~~l~~~d~~~vil~LiDa~  158 (284)
                      |+ .||..+.. .+.+.+.+-+.+.+++...+  +...++|||+|+++.     .+.+ ++..+++-+  ..++++++..
T Consensus       178 G~~sp~~N~~L-Y~~~~s~La~v~~~~~~~n~~ar~sG~iInT~g~i~~-----egy~~llhai~~f~--v~vviVLg~E  249 (415)
T KOG2749|consen  178 GLTSPSTNLEL-YKALVSELAEVLKQRLSLNPEARVSGCIINTCGWIEG-----EGYAALLHAIKAFE--VDVVIVLGQE  249 (415)
T ss_pred             cCCCCCcCHHH-HHHHHHHHHHHHHHHhccCchhcccceEEeccceecc-----ccHHHHHHHHHHcC--ccEEEEeccH
Confidence            33 34433211 01122222233444443222  568999999999872     1222 334343323  2255566642


Q ss_pred             CCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          159 FITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       159 ~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                            ...+.+...   +...+--.++-+.|++.+.
T Consensus       250 ------rLy~~lkk~---~~~~~~v~vv~lpKsgGv~  277 (415)
T KOG2749|consen  250 ------RLYSSLKKD---LPPKKNVRVVKLPKSGGVV  277 (415)
T ss_pred             ------HHHHHHHhh---ccccccceEEEecCCCCeE
Confidence                  323322111   1111223566677888865

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=99.33  E-value=3.9e-11  Score=104.70  Aligned_cols=163  Identities=15%  Similarity=0.123  Sum_probs=88.9

Q ss_pred             ccccCceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC----Cc-ccccccc----ccHHHHh---
Q 023298           14 SWLYALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY----PV-AMDIREL----ISLEDVM---   79 (284)
Q Consensus        14 ~~~~~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~----~~-~~dir~~----i~~~~vm---   79 (284)
                      ....+++.+.|+++ | +||||++.+||..+++.|++|++||+|||......    +. ...+.+.    ..+++.+   
T Consensus        12 ~~~~~~kvI~v~s~kgG~GKTt~a~~LA~~la~~G~rVllID~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~l~~~i~~~   91 (204)
T TIGR01007        12 FSGAEIKVLLITSVKPGEGKSTTSANIAVAFAQAGYKTLLIDGDMRNSVMSGTFKSQNKITGLTNFLSGTTDLSDAICDT   91 (204)
T ss_pred             hhcCCCcEEEEecCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCChhHHHHhCCCCCCCCHHHHhcCCCCHHHhcccC
Confidence            33445777888876 5 99999999999999999999999999999874321    11 1111111    1223322   


Q ss_pred             --hhcCcccCchhhhh-hHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEe
Q 023298           80 --EELGLGPNGGLIYC-MEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLL  155 (284)
Q Consensus        80 --~~~~lgPng~l~~~-~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~Li  155 (284)
                        .+..+.|.|..... .+.+. ..+.+.+ +.+.+  ++++|||||||.....     ...+   +.+  ..+.+++++
T Consensus        92 ~~~~l~~l~~g~~~~~~~~~l~~~~l~~~l-~~l~~--~yD~ViiD~pp~~~~~-----~~~~---~~~--~~D~vilV~  158 (204)
T TIGR01007        92 NIENLFVITSGPVPPNPTELLQSSNFKTLI-ETLRK--YFDYIIIDTPPIGTVT-----DAAI---IAR--ACDASILVT  158 (204)
T ss_pred             CCCCEEEEeCCCCCCCHHHHhCcHHHHHHH-HHHHh--cCCEEEEeCCCccccc-----hHHH---HHH--hCCeEEEEE
Confidence              22333444433211 11111 1221222 23332  7899999999943211     1111   211  134577777


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHhcCCCE-EEEecCCccc
Q 023298          156 DSQFITDVTKFISGCMASLSAMVQLELPH-VNILSKMDLV  194 (284)
Q Consensus       156 Da~~~~~~~~~i~~~l~~l~~~~~~~~p~-IlVlNK~Dll  194 (284)
                      ++.... ...    ...++..+.+.+.+. -+|+||.+.-
T Consensus       159 ~~~~~~-~~~----~~~~~~~l~~~~~~~~gvVlN~~~~~  193 (204)
T TIGR01007       159 DAGEIK-KRD----VQKAKEQLEQTGSNFLGVVLNKVDIS  193 (204)
T ss_pred             ECCCCC-HHH----HHHHHHHHHhCCCCEEEEEEeCcccc
Confidence            764332 111    223334445566564 5789999864

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>PRK11058 GTPase HflX; Provisional

Probab=99.33  E-value=4.1e-11  Score=116.37  Aligned_cols=117  Identities=15%  Similarity=0.213  Sum_probs=71.7

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      +++++||||++.... +.....+...++....++++++++|++....... +..+...+..+...++|+++|+||+|+..
T Consensus       246 ~~~l~DTaG~~r~lp-~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~-l~~v~~iL~el~~~~~pvIiV~NKiDL~~  323 (426)
T PRK11058        246 ETVLADTVGFIRHLP-HDLVAAFKATLQETRQATLLLHVVDAADVRVQEN-IEAVNTVLEEIDAHEIPTLLVMNKIDMLD  323 (426)
T ss_pred             eEEEEecCcccccCC-HHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHH-HHHHHHHHHHhccCCCCEEEEEEcccCCC
Confidence            679999999854322 2333445445544444678999999975422222 22121222223334789999999999864


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .. .  ....                           . ...+...++++||++|.|++.|++.|.+.+.
T Consensus       324 ~~-~--~~~~---------------------------~-~~~~~~~~v~ISAktG~GIdeL~e~I~~~l~  362 (426)
T PRK11058        324 DF-E--PRID---------------------------R-DEENKPIRVWLSAQTGAGIPLLFQALTERLS  362 (426)
T ss_pred             ch-h--HHHH---------------------------H-HhcCCCceEEEeCCCCCCHHHHHHHHHHHhh
Confidence            22 1  0000                           0 0122223588999999999999999998874

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.33  E-value=2.5e-11  Score=117.62  Aligned_cols=121  Identities=16%  Similarity=0.190  Sum_probs=74.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||+..........+.+  .+.+..+...+++++++|+....+..+ .+.      ....+.++|+++|+||
T Consensus       220 ~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~i~------~~~~~~~~~~ivv~NK  293 (435)
T PRK00093        220 GQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLRIA------GLALEAGRALVIVVNK  293 (435)
T ss_pred             CeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH------HHHHHcCCcEEEEEEC
Confidence            4578999999975421111112211  222322223578999999986533332 222      2233568999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+...+ ...++.                       ..+.+.+...++..++++||++|.|+++++..+.+..
T Consensus       294 ~Dl~~~~-~~~~~~-----------------------~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~~~~  343 (435)
T PRK00093        294 WDLVDEK-TMEEFK-----------------------KELRRRLPFLDYAPIVFISALTGQGVDKLLEAIDEAY  343 (435)
T ss_pred             ccCCCHH-HHHHHH-----------------------HHHHHhcccccCCCEEEEeCCCCCCHHHHHHHHHHHH
Confidence            9997433 222221                       1222333444567899999999999999999887754

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.33  E-value=9.6e-11  Score=100.48  Aligned_cols=122  Identities=16%  Similarity=0.141  Sum_probs=73.3

Q ss_pred             CCEEEEeCCCCccccccc---chHHHHH-HHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEEec
Q 023298          115 DDYLVFDCPGQIELFTHV---PVLRNFV-DHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~---~~~~~l~-~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlVlN  189 (284)
                      .++.++||||+.......   .....+. ..+...+...++++++|+........ .+..      .+...++|+++|+|
T Consensus        70 ~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~------~l~~~~~~~iiv~n  143 (196)
T PRK00454         70 DKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDLQMIE------WLKEYGIPVLIVLT  143 (196)
T ss_pred             CeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHHHHHH------HHHHcCCcEEEEEE
Confidence            478999999964311100   1111222 23333333456788888764322222 1222      22356899999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+|+.+.. +.....                       ..+.+.+... ...++|+||++++|++++++.|.+.+.++
T Consensus       144 K~Dl~~~~-~~~~~~-----------------------~~i~~~l~~~-~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  196 (196)
T PRK00454        144 KADKLKKG-ERKKQL-----------------------KKVRKALKFG-DDEVILFSSLKKQGIDELRAAIAKWLAEA  196 (196)
T ss_pred             CcccCCHH-HHHHHH-----------------------HHHHHHHHhc-CCceEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence            99997643 222211                       1122333333 46889999999999999999999988764

>cd04158 ARD1 ARD1 subfamily

Probab=99.33  E-value=3.2e-11  Score=101.83  Aligned_cols=121  Identities=16%  Similarity=0.143  Sum_probs=72.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+.+..   .   .....+..   .++++|++|++...+..+ +..++..+.... ..+.|+++|.||+|
T Consensus        42 ~~~i~l~Dt~G~~~~~---~---~~~~~~~~---ad~ii~V~D~s~~~s~~~-~~~~~~~~~~~~~~~~~piilv~NK~D  111 (169)
T cd04158          42 NLKFTIWDVGGKHKLR---P---LWKHYYLN---TQAVVFVVDSSHRDRVSE-AHSELAKLLTEKELRDALLLIFANKQD  111 (169)
T ss_pred             CEEEEEEECCCChhcc---h---HHHHHhcc---CCEEEEEEeCCcHHHHHH-HHHHHHHHhcChhhCCCCEEEEEeCcC
Confidence            4478999999976421   1   11112322   468999999864322222 222222221111 13479999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc-----cCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE-----YSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~-----~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +.... ...+..                           +.+..     .....|+++||++|.|+++++..+.+.+.++
T Consensus       112 l~~~~-~~~~~~---------------------------~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158         112 VAGAL-SVEEMT---------------------------ELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             cccCC-CHHHHH---------------------------HHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence            85321 111111                           11111     1124688999999999999999999999999


Q ss_pred             CCCCC
Q 023298          268 EDADL  272 (284)
Q Consensus       268 ~d~~~  272 (284)
                      +.+++
T Consensus       164 ~~~~~  168 (169)
T cd04158         164 GVLDV  168 (169)
T ss_pred             ccccc
Confidence            88764

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>PRK10818 cell division inhibitor MinD; Provisional

Probab=99.32  E-value=2.3e-11  Score=110.49  Aligned_cols=39  Identities=13%  Similarity=0.127  Sum_probs=33.9

Q ss_pred             EEEEC-CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           22 KCVFS-PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        22 ~~viG-~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +.|.+ .| |||||+|.|||.+|++.|++|++||+|||...
T Consensus         5 iav~s~KGGvGKTt~a~nlA~~la~~g~~vllvD~D~~~~~   45 (270)
T PRK10818          5 IVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFDIGLRN   45 (270)
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECCCCCCC
Confidence            44444 57 99999999999999999999999999998653

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.31  E-value=1.2e-11  Score=118.80  Aligned_cols=123  Identities=14%  Similarity=0.171  Sum_probs=82.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHH--HHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRN--FVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~--l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +..|++|||.|.=.--.-....++  ..+.+++++.++++++++|++.. +..+..+..+      ..+.++++|+|+||
T Consensus       225 ~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~ia~~------i~~~g~~~vIvvNK  298 (444)
T COG1160         225 GRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGL------IEEAGRGIVIVVNK  298 (444)
T ss_pred             CeEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHHHHHH------HHHcCCCeEEEEEc
Confidence            557999999994211000000111  24555555567899999999864 5555555544      34789999999999


Q ss_pred             Cccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ||++.+. ..++++.                       ..|-..+...++..++++||++|.++..|++.|.++..
T Consensus       299 WDl~~~~~~~~~~~k-----------------------~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~~  351 (444)
T COG1160         299 WDLVEEDEATMEEFK-----------------------KKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIYE  351 (444)
T ss_pred             cccCCchhhHHHHHH-----------------------HHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHHH
Confidence            9998742 1222222                       12233445567889999999999999999999988753

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.31  E-value=7.7e-11  Score=96.36  Aligned_cols=109  Identities=11%  Similarity=0.099  Sum_probs=67.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+.+.... .....+.+........+++++++|+.........  ..+.   .  ..++|+++|+||+|+
T Consensus        48 ~~~~~i~DtpG~~~~~~~-~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~--~~~~---~--~~~~~vi~v~nK~D~  119 (157)
T cd04164          48 GIPVRLIDTAGIRETEDE-IEKIGIERAREAIEEADLVLFVIDASRGLDEEDL--EILE---L--PADKPIIVVLNKSDL  119 (157)
T ss_pred             CEEEEEEECCCcCCCcch-HHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHH--HHHH---h--hcCCCEEEEEEchhc
Confidence            346899999998653221 0011111111111224689999999854332221  1111   1  457899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .... ..   .                              .......++++||+++.|+++|++.|.+.+
T Consensus       120 ~~~~-~~---~------------------------------~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         120 LPDS-EL---L------------------------------SLLAGKPIIAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             CCcc-cc---c------------------------------cccCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            7544 21   0                              111236799999999999999999988764

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.29  E-value=1.3e-10  Score=114.19  Aligned_cols=123  Identities=11%  Similarity=0.124  Sum_probs=72.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+............+  ++.......++++++++|+....+....  .   .+......++|+|+|+||+
T Consensus       258 ~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~--~---~~~~~~~~~~piIiV~NK~  332 (472)
T PRK03003        258 GKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQ--R---VLSMVIEAGRALVLAFNKW  332 (472)
T ss_pred             CEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHH--H---HHHHHHHcCCCEEEEEECc
Confidence            4467899999974321111111111  1111122335789999999754333221  1   1223345789999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+.... .....                       ...+.+.+....+..++++||++|.|++++++.|.+.+.
T Consensus       333 Dl~~~~-~~~~~-----------------------~~~i~~~l~~~~~~~~~~~SAk~g~gv~~lf~~i~~~~~  382 (472)
T PRK03003        333 DLVDED-RRYYL-----------------------EREIDRELAQVPWAPRVNISAKTGRAVDKLVPALETALE  382 (472)
T ss_pred             ccCChh-HHHHH-----------------------HHHHHHhcccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            997532 11111                       011112223334568899999999999999999988764

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.29  E-value=8.4e-11  Score=120.95  Aligned_cols=123  Identities=12%  Similarity=0.140  Sum_probs=74.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH---HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF---VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l---~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||+.+..... .+...   ++........+++++++|+....+.... . +   +......++|+|+|+||
T Consensus       497 ~~~~~liDTaG~~~~~~~~-~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~-~-i---~~~~~~~~~piIiV~NK  570 (712)
T PRK09518        497 GEDWLFIDTAGIKRRQHKL-TGAEYYSSLRTQAAIERSELALFLFDASQPISEQDL-K-V---MSMAVDAGRALVLVFNK  570 (712)
T ss_pred             CCEEEEEECCCcccCcccc-hhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHH-H-H---HHHHHHcCCCEEEEEEc
Confidence            4578899999976432211 12122   2222223345789999999755333322 1 1   12234568999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +|+.+.+ ....+.                       ..+...+...++..++++||++|.|+++|++.+.+.++.
T Consensus       571 ~DL~~~~-~~~~~~-----------------------~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        571 WDLMDEF-RRQRLE-----------------------RLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALES  622 (712)
T ss_pred             hhcCChh-HHHHHH-----------------------HHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            9997533 211110                       111122233355788999999999999999999888764

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.29  E-value=1.4e-10  Score=96.26  Aligned_cols=111  Identities=14%  Similarity=0.227  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+....       .+.+. +..   .+++++++|+.   ++..+  ...++..+......+.|.++|.||+
T Consensus        50 ~~~~i~D~~G~~~~~-------~~~~~~~~~---~~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~  116 (163)
T cd01860          50 VKFEIWDTAGQERYR-------SLAPMYYRG---AAAAIVVYDIT---SEESFEKAKSWVKELQRNASPNIIIALVGNKA  116 (163)
T ss_pred             EEEEEEeCCchHHHH-------HHHHHHhcc---CCEEEEEEECc---CHHHHHHHHHHHHHHHHhCCCCCeEEEEEECc
Confidence            367899999964311       11111 222   46789999986   34333  3334443333333468899999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+.... ....      +.                   ..++...++ ..++++||++|.|+.+++..+.+.+|
T Consensus       117 D~~~~~-~~~~------~~-------------------~~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~~l~  163 (163)
T cd01860         117 DLESKR-QVST------EE-------------------AQEYADENG-LLFFETSAKTGENVNELFTEIAKKLP  163 (163)
T ss_pred             cccccC-cCCH------HH-------------------HHHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            986422 1100      00                   011123334 67999999999999999999988764

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.28  E-value=1e-10  Score=109.55  Aligned_cols=68  Identities=15%  Similarity=0.068  Sum_probs=49.8

Q ss_pred             hcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHH
Q 023298          179 QLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLS  258 (284)
Q Consensus       179 ~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~  258 (284)
                      ...+|+|.|+||+|+..++ +..+.+                             ...+.+..++|+||+.+.++..|.+
T Consensus       212 lt~KPvI~VlNK~Dl~~~~-~~~~~l-----------------------------~~~~~~~~iI~iSA~~e~~L~~L~~  261 (318)
T cd01899         212 KRSKPMVIAANKADIPDAE-NNISKL-----------------------------RLKYPDEIVVPTSAEAELALRRAAK  261 (318)
T ss_pred             hcCCcEEEEEEHHHccChH-HHHHHH-----------------------------HhhCCCCeEEEEeCcccccHHHHHH
Confidence            3457999999999975433 221111                             1233467899999999999999998


Q ss_pred             -HHHHhcCCCCCCCCCCCC
Q 023298          259 -QIDNCIQWGEDADLKIKD  276 (284)
Q Consensus       259 -~I~~~l~~g~d~~~~~~~  276 (284)
                       .+.+++|+|+..+...++
T Consensus       262 ~~i~~~lPe~~~f~~~~~~  280 (318)
T cd01899         262 QGLIKYDPGDSDFEITDEL  280 (318)
T ss_pred             hhHHHhCCCCCCceecccC
Confidence             599999999988765543

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.27  E-value=1.5e-10  Score=111.47  Aligned_cols=115  Identities=21%  Similarity=0.280  Sum_probs=71.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHHHHhcCCCE-EEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSAMVQLELPH-VNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~~~~~~~p~-IlVlNK~  191 (284)
                      +.++.++||||+.+      ....+...+.   ..+++++++|+.....+... ...      .....+.|+ |+|+||+
T Consensus        74 ~~~i~~iDtPGh~~------f~~~~~~~~~---~~d~~llVvd~~~g~~~~t~~~~~------~~~~~g~~~~IvviNK~  138 (394)
T PRK12736         74 KRHYAHVDCPGHAD------YVKNMITGAA---QMDGAILVVAATDGPMPQTREHIL------LARQVGVPYLVVFLNKV  138 (394)
T ss_pred             CcEEEEEECCCHHH------HHHHHHHHHh---hCCEEEEEEECCCCCchhHHHHHH------HHHHcCCCEEEEEEEec
Confidence            55899999999542      1223333332   35789999999754233221 222      233568895 6889999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC----CceEEEEeccCcc--------cHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS----MVSFMPLDLRKES--------SIRYVLSQ  259 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~----~~~~ipiSa~~~~--------~l~~Ll~~  259 (284)
                      |+++++ +..+...                      ..+.+.+..++    ...++|+||++|.        ++..|++.
T Consensus       139 D~~~~~-~~~~~i~----------------------~~i~~~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~  195 (394)
T PRK12736        139 DLVDDE-ELLELVE----------------------MEVRELLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDA  195 (394)
T ss_pred             CCcchH-HHHHHHH----------------------HHHHHHHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHH
Confidence            987543 2222111                      12223333343    3689999999983        78999999


Q ss_pred             HHHhcCC
Q 023298          260 IDNCIQW  266 (284)
Q Consensus       260 I~~~l~~  266 (284)
                      +++.+|.
T Consensus       196 l~~~lp~  202 (394)
T PRK12736        196 VDEYIPT  202 (394)
T ss_pred             HHHhCCC
Confidence            9998874

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.27  E-value=1.1e-10  Score=96.73  Aligned_cols=112  Identities=11%  Similarity=0.159  Sum_probs=66.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.+..       .+.+. +..   .+.+++++|+....+. ..+..+...+.... ..+.|+++|.||+|
T Consensus        50 ~~~~i~Dt~G~~~~~-------~~~~~~~~~---~~~~ilv~d~~~~~s~-~~~~~~~~~~~~~~~~~~~piiiv~NK~D  118 (164)
T cd04145          50 AILDILDTAGQEEFS-------AMREQYMRT---GEGFLLVFSVTDRGSF-EEVDKFHTQILRVKDRDEFPMILVGNKAD  118 (164)
T ss_pred             EEEEEEECCCCcchh-------HHHHHHHhh---CCEEEEEEECCCHHHH-HHHHHHHHHHHHHhCCCCCCEEEEeeCcc
Confidence            357889999976421       12222 333   3578888888643221 11334433332222 24789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +..++ .+....                         ..+....++ ..++++||++|.|++++++.+.+.+
T Consensus       119 l~~~~-~~~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         119 LEHQR-KVSREE-------------------------GQELARKLK-IPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             ccccc-eecHHH-------------------------HHHHHHHcC-CcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            85432 111000                         011223344 4789999999999999999987764

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.27  E-value=6.8e-11  Score=98.30  Aligned_cols=113  Identities=13%  Similarity=0.153  Sum_probs=66.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+....       .+... +..   .+.+++++|+....+... +..+...+... ...+.|.++|.||+|
T Consensus        48 ~~l~i~Dt~g~~~~~-------~~~~~~~~~---~~~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~~pii~v~nK~D  116 (164)
T smart00173       48 CLLDILDTAGQEEFS-------AMRDQYMRT---GEGFLLVYSITDRQSFEE-IKKFREQILRVKDRDDVPIVLVGNKCD  116 (164)
T ss_pred             EEEEEEECCCcccch-------HHHHHHHhh---CCEEEEEEECCCHHHHHH-HHHHHHHHHHhcCCCCCCEEEEEECcc
Confidence            356789999976522       12222 333   356788888763322111 22332222222 224689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ ......                         +.++...++ ..++++||++|.|++++++.+.+.+.
T Consensus       117 l~~~~-~~~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      117 LESER-VVSTEE-------------------------GKELARQWG-CPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             ccccc-eEcHHH-------------------------HHHHHHHcC-CEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            86432 111000                         011123333 68999999999999999999987654

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd04151 Arl1 Arl1 subfamily

Probab=99.27  E-value=9.8e-11  Score=97.28  Aligned_cols=114  Identities=13%  Similarity=0.097  Sum_probs=62.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH-HHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS-LSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~-l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+...       ..+.+ .+..   .+++++++|+....+... ....+.. +......++|+++|+||+
T Consensus        42 ~~~~~i~Dt~G~~~~-------~~~~~~~~~~---~~~ii~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~piiiv~nK~  110 (158)
T cd04151          42 NLKFQVWDLGGQTSI-------RPYWRCYYSN---TDAIIYVVDSTDRDRLGT-AKEELHAMLEEEELKGAVLLVFANKQ  110 (158)
T ss_pred             CEEEEEEECCCCHHH-------HHHHHHHhcC---CCEEEEEEECCCHHHHHH-HHHHHHHHHhchhhcCCcEEEEEeCC
Confidence            346899999997541       11222 2322   468999999864322111 1111111 111112368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+.... ...+..        ..+..              .... ....+++|+||++|.|++++++.+.+
T Consensus       111 Dl~~~~-~~~~i~--------~~~~~--------------~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         111 DMPGAL-SEAEIS--------EKLGL--------------SELK-DRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             CCCCCC-CHHHHH--------HHhCc--------------cccC-CCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            985422 111111        00000              0000 01246999999999999999998754

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.26  E-value=8.7e-11  Score=98.90  Aligned_cols=110  Identities=13%  Similarity=0.214  Sum_probs=69.0

Q ss_pred             EEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchh
Q 023298          119 VFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKK  198 (284)
Q Consensus       119 iiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~  198 (284)
                      ++||||+..  .+......+...++.   .+++++++|+....+.   +...+..    ...++|+++++||+|+...+ 
T Consensus        41 ~iDtpG~~~--~~~~~~~~~~~~~~~---ad~il~v~d~~~~~s~---~~~~~~~----~~~~~~ii~v~nK~Dl~~~~-  107 (158)
T PRK15467         41 DIDTPGEYF--SHPRWYHALITTLQD---VDMLIYVHGANDPESR---LPAGLLD----IGVSKRQIAVISKTDMPDAD-  107 (158)
T ss_pred             cccCCcccc--CCHHHHHHHHHHHhc---CCEEEEEEeCCCcccc---cCHHHHh----ccCCCCeEEEEEccccCccc-
Confidence            589999753  232333344444433   4789999998744221   1111111    12367999999999984321 


Q ss_pred             hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC-ceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          199 EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM-VSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       199 ~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~-~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                       ....                           .+.+...++ ..++++||++|+|+++|++.+.+.++.-..
T Consensus       108 -~~~~---------------------------~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  151 (158)
T PRK15467        108 -VAAT---------------------------RKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTKQEEA  151 (158)
T ss_pred             -HHHH---------------------------HHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhchhhhc
Confidence             1111                           122334454 589999999999999999999998865443

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.26  E-value=7.2e-11  Score=121.47  Aligned_cols=115  Identities=11%  Similarity=0.135  Sum_probs=73.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+...  .......+.+... ....+++++|++|+.....+ +..+...      +.+.++|+|+|+||+
T Consensus       322 ~~~~~liDT~G~~~~--~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~------Lr~~~~pvIlV~NK~  393 (712)
T PRK09518        322 GTDFKLVDTGGWEAD--VEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRM------LRRAGKPVVLAVNKI  393 (712)
T ss_pred             CEEEEEEeCCCcCCC--CccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHH------HHhcCCCEEEEEECc
Confidence            447899999997642  2223333433322 22345789999999754333 3323332      235789999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+........++                               ...++...+|+||++|.|+.+|++.|.+.++..
T Consensus       394 D~~~~~~~~~~~-------------------------------~~lg~~~~~~iSA~~g~GI~eLl~~i~~~l~~~  438 (712)
T PRK09518        394 DDQASEYDAAEF-------------------------------WKLGLGEPYPISAMHGRGVGDLLDEALDSLKVA  438 (712)
T ss_pred             ccccchhhHHHH-------------------------------HHcCCCCeEEEECCCCCCchHHHHHHHHhcccc
Confidence            985422010000                               123445678999999999999999999998764

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=99.26  E-value=3.2e-11  Score=109.43  Aligned_cols=42  Identities=14%  Similarity=0.208  Sum_probs=37.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      ++++.|.|.| |||||+|.|||..|++.| ||++||+|||++.+
T Consensus         2 ~~~iav~~KGGvGKTT~a~nLA~~La~~G-rVLliD~Dpq~~~~   44 (264)
T PRK13231          2 MKKIAIYGKGGIGKSTTVSNMAAAYSNDH-RVLVIGCDPKADTT   44 (264)
T ss_pred             ceEEEEECCCCCcHHHHHHHHhcccCCCC-EEEEEeEccCcccc
Confidence            3456777999 999999999999999999 99999999998754

>cd03114 ArgK-like The function of this protein family is unkown

Probab=99.26  E-value=7.5e-11  Score=98.72  Aligned_cols=39  Identities=15%  Similarity=0.265  Sum_probs=36.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +.++|++ |||||++.+++.++...|.++.+++.||+...
T Consensus         2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D~~~~~   41 (148)
T cd03114           2 IGITGVPGAGKSTLIDALITALRARGKRVAVLAIDPSSPF   41 (148)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeCCCCCC
Confidence            6789999 99999999999999999999999999998764

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.26  E-value=4.1e-10  Score=103.18  Aligned_cols=138  Identities=15%  Similarity=0.188  Sum_probs=82.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+..      ......+.+..   .+++++++|+...-.+ ...+..      ...+.++|+++++||+|
T Consensus        63 ~~~i~liDTPG~~d------f~~~~~~~l~~---aD~ailVVDa~~g~~~~t~~~~~------~~~~~~~p~ivviNK~D  127 (270)
T cd01886          63 DHRINIIDTPGHVD------FTIEVERSLRV---LDGAVAVFDAVAGVEPQTETVWR------QADRYNVPRIAFVNKMD  127 (270)
T ss_pred             CEEEEEEECCCcHH------HHHHHHHHHHH---cCEEEEEEECCCCCCHHHHHHHH------HHHHcCCCEEEEEECCC
Confidence            56899999999754      12233444544   3688999999764333 222322      23467899999999999


Q ss_pred             cccchh-----hhhhhcCc----------------------------------------c-hH-----------HHHHHh
Q 023298          193 LVTNKK-----EIEDYLNP----------------------------------------E-SQ-----------FLLSEL  215 (284)
Q Consensus       193 ll~~~~-----~l~~~l~~----------------------------------------~-~~-----------~l~~~l  215 (284)
                      +.....     ++.+.+..                                        + ++           .|.+.+
T Consensus       128 ~~~a~~~~~~~~l~~~l~~~~~~~~~Pisa~~~f~g~vd~~~~~a~~~~~~~~~~~~~~~ip~~~~~~~~~~r~~l~e~v  207 (270)
T cd01886         128 RTGADFFRVVEQIREKLGANPVPLQLPIGEEDDFRGVVDLIEMKALYWDGELGEKIEETEIPEDLLEEAEEAREELIETL  207 (270)
T ss_pred             CCCCCHHHHHHHHHHHhCCCceEEEeccccCCCceEEEEccccEEEecccCCCceeEEecCCHHHHHHHHHHHHHHHHHH
Confidence            864210     11111100                                        0 11           112222


Q ss_pred             hhcchh-----------HHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          216 NQHMAP-----------QFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       216 ~~~~~~-----------~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .+....           ....+...+.+.+..-.+..++.-||.++.|+..|++.|..++|.
T Consensus       208 ae~dd~L~e~yl~~~~~~~~el~~~l~~~~~~~~~~PV~~gSa~~~~Gi~~lld~i~~~~p~  269 (270)
T cd01886         208 AEFDDELMEKYLEGEEITEEEIKAAIRKGTIANKIVPVLCGSAFKNKGVQPLLDAVVDYLPS  269 (270)
T ss_pred             hcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHcCcEEEEEeCcCCCCcCHHHHHHHHHHhcCC
Confidence            211111           122355566666666666777778999999999999999999874

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>cd04136 Rap_like Rap-like subfamily

Probab=99.26  E-value=6.7e-11  Score=97.97  Aligned_cols=111  Identities=13%  Similarity=0.140  Sum_probs=64.6

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~Dl  193 (284)
                      .+.+.||||+....   .    +.+. +..   .+++++++|.....+-. .+..++..+.... ..+.|+++|.||+|+
T Consensus        50 ~l~i~Dt~G~~~~~---~----~~~~~~~~---~~~~ilv~d~~~~~s~~-~~~~~~~~i~~~~~~~~~piilv~nK~Dl  118 (163)
T cd04136          50 MLEILDTAGTEQFT---A----MRDLYIKN---GQGFVLVYSITSQSSFN-DLQDLREQILRVKDTENVPMVLVGNKCDL  118 (163)
T ss_pred             EEEEEECCCccccc---h----HHHHHhhc---CCEEEEEEECCCHHHHH-HHHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            46789999975421   1    2222 222   35678888875332211 1333333222222 236899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ...+ ....-.                         ..++...++ ..++++||++|.|+.++++.+.+.+
T Consensus       119 ~~~~-~~~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         119 EDER-VVSREE-------------------------GQALARQWG-CPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             cccc-eecHHH-------------------------HHHHHHHcC-CeEEEecCCCCCCHHHHHHHHHHhc
Confidence            6432 111000                         011113344 6899999999999999999987653

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>CHL00071 tufA elongation factor Tu

Probab=99.26  E-value=1.8e-10  Score=111.38  Aligned_cols=114  Identities=20%  Similarity=0.272  Sum_probs=70.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCC-EEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELP-HVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p-~IlVlNK~  191 (284)
                      +.+++++||||+.      .....+...+.   ..+++++++|+...-.+ ...+..      .....++| +|+|+||+
T Consensus        74 ~~~~~~iDtPGh~------~~~~~~~~~~~---~~D~~ilVvda~~g~~~qt~~~~~------~~~~~g~~~iIvvvNK~  138 (409)
T CHL00071         74 NRHYAHVDCPGHA------DYVKNMITGAA---QMDGAILVVSAADGPMPQTKEHIL------LAKQVGVPNIVVFLNKE  138 (409)
T ss_pred             CeEEEEEECCChH------HHHHHHHHHHH---hCCEEEEEEECCCCCcHHHHHHHH------HHHHcCCCEEEEEEEcc
Confidence            5689999999943      22333444443   34789999999754222 222222      23356889 56899999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCccc---------------
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESS---------------  252 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~---------------  252 (284)
                      |++.++ +..+.+.                      ..+.+.+...++    ..|+|+||.+|.+               
T Consensus       139 D~~~~~-~~~~~~~----------------------~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~~~~~~~~~w  195 (409)
T CHL00071        139 DQVDDE-ELLELVE----------------------LEVRELLSKYDFPGDDIPIVSGSALLALEALTENPKIKRGENKW  195 (409)
T ss_pred             CCCCHH-HHHHHHH----------------------HHHHHHHHHhCCCCCcceEEEcchhhcccccccCccccccCCch
Confidence            997544 3222211                      122333344333    6899999999873               


Q ss_pred             ---HHHHHHHHHHhcC
Q 023298          253 ---IRYVLSQIDNCIQ  265 (284)
Q Consensus       253 ---l~~Ll~~I~~~l~  265 (284)
                         +..|++.|++..|
T Consensus       196 ~~~~~~ll~~l~~~~~  211 (409)
T CHL00071        196 VDKIYNLMDAVDSYIP  211 (409)
T ss_pred             hhhHHHHHHHHHhhCC
Confidence               5788888888764

>cd04155 Arl3 Arl3 subfamily

Probab=99.26  E-value=1.3e-10  Score=97.67  Aligned_cols=116  Identities=16%  Similarity=0.165  Sum_probs=63.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+...      .......++.   .+++++++|+....+.......+...+......++|+++++||+|+
T Consensus        57 ~~~~~~~D~~G~~~~------~~~~~~~~~~---~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  127 (173)
T cd04155          57 GFKLNVWDIGGQRAI------RPYWRNYFEN---TDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDL  127 (173)
T ss_pred             CEEEEEEECCCCHHH------HHHHHHHhcC---CCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCC
Confidence            346789999996431      1111122322   3578999998643222221111111111222357899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      .... ....+.        +.++.             .++  ......++++||++|+|++++++.|.+
T Consensus       128 ~~~~-~~~~i~--------~~l~~-------------~~~--~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         128 ATAA-PAEEIA--------EALNL-------------HDL--RDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             ccCC-CHHHHH--------HHcCC-------------ccc--CCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            6533 222221        10100             000  011235789999999999999988754

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>PRK00049 elongation factor Tu; Reviewed

Probab=99.26  E-value=1.8e-10  Score=110.95  Aligned_cols=114  Identities=18%  Similarity=0.284  Sum_probs=70.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEE-EEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHV-NILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~I-lVlNK~  191 (284)
                      +.+++++||||+..      ....+..   .+...+++++++|+...-.+.. .+..      .....+.|++ +++||+
T Consensus        74 ~~~i~~iDtPG~~~------f~~~~~~---~~~~aD~~llVVDa~~g~~~qt~~~~~------~~~~~g~p~iiVvvNK~  138 (396)
T PRK00049         74 KRHYAHVDCPGHAD------YVKNMIT---GAAQMDGAILVVSAADGPMPQTREHIL------LARQVGVPYIVVFLNKC  138 (396)
T ss_pred             CeEEEEEECCCHHH------HHHHHHh---hhccCCEEEEEEECCCCCchHHHHHHH------HHHHcCCCEEEEEEeec
Confidence            56899999999632      1222222   2334578999999975433322 2222      2335688986 589999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcc----------cHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKES----------SIRYVL  257 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~----------~l~~Ll  257 (284)
                      |+++++ +..+.+                      ...+.+++...++    ..|+|+||.++.          ++..|+
T Consensus       139 D~~~~~-~~~~~~----------------------~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll  195 (396)
T PRK00049        139 DMVDDE-ELLELV----------------------EMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELM  195 (396)
T ss_pred             CCcchH-HHHHHH----------------------HHHHHHHHHhcCCCccCCcEEEeecccccCCCCcccccccHHHHH
Confidence            997533 222111                      1122334444433    679999999975          578999


Q ss_pred             HHHHHhcC
Q 023298          258 SQIDNCIQ  265 (284)
Q Consensus       258 ~~I~~~l~  265 (284)
                      ++|+..++
T Consensus       196 ~~l~~~~~  203 (396)
T PRK00049        196 DAVDSYIP  203 (396)
T ss_pred             HHHHhcCC
Confidence            99998776

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.26  E-value=5.3e-11  Score=98.95  Aligned_cols=112  Identities=14%  Similarity=0.197  Sum_probs=66.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.+.||||+..       ...+.+..-  ...+++++++|.....+... +..++..+... ..+.|.++|.||+|+.
T Consensus        52 ~~l~i~Dt~G~~~-------~~~~~~~~~--~~~d~ii~v~d~~~~~s~~~-~~~~~~~~~~~-~~~~p~ilv~nK~Dl~  120 (164)
T cd04101          52 VELFIFDSAGQEL-------YSDMVSNYW--ESPSVFILVYDVSNKASFEN-CSRWVNKVRTA-SKHMPGVLVGNKMDLA  120 (164)
T ss_pred             EEEEEEECCCHHH-------HHHHHHHHh--CCCCEEEEEEECcCHHHHHH-HHHHHHHHHHh-CCCCCEEEEEECcccc
Confidence            4689999999633       122333221  22478999999864322211 33333322221 2468999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +.. ++....                  .       ......++ ..++++||+++.|++++++.+.+.+
T Consensus       121 ~~~-~~~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         121 DKA-EVTDAQ------------------A-------QAFAQANQ-LKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             ccc-CCCHHH------------------H-------HHHHHHcC-CeEEEEeCCCCCChHHHHHHHHHHh
Confidence            533 221100                  0       00112223 5689999999999999999887653

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.26  E-value=9.1e-11  Score=98.63  Aligned_cols=126  Identities=10%  Similarity=0.075  Sum_probs=71.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.+.||||+.+...       +.+..  ....+++++++|.....+-......++..+.. ...+.|+++|.||+|+.
T Consensus        46 ~~~~i~Dt~G~~~~~~-------~~~~~--~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~-~~~~~piilv~nK~Dl~  115 (174)
T smart00174       46 VELGLWDTAGQEDYDR-------LRPLS--YPDTDVFLICFSVDSPASFENVKEKWYPEVKH-FCPNTPIILVGTKLDLR  115 (174)
T ss_pred             EEEEEEECCCCcccch-------hchhh--cCCCCEEEEEEECCCHHHHHHHHHHHHHHHHh-hCCCCCEEEEecChhhh
Confidence            3678999999765221       11111  12246889999986332222211223332222 12479999999999987


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .+......+.......+    .          .....++...++...++++||++|.|++++++.+.+..
T Consensus       116 ~~~~~~~~~~~~~~~~v----~----------~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~  171 (174)
T smart00174      116 EDKSTLRELSKQKQEPV----T----------YEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAA  171 (174)
T ss_pred             hChhhhhhhhcccCCCc----c----------HHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence            53312222211000000    0          01112333556667899999999999999999987653

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.26  E-value=9.7e-11  Score=97.00  Aligned_cols=112  Identities=10%  Similarity=0.092  Sum_probs=66.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh-----cCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ-----LELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~-----~~~p~IlVl  188 (284)
                      ..+.++||||+.+.       ..+.+. +..   .+++++++|.+...+-.. +..++..+.....     .+.|+++|.
T Consensus        49 ~~l~i~Dt~G~~~~-------~~~~~~~~~~---~d~~ilv~D~~~~~s~~~-~~~~~~~~~~~~~~~~~~~~~piilv~  117 (168)
T cd04119          49 VRVNFFDLSGHPEY-------LEVRNEFYKD---TQGVLLVYDVTDRQSFEA-LDSWLKEMKQEGGPHGNMENIVVVVCA  117 (168)
T ss_pred             EEEEEEECCccHHH-------HHHHHHHhcc---CCEEEEEEECCCHHHHHh-HHHHHHHHHHhccccccCCCceEEEEE
Confidence            46789999997431       122222 222   467899999864321111 3333333332222     458999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ||+|+..+. ....-      .                   ......+.+ ..++++||++|+|++++++.|.+.+
T Consensus       118 nK~Dl~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~l  166 (168)
T cd04119         118 NKIDLTKHR-AVSED------E-------------------GRLWAESKG-FKYFETSACTGEGVNEMFQTLFSSI  166 (168)
T ss_pred             Echhccccc-ccCHH------H-------------------HHHHHHHcC-CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            999986322 11000      0                   011113334 5789999999999999999987653

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd04113 Rab4 Rab4 subfamily

Probab=99.25  E-value=8.7e-11  Score=97.52  Aligned_cols=111  Identities=12%  Similarity=0.149  Sum_probs=67.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.++||||+....       .+.+. +..   .+++++++|+....+... +..++..+..+...+.|.++|.||+|+
T Consensus        49 ~~l~l~D~~G~~~~~-------~~~~~~~~~---~~~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~iivv~nK~D~  117 (161)
T cd04113          49 VKLQIWDTAGQERFR-------SVTRSYYRG---AAGALLVYDITNRTSFEA-LPTWLSDARALASPNIVVILVGNKSDL  117 (161)
T ss_pred             EEEEEEECcchHHHH-------HhHHHHhcC---CCEEEEEEECCCHHHHHH-HHHHHHHHHHhCCCCCeEEEEEEchhc
Confidence            357899999974311       12222 222   467899999864322111 344444333344457899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      .... .....      .                   .......++ ..++.+||+++.|++++++.+.+.
T Consensus       118 ~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         118 ADQR-EVTFL------E-------------------ASRFAQENG-LLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             chhc-cCCHH------H-------------------HHHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHh
Confidence            6422 11000      0                   011223344 689999999999999999988764

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.25  E-value=2.7e-10  Score=99.98  Aligned_cols=104  Identities=21%  Similarity=0.324  Sum_probs=59.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCC-CEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLEL-PHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~-p~IlVlNK~  191 (284)
                      +.++.++||||+.+.      ...+...+..   .+++++++|+...... ......+      ....+. ++|+|+||+
T Consensus        76 ~~~~~liDTpG~~~~------~~~~~~~~~~---ad~~llVvD~~~~~~~~~~~~~~~------~~~~~~~~iIvviNK~  140 (208)
T cd04166          76 KRKFIIADTPGHEQY------TRNMVTGAST---ADLAILLVDARKGVLEQTRRHSYI------LSLLGIRHVVVAVNKM  140 (208)
T ss_pred             CceEEEEECCcHHHH------HHHHHHhhhh---CCEEEEEEECCCCccHhHHHHHHH------HHHcCCCcEEEEEEch
Confidence            568999999996431      1223333433   4789999999753221 2212111      123454 467799999


Q ss_pred             ccccchhh-hhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHH
Q 023298          192 DLVTNKKE-IEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRY  255 (284)
Q Consensus       192 Dll~~~~~-l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~  255 (284)
                      |+.....+ +...                       ...+.+++..+++  ..++|+||++|.|+.+
T Consensus       141 D~~~~~~~~~~~i-----------------------~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~  184 (208)
T cd04166         141 DLVDYSEEVFEEI-----------------------VADYLAFAAKLGIEDITFIPISALDGDNVVS  184 (208)
T ss_pred             hcccCCHHHHHHH-----------------------HHHHHHHHHHcCCCCceEEEEeCCCCCCCcc
Confidence            98642201 1111                       1122233344453  5699999999999875

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.25  E-value=1.6e-10  Score=96.56  Aligned_cols=111  Identities=13%  Similarity=0.203  Sum_probs=68.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++-++||||+...       ..+.+..-  ..++++++++|+..   +..|  +..++..+......+.|.++|.||+|
T Consensus        51 ~~~~i~D~~G~~~~-------~~~~~~~~--~~~~~ii~v~d~~~---~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~D  118 (166)
T cd01869          51 IKLQIWDTAGQERF-------RTITSSYY--RGAHGIIIVYDVTD---QESFNNVKQWLQEIDRYASENVNKLLVGNKCD  118 (166)
T ss_pred             EEEEEEECCCcHhH-------HHHHHHHh--CcCCEEEEEEECcC---HHHHHhHHHHHHHHHHhCCCCCcEEEEEEChh
Confidence            36789999996431       11222221  12468999999863   3333  44454444333334689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +..++ .+.. .     .    .               .+....++ ..++++||++|+|+++++..|.+.+
T Consensus       119 l~~~~-~~~~-~-----~----~---------------~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~i~~~~  163 (166)
T cd01869         119 LTDKR-VVDY-S-----E----A---------------QEFADELG-IPFLETSAKNATNVEQAFMTMAREI  163 (166)
T ss_pred             ccccc-CCCH-H-----H----H---------------HHHHHHcC-CeEEEEECCCCcCHHHHHHHHHHHH
Confidence            86433 2110 0     0    0               01112233 5799999999999999999998765

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>cd01890 LepA LepA subfamily

Probab=99.25  E-value=9.9e-11  Score=98.85  Aligned_cols=112  Identities=13%  Similarity=0.194  Sum_probs=67.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+.+..      ....+.+..   .+++++++|+....+...+ ..+    ......++|+++|+||+|+
T Consensus        66 ~~~~~l~Dt~G~~~~~------~~~~~~~~~---ad~~i~v~D~~~~~~~~~~-~~~----~~~~~~~~~iiiv~NK~Dl  131 (179)
T cd01890          66 EYLLNLIDTPGHVDFS------YEVSRSLAA---CEGALLLVDATQGVEAQTL-ANF----YLALENNLEIIPVINKIDL  131 (179)
T ss_pred             cEEEEEEECCCChhhH------HHHHHHHHh---cCeEEEEEECCCCccHhhH-HHH----HHHHHcCCCEEEEEECCCC
Confidence            4467899999986521      112233433   3678999998753222221 111    1122467899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ....  .....        .               .+++.+. .....++++||++|+|+++|++.+.+.+|
T Consensus       132 ~~~~--~~~~~--------~---------------~~~~~~~-~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (179)
T cd01890         132 PSAD--PERVK--------Q---------------QIEDVLG-LDPSEAILVSAKTGLGVEDLLEAIVERIP  177 (179)
T ss_pred             CcCC--HHHHH--------H---------------HHHHHhC-CCcccEEEeeccCCCCHHHHHHHHHhhCC
Confidence            5321  11000        0               1111111 12246899999999999999999988764

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.25  E-value=3.2e-10  Score=110.81  Aligned_cols=115  Identities=20%  Similarity=0.280  Sum_probs=69.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCE-EEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPH-VNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~-IlVlNK~  191 (284)
                      +.+++|+||||+..      ....+...+.   ..+++++++|+...-.+ ...+..      .....+.|+ |+|+||+
T Consensus       123 ~~~i~~iDtPGh~~------f~~~~~~g~~---~aD~allVVda~~g~~~qt~e~l~------~~~~~gip~iIvviNKi  187 (447)
T PLN03127        123 KRHYAHVDCPGHAD------YVKNMITGAA---QMDGGILVVSAPDGPMPQTKEHIL------LARQVGVPSLVVFLNKV  187 (447)
T ss_pred             CeEEEEEECCCccc------hHHHHHHHHh---hCCEEEEEEECCCCCchhHHHHHH------HHHHcCCCeEEEEEEee
Confidence            56899999999643      2333333332   25789999999754222 222222      233578896 6889999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC----CceEEEEecc---Cccc-------HHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS----MVSFMPLDLR---KESS-------IRYVL  257 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~----~~~~ipiSa~---~~~~-------l~~Ll  257 (284)
                      |++.++ +..+.++                      ..+.+++..++    ...|+|+|+.   +|.|       +..|+
T Consensus       188 Dlv~~~-~~~~~i~----------------------~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll  244 (447)
T PLN03127        188 DVVDDE-ELLELVE----------------------MELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLM  244 (447)
T ss_pred             ccCCHH-HHHHHHH----------------------HHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHH
Confidence            997543 3222211                      11122233322    2578888875   5555       78999


Q ss_pred             HHHHHhcCC
Q 023298          258 SQIDNCIQW  266 (284)
Q Consensus       258 ~~I~~~l~~  266 (284)
                      +.+++.+|.
T Consensus       245 ~~l~~~lp~  253 (447)
T PLN03127        245 DAVDEYIPE  253 (447)
T ss_pred             HHHHHhCCC
Confidence            999998863

>cd04142 RRP22 RRP22 subfamily

Probab=99.25  E-value=2.1e-10  Score=100.16  Aligned_cols=124  Identities=13%  Similarity=0.146  Sum_probs=69.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH---hcCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV---QLELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~---~~~~p~IlVl  188 (284)
                      .++.++||||+.. +.. ..+..... ........+++++++|+.   ++..|  +..+...+....   ..+.|+++|.
T Consensus        49 ~~l~i~Dt~G~~~-~~~-~~~~e~~~~~~~~~~~ad~iilv~D~~---~~~S~~~~~~~~~~i~~~~~~~~~~~piiivg  123 (198)
T cd04142          49 YDLHILDVPNMQR-YPG-TAGQEWMDPRFRGLRNSRAFILVYDIC---SPDSFHYVKLLRQQILETRPAGNKEPPIVVVG  123 (198)
T ss_pred             EEEEEEeCCCccc-CCc-cchhHHHHHHHhhhccCCEEEEEEECC---CHHHHHHHHHHHHHHHHhcccCCCCCCEEEEE
Confidence            4678999999753 211 11222111 111223357899999986   34443  333322222222   2468999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH-hcCCC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN-CIQWG  267 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~-~l~~g  267 (284)
                      ||+|+...+ ....      +.+                   .++........++++||++|.|+++|++.+.+ ++..|
T Consensus       124 NK~Dl~~~~-~~~~------~~~-------------------~~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~~  177 (198)
T cd04142         124 NKRDQQRHR-FAPR------HVL-------------------SVLVRKSWKCGYLECSAKYNWHILLLFKELLISATTRG  177 (198)
T ss_pred             ECccccccc-cccH------HHH-------------------HHHHHHhcCCcEEEecCCCCCCHHHHHHHHHHHhhccC
Confidence            999995432 1100      000                   01111112367999999999999999998874 44444


Q ss_pred             CC
Q 023298          268 ED  269 (284)
Q Consensus       268 ~d  269 (284)
                      +-
T Consensus       178 ~~  179 (198)
T cd04142         178 RS  179 (198)
T ss_pred             CC
Confidence            44

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.25  E-value=2.3e-10  Score=110.13  Aligned_cols=116  Identities=18%  Similarity=0.299  Sum_probs=71.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEE-EEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHV-NILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~D  192 (284)
                      +.++.|+||||+.+      ....+...+   ...+++++++|+...-.+...  .   .+......+.|++ +|+||+|
T Consensus        74 ~~~i~~iDtPGh~~------f~~~~~~~~---~~aD~~llVvda~~g~~~qt~--e---~l~~~~~~gi~~iivvvNK~D  139 (396)
T PRK12735         74 NRHYAHVDCPGHAD------YVKNMITGA---AQMDGAILVVSAADGPMPQTR--E---HILLARQVGVPYIVVFLNKCD  139 (396)
T ss_pred             CcEEEEEECCCHHH------HHHHHHhhh---ccCCEEEEEEECCCCCchhHH--H---HHHHHHHcCCCeEEEEEEecC
Confidence            45899999999632      122233223   335789999999753222211  1   1112335688977 5799999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCc----------ccHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKE----------SSIRYVLS  258 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~----------~~l~~Ll~  258 (284)
                      ++.++ +..+.+.                      ..+..++..+++    ..|+|+||.+|          .++..|++
T Consensus       140 l~~~~-~~~~~~~----------------------~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~  196 (396)
T PRK12735        140 MVDDE-ELLELVE----------------------MEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMD  196 (396)
T ss_pred             CcchH-HHHHHHH----------------------HHHHHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHH
Confidence            97533 2222211                      122334444443    67999999998          47899999


Q ss_pred             HHHHhcCC
Q 023298          259 QIDNCIQW  266 (284)
Q Consensus       259 ~I~~~l~~  266 (284)
                      .++..+|.
T Consensus       197 ~l~~~~~~  204 (396)
T PRK12735        197 AVDSYIPE  204 (396)
T ss_pred             HHHhcCCC
Confidence            99998763

>cd01861 Rab6 Rab6 subfamily

Probab=99.25  E-value=7.4e-11  Score=97.64  Aligned_cols=112  Identities=13%  Similarity=0.184  Sum_probs=65.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+...       ..+... ++.   .+++++++|+....+... +..++..+......+.|+++|+||+|+
T Consensus        49 ~~l~~~D~~G~~~~-------~~~~~~~~~~---~~~ii~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~iilv~nK~D~  117 (161)
T cd01861          49 VRLQLWDTAGQERF-------RSLIPSYIRD---SSVAVVVYDITNRQSFDN-TDKWIDDVRDERGNDVIIVLVGNKTDL  117 (161)
T ss_pred             EEEEEEECCCcHHH-------HHHHHHHhcc---CCEEEEEEECcCHHHHHH-HHHHHHHHHHhCCCCCEEEEEEEChhc
Confidence            36789999996541       122222 222   467889999864322222 333333222212225899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..+.....+..                          .......+ ..++++||++++|++++++.|.+.+
T Consensus       118 ~~~~~~~~~~~--------------------------~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~i~~~l  161 (161)
T cd01861         118 SDKRQVSTEEG--------------------------EKKAKELN-AMFIETSAKAGHNVKELFRKIASAL  161 (161)
T ss_pred             cccCccCHHHH--------------------------HHHHHHhC-CEEEEEeCCCCCCHHHHHHHHHHhC
Confidence            53220111100                          01112233 6799999999999999999997753

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd01868 Rab11_like Rab11-like

Probab=99.24  E-value=1.7e-10  Score=96.09  Aligned_cols=109  Identities=15%  Similarity=0.201  Sum_probs=65.0

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .+.++||||+..       ...+.+. +..   .+.+++++|+.   ++..+  +..++..+......+.|.++|.||+|
T Consensus        53 ~~~l~D~~g~~~-------~~~~~~~~~~~---~~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~D  119 (165)
T cd01868          53 KAQIWDTAGQER-------YRAITSAYYRG---AVGALLVYDIT---KKQTFENVERWLKELRDHADSNIVIMLVGNKSD  119 (165)
T ss_pred             EEEEEeCCChHH-------HHHHHHHHHCC---CCEEEEEEECc---CHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcc
Confidence            578999999643       1112222 222   46788899986   33333  33343333232333689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +...+ ....-                  ..       ..+.... ...++++||++|.|++.+++.+.+.+
T Consensus       120 l~~~~-~~~~~------------------~~-------~~~~~~~-~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         120 LRHLR-AVPTE------------------EA-------KAFAEKN-GLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             ccccc-cCCHH------------------HH-------HHHHHHc-CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            86432 11000                  00       0111122 25799999999999999999987654

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd01862 Rab7 Rab7 subfamily

Probab=99.24  E-value=8.9e-11  Score=98.08  Aligned_cols=113  Identities=11%  Similarity=0.190  Sum_probs=67.0

Q ss_pred             CEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH----hcCCCEEEEecC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV----QLELPHVNILSK  190 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~----~~~~p~IlVlNK  190 (284)
                      ++.++||||+...       ..+.. .++.   ++++++++|+....+... +..+...+....    ..+.|.++|+||
T Consensus        50 ~~~~~D~~g~~~~-------~~~~~~~~~~---~d~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~p~ilv~nK  118 (172)
T cd01862          50 TLQIWDTAGQERF-------QSLGVAFYRG---ADCCVLVYDVTNPKSFES-LDSWRDEFLIQASPSDPENFPFVVLGNK  118 (172)
T ss_pred             EEEEEeCCChHHH-------HhHHHHHhcC---CCEEEEEEECCCHHHHHH-HHHHHHHHHHhcCccCCCCceEEEEEEC
Confidence            5678999996431       11212 2322   467899999864321111 112222111111    126899999999


Q ss_pred             Cccccchhhh-hhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          191 MDLVTNKKEI-EDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       191 ~Dll~~~~~l-~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +|+..++ .. .+.                          +..+.+..+...++++|+++|.|++.+++.|.+.+.+
T Consensus       119 ~Dl~~~~-~~~~~~--------------------------~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~  168 (172)
T cd01862         119 IDLEEKR-QVSTKK--------------------------AQQWCQSNGNIPYFETSAKEAINVEQAFETIARKALE  168 (172)
T ss_pred             ccccccc-ccCHHH--------------------------HHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            9997422 11 110                          0122345566899999999999999999998876543

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.24  E-value=2.5e-10  Score=95.77  Aligned_cols=110  Identities=15%  Similarity=0.247  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.+.||||+...       ..+.. .++.   ++++++++|+..   +..|  +..++..+......+.|.++|.||+
T Consensus        52 ~~l~l~D~~g~~~~-------~~~~~~~~~~---ad~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~  118 (167)
T cd01867          52 IKLQIWDTAGQERF-------RTITTAYYRG---AMGIILVYDITD---EKSFENIRNWMRNIEEHASEDVERMLVGNKC  118 (167)
T ss_pred             EEEEEEeCCchHHH-------HHHHHHHhCC---CCEEEEEEECcC---HHHHHhHHHHHHHHHHhCCCCCcEEEEEECc
Confidence            35789999996431       11222 2322   468999999853   3333  4445444433333568999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ....      +..                   .+....++ ..++++||++|.|++++++.+.+.+
T Consensus       119 Dl~~~~-~~~~------~~~-------------------~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~i~~~~  164 (167)
T cd01867         119 DMEEKR-VVSK------EEG-------------------EALADEYG-IKFLETSAKANINVEEAFFTLAKDI  164 (167)
T ss_pred             cccccc-CCCH------HHH-------------------HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            996432 1110      000                   11112333 4789999999999999999888754

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.24  E-value=1.5e-10  Score=106.69  Aligned_cols=159  Identities=18%  Similarity=0.277  Sum_probs=111.0

Q ss_pred             EECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhcHH
Q 023298           24 VFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDNLD  102 (284)
Q Consensus        24 viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~~~  102 (284)
                      ++|-| +||||+-..|+.             .-|....++++                  .+-|+-+.+.          
T Consensus       201 LVG~PNAGKSTLL~als~-------------AKpkVa~YaFT------------------TL~P~iG~v~----------  239 (366)
T KOG1489|consen  201 LVGFPNAGKSTLLNALSR-------------AKPKVAHYAFT------------------TLRPHIGTVN----------  239 (366)
T ss_pred             eecCCCCcHHHHHHHhhc-------------cCCccccccee------------------eeccccceee----------
Confidence            78999 999999999988             55666655442                  2335432211          


Q ss_pred             HHHHHHhhccCCCCEEEEeCCCCcccc-cccchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHh
Q 023298          103 DWLAEELDNYLDDDYLVFDCPGQIELF-THVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQ  179 (284)
Q Consensus       103 ~~l~~~l~~~~~~~~viiDtPg~~e~~-~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~  179 (284)
                            .+.  ..|+.+.|.||.++.. ..+..+..|+++++.+   ...+|++|.+..  .+|.+.+..+...+..+-+
T Consensus       240 ------ydd--f~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~---~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek  308 (366)
T KOG1489|consen  240 ------YDD--FSQITVADIPGIIEGAHMNKGLGYKFLRHIERC---KGLLFVVDLSGKQLRNPWQQLQLLIEELELYEK  308 (366)
T ss_pred             ------ccc--cceeEeccCccccccccccCcccHHHHHHHHhh---ceEEEEEECCCcccCCHHHHHHHHHHHHHHHhh
Confidence                  111  2358999999999874 5667788999999864   478999999865  3566666666666666644


Q ss_pred             --cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHH
Q 023298          180 --LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       180 --~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll  257 (284)
                        ..+|+++|.||+|+...+   +++++                          ++.+......++|+||+.++++..|+
T Consensus       309 ~L~~rp~liVaNKiD~~eae---~~~l~--------------------------~L~~~lq~~~V~pvsA~~~egl~~ll  359 (366)
T KOG1489|consen  309 GLADRPALIVANKIDLPEAE---KNLLS--------------------------SLAKRLQNPHVVPVSAKSGEGLEELL  359 (366)
T ss_pred             hhccCceEEEEeccCchhHH---HHHHH--------------------------HHHHHcCCCcEEEeeeccccchHHHH
Confidence              578999999999985322   11111                          11122223479999999999999999


Q ss_pred             HHHHHh
Q 023298          258 SQIDNC  263 (284)
Q Consensus       258 ~~I~~~  263 (284)
                      ..+.+.
T Consensus       360 ~~lr~~  365 (366)
T KOG1489|consen  360 NGLREL  365 (366)
T ss_pred             HHHhhc
Confidence            988654

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=99.24  E-value=1.2e-10  Score=99.59  Aligned_cols=150  Identities=16%  Similarity=0.242  Sum_probs=78.7

Q ss_pred             EEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccc-c-cccccc-HHHHhhhcCcccCchhhhhhHhhh
Q 023298           23 CVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAM-D-IRELIS-LEDVMEELGLGPNGGLIYCMEHLE   98 (284)
Q Consensus        23 ~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~-d-ir~~i~-~~~vm~~~~lgPng~l~~~~e~~~   98 (284)
                      ++-+.| +||||+|.+||.+|+++|++|++||+|||++.+.+-... + .++... ....+..+.   .+.+...-+.  
T Consensus         3 v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~--   77 (195)
T PF01656_consen    3 VTSGKGGVGKTTIAANLAQALARKGKKVLLIDLDPQAPNLSILFGVYDILREGLENANAILKNFE---SQDIYQGEEY--   77 (195)
T ss_dssp             EEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEESTTSHHHHHHTTCHHHHTTSSHGHHCHHESCC---HHHHHHHCHC--
T ss_pred             EEcCCCCccHHHHHHHHHhccccccccccccccCcccccHHHHhcchhhccccceehhhhhhccc---hhhhhhhhhh--
Confidence            344457 999999999999999999999999999999864321101 0 000000 000000000   0000000000  


Q ss_pred             hcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH
Q 023298           99 DNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA  176 (284)
Q Consensus        99 ~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~  176 (284)
                       .....+++.++.+.  .++||||||||.....        ....+..   ++.++..+++.    +.. +......+..
T Consensus        78 -~~~~~l~~~l~~l~~~~yD~iiiD~~~~~~~~--------~~~~l~~---ad~viv~~~~~----~~~-i~~~~~~~~~  140 (195)
T PF01656_consen   78 -LDPELLREILESLIKSDYDYIIIDTPPGLSDP--------VRNALAA---ADYVIVPIEPD----PSS-IEGAERLIEL  140 (195)
T ss_dssp             -HHHHHHHHHHHHHHHTTSSEEEEEECSSSSHH--------HHHHHHT---SSEEEEEEESS----HHH-HHHHHHHHHH
T ss_pred             -hHHHHHHHHHHHhhhccccceeecccccccHH--------HHHHHHh---CceeeeecCCc----HHH-HHHHHHHHHH
Confidence             00112333333211  4899999999976522        2233433   35566667663    322 4444444455


Q ss_pred             HHhcCC---CEEEEecCCccc
Q 023298          177 MVQLEL---PHVNILSKMDLV  194 (284)
Q Consensus       177 ~~~~~~---p~IlVlNK~Dll  194 (284)
                      +.+.+.   ...+|+||++.-
T Consensus       141 l~~~~~~~~~~~vv~N~v~~~  161 (195)
T PF01656_consen  141 LKRLGKKLKIIGVVINRVDPG  161 (195)
T ss_dssp             HHHHTHTEEEEEEEEEEETSC
T ss_pred             HHHhccccceEEEEEeeeCCC
Confidence            555552   457899999764

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.23  E-value=4.2e-10  Score=102.49  Aligned_cols=138  Identities=13%  Similarity=0.147  Sum_probs=83.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.++||||+...      .....+.+..   .+.+++++|+....... ..+.      ......+.|.++|+||+|
T Consensus        63 ~~~i~liDtPG~~~f------~~~~~~~l~~---aD~~i~Vvd~~~g~~~~~~~~~------~~~~~~~~p~iivvNK~D  127 (268)
T cd04170          63 GHKINLIDTPGYADF------VGETRAALRA---ADAALVVVSAQSGVEVGTEKLW------EFADEAGIPRIIFINKMD  127 (268)
T ss_pred             CEEEEEEECcCHHHH------HHHHHHHHHH---CCEEEEEEeCCCCCCHHHHHHH------HHHHHcCCCEEEEEECCc
Confidence            567899999997541      1223344443   36788899987543322 2122      223456899999999999


Q ss_pred             cccchh-----hhhhhcCc---------------------------------------chH-----------HHHHHhhh
Q 023298          193 LVTNKK-----EIEDYLNP---------------------------------------ESQ-----------FLLSELNQ  217 (284)
Q Consensus       193 ll~~~~-----~l~~~l~~---------------------------------------~~~-----------~l~~~l~~  217 (284)
                      +.....     .+.+.+..                                       -++           .|.+.+.+
T Consensus       128 ~~~~~~~~~~~~l~~~~~~~~~~~~ip~~~~~~~~~~vd~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~l~e~~a~  207 (268)
T cd04170         128 RERADFDKTLAALQEAFGRPVVPLQLPIGEGDDFKGVVDLLTEKAYIYSPGAPSEEIEIPEELKEEVAEAREELLEAVAE  207 (268)
T ss_pred             cCCCCHHHHHHHHHHHhCCCeEEEEecccCCCceeEEEEcccCEEEEccCCCcceeccCCHHHHHHHHHHHHHHHHHHhh
Confidence            864311     11111000                                       001           12222222


Q ss_pred             cchh-----------HHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          218 HMAP-----------QFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       218 ~~~~-----------~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ....           ....+...+.+.+..-.+..+++.||+++.|++.|++.+.+++|.
T Consensus       208 ~dd~l~e~yl~~~~~~~~~l~~~l~~~~~~~~~~pv~~gSa~~~~G~~~ll~~~~~~~p~  267 (268)
T cd04170         208 TDDELMEKYLEGGELTEEELHAGLRRALRAGLLVPVLCGSALTNIGVRELLDALVHLLPS  267 (268)
T ss_pred             CCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCEEEEEEeeCCCCcCHHHHHHHHHHhCCC
Confidence            1111           122456666777777778899999999999999999999999874

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=99.23  E-value=2.4e-10  Score=97.57  Aligned_cols=35  Identities=14%  Similarity=0.189  Sum_probs=29.9

Q ss_pred             EEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           23 CVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        23 ~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      ++-|.| +||||++.|||..|    +||++||+|+|....
T Consensus         4 v~s~kgG~GKSt~a~nLA~~l----~~vlliD~D~~~~~~   39 (179)
T cd03110           4 VISGKGGTGKTTVTAALAALL----KNVVLADCDVDAPNL   39 (179)
T ss_pred             EEcCCCCCCHHHHHHHHHHHH----hCcEEEECCCCCCch
Confidence            444557 99999999999999    799999999997643

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.23  E-value=5.6e-10  Score=91.78  Aligned_cols=119  Identities=18%  Similarity=0.154  Sum_probs=68.9

Q ss_pred             CEEEEeCCCCcccccccch----HHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          116 DYLVFDCPGQIELFTHVPV----LRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~----~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ++.++||||..........    ...+...+...+....+++++|........ ..+..      .+...+.|+++|+||
T Consensus        46 ~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~------~l~~~~~~vi~v~nK  119 (170)
T cd01876          46 KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLD------WLEELGIPFLVVLTK  119 (170)
T ss_pred             eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHH------HHHHcCCCEEEEEEc
Confidence            7899999996542111111    111222333222234677888886442222 21222      233457899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHh-ccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVD-EYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~-~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.... +.....                       ..+...++ ......++|+|++++.++.++++.|.+.+
T Consensus       120 ~D~~~~~-~~~~~~-----------------------~~~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~~  170 (170)
T cd01876         120 ADKLKKS-ELAKAL-----------------------KEIKKELKLFEIDPPIILFSSLKGQGIDELRALIEKWL  170 (170)
T ss_pred             hhcCChH-HHHHHH-----------------------HHHHHHHHhccCCCceEEEecCCCCCHHHHHHHHHHhC
Confidence            9987543 222111                       01112222 23446899999999999999999998753

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=99.23  E-value=1.9e-11  Score=113.27  Aligned_cols=45  Identities=18%  Similarity=0.173  Sum_probs=40.2

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      +++.+.|.|.| +||||+|.|||..|++.|+||++||+|||++.+.
T Consensus         3 ~~~~iai~~KGGvGKTt~~~nLa~~la~~g~kVLliD~D~q~~~~~   48 (295)
T PRK13234          3 KLRQIAFYGKGGIGKSTTSQNTLAALVEMGQKILIVGCDPKADSTR   48 (295)
T ss_pred             cceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEeccccccccc
Confidence            45666677999 9999999999999999999999999999998653

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.22  E-value=8.1e-11  Score=104.19  Aligned_cols=105  Identities=17%  Similarity=0.235  Sum_probs=60.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-----H-HHHHHHHHHHHHHHHhcC-CCEEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-----V-TKFISGCMASLSAMVQLE-LPHVN  186 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-----~-~~~i~~~l~~l~~~~~~~-~p~Il  186 (284)
                      +..+.++||||+...      ...+...+.   ..+++++++|+.....     . ......    +......+ +|+|+
T Consensus        76 ~~~i~liDtpG~~~~------~~~~~~~~~---~~d~~i~VvDa~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~iii  142 (219)
T cd01883          76 KYRFTILDAPGHRDF------VPNMITGAS---QADVAVLVVDARKGEFEAGFEKGGQTREH----ALLARTLGVKQLIV  142 (219)
T ss_pred             CeEEEEEECCChHHH------HHHHHHHhh---hCCEEEEEEECCCCccccccccccchHHH----HHHHHHcCCCeEEE
Confidence            567899999996431      122333332   3578999999975210     0 011111    11122444 67888


Q ss_pred             EecCCccccc---hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHH
Q 023298          187 ILSKMDLVTN---KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIR  254 (284)
Q Consensus       187 VlNK~Dll~~---~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~  254 (284)
                      |+||+|+...   +..+..                       +...+.+.+..+++    ..|+|+||++|+|++
T Consensus       143 vvNK~Dl~~~~~~~~~~~~-----------------------i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         143 AVNKMDDVTVNWSEERYDE-----------------------IKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             EEEccccccccccHHHHHH-----------------------HHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            9999998732   101111                       11222334455444    579999999999987

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.22  E-value=3.3e-10  Score=97.25  Aligned_cols=116  Identities=14%  Similarity=0.111  Sum_probs=62.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH-HHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASL-SAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l-~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+..       .+.+... +..   .++++|++|+....+-.. ....+..+ ..-.....|+++|.||.
T Consensus        60 ~~~~~l~D~~G~~~-------~~~~~~~~~~~---ad~iI~v~D~t~~~s~~~-~~~~l~~~~~~~~~~~~piilv~NK~  128 (182)
T PTZ00133         60 NLKFTMWDVGGQDK-------LRPLWRHYYQN---TNGLIFVVDSNDRERIGD-AREELERMLSEDELRDAVLLVFANKQ  128 (182)
T ss_pred             CEEEEEEECCCCHh-------HHHHHHHHhcC---CCEEEEEEeCCCHHHHHH-HHHHHHHHHhCHhhcCCCEEEEEeCC
Confidence            44789999999743       1112222 222   468999999864321111 11111111 10011358999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ...+..        ..+..              ..+.. ....++++||++|+|++++++.|.+.+
T Consensus       129 Dl~~~~-~~~~i~--------~~l~~--------------~~~~~-~~~~~~~~Sa~tg~gv~e~~~~l~~~i  177 (182)
T PTZ00133        129 DLPNAM-STTEVT--------EKLGL--------------HSVRQ-RNWYIQGCCATTAQGLYEGLDWLSANI  177 (182)
T ss_pred             CCCCCC-CHHHHH--------HHhCC--------------CcccC-CcEEEEeeeCCCCCCHHHHHHHHHHHH
Confidence            984321 111110        00000              00011 123467899999999999999987654

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.22  E-value=1.6e-10  Score=94.26  Aligned_cols=104  Identities=11%  Similarity=0.146  Sum_probs=59.9

Q ss_pred             EEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccch
Q 023298          118 LVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       118 viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      .++||||+.-  .+......+...+..   .+++++++|+....+...  ..+..      ..+.|.++|+||+|+....
T Consensus        38 ~~iDt~G~~~--~~~~~~~~~~~~~~~---ad~vilv~d~~~~~s~~~--~~~~~------~~~~p~ilv~NK~Dl~~~~  104 (142)
T TIGR02528        38 GAIDTPGEYV--ENRRLYSALIVTAAD---ADVIALVQSATDPESRFP--PGFAS------IFVKPVIGLVTKIDLAEAD  104 (142)
T ss_pred             eeecCchhhh--hhHHHHHHHHHHhhc---CCEEEEEecCCCCCcCCC--hhHHH------hccCCeEEEEEeeccCCcc
Confidence            5789999732  111112222233322   468999999865432111  01111      1245999999999986422


Q ss_pred             hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          198 KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       198 ~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                       ...+.                          ..+..+..+...++++||++|+|++++++.+.
T Consensus       105 -~~~~~--------------------------~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528       105 -VDIER--------------------------AKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             -cCHHH--------------------------HHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence             10000                          01222344556799999999999999998763

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=99.22  E-value=1.8e-10  Score=106.84  Aligned_cols=42  Identities=12%  Similarity=0.209  Sum_probs=37.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      .+.|+|.| +||||++.|||.+|+++|+||++||+|||.+.+.
T Consensus         2 vIav~gKGGvGKTT~a~nLA~~La~~g~rVLlID~Dpq~~~~~   44 (296)
T TIGR02016         2 IIAIYGKGGSGKSFTTTNLSHMMAEMGKRVLQLGCDPKHDSTS   44 (296)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEecCCCCccc
Confidence            35566999 9999999999999999999999999999998543

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.21  E-value=4.6e-10  Score=96.20  Aligned_cols=115  Identities=17%  Similarity=0.204  Sum_probs=65.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHH-HHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLS-AMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~-~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.+.||||+-..       ..+....-  ..+++++|++|+....+... +..++..+. .....++|+++|+||+|+
T Consensus        52 ~~l~l~Dt~G~~~~-------~~~~~~~~--~~~d~ii~v~D~~~~~~~~~-~~~~~~~i~~~~~~~~~p~iiv~NK~D~  121 (183)
T cd04152          52 ITFHFWDVGGQEKL-------RPLWKSYT--RCTDGIVFVVDSVDVERMEE-AKTELHKITRFSENQGVPVLVLANKQDL  121 (183)
T ss_pred             eEEEEEECCCcHhH-------HHHHHHHh--ccCCEEEEEEECCCHHHHHH-HHHHHHHHHhhhhcCCCcEEEEEECcCc
Confidence            46789999996431       11222221  12468999999864322211 122222221 223357999999999998


Q ss_pred             ccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ....  .++..++.         ++               + +.......++|+||++|+|+++++..|.+.+
T Consensus       122 ~~~~~~~~~~~~~~---------~~---------------~-~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l  169 (183)
T cd04152         122 PNALSVSEVEKLLA---------LH---------------E-LSASTPWHVQPACAIIGEGLQEGLEKLYEMI  169 (183)
T ss_pred             cccCCHHHHHHHhC---------cc---------------c-cCCCCceEEEEeecccCCCHHHHHHHHHHHH
Confidence            5321  01111110         00               0 0011124689999999999999999888765

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.21  E-value=2.5e-10  Score=94.47  Aligned_cols=113  Identities=12%  Similarity=0.198  Sum_probs=68.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+...       ..+.+..-+  ..+++++++|+....+... +..++..+......+.|.++|.||+|+.
T Consensus        49 ~~~~l~D~~G~~~~-------~~~~~~~~~--~~d~~ilv~d~~~~~s~~~-~~~~l~~~~~~~~~~~pivvv~nK~D~~  118 (164)
T smart00175       49 VKLQIWDTAGQERF-------RSITSSYYR--GAVGALLVYDITNRESFEN-LKNWLKELREYADPNVVIMLVGNKSDLE  118 (164)
T ss_pred             EEEEEEECCChHHH-------HHHHHHHhC--CCCEEEEEEECCCHHHHHH-HHHHHHHHHHhCCCCCeEEEEEEchhcc
Confidence            36789999996431       112222211  2468999999864322221 3334443333333478999999999976


Q ss_pred             cchhhhh-hhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          195 TNKKEIE-DYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       195 ~~~~~l~-~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.. ... +..                          .+....++ ..++++|+++|.|++++++.|.+.+.
T Consensus       119 ~~~-~~~~~~~--------------------------~~~~~~~~-~~~~e~Sa~~~~~i~~l~~~i~~~~~  162 (164)
T smart00175      119 DQR-QVSREEA--------------------------EAFAEEHG-LPFFETSAKTNTNVEEAFEELAREIL  162 (164)
T ss_pred             ccc-CCCHHHH--------------------------HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            422 111 000                          11123344 46999999999999999999988764

Rab GTPases are implicated in vesicle trafficking.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.21  E-value=2.4e-10  Score=97.56  Aligned_cols=109  Identities=16%  Similarity=0.160  Sum_probs=60.6

Q ss_pred             CEEEEeCCCCcccccccc---hHHHHH-HHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          116 DYLVFDCPGQIELFTHVP---VLRNFV-DHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~---~~~~l~-~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ++.++||||+........   ....++ ..+...+..+++++++|+...... ...+..      .+...++|+++|+||
T Consensus        65 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~------~~~~~~~pviiv~nK  138 (179)
T TIGR03598        65 GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMLE------WLRERGIPVLIVLTK  138 (179)
T ss_pred             cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHHHHHH------HHHHcCCCEEEEEEC
Confidence            689999999654221111   111222 223332223578999998753222 222212      223468999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHH
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIR  254 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~  254 (284)
                      +|+.... +.....+                       .+.+.+...+ ..+++++||++|+|++
T Consensus       139 ~D~~~~~-~~~~~~~-----------------------~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       139 ADKLKKS-ELNKQLK-----------------------KIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             cccCCHH-HHHHHHH-----------------------HHHHHHhhccCCCceEEEECCCCCCCC
Confidence            9987533 2222211                       1122223333 2489999999999973

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.21  E-value=3.8e-10  Score=92.89  Aligned_cols=110  Identities=13%  Similarity=0.190  Sum_probs=62.0

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~Dl  193 (284)
                      .+-++||||+-+.       ..+... +..   .+.+++++|.....+... +..+...+.... ..+.|+++|.||+|+
T Consensus        50 ~~~i~Dt~G~~~~-------~~l~~~~~~~---~~~~i~v~~~~~~~s~~~-~~~~~~~i~~~~~~~~~piivv~nK~Dl  118 (162)
T cd04138          50 LLDILDTAGQEEY-------SAMRDQYMRT---GEGFLCVFAINSRKSFED-IHTYREQIKRVKDSDDVPMVLVGNKCDL  118 (162)
T ss_pred             EEEEEECCCCcch-------HHHHHHHHhc---CCEEEEEEECCCHHHHHH-HHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            3567999997541       123222 333   345677777653221111 222322222222 247899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..+.....+.                           .+....++ ..++++||++|.|++++++.+.+.+
T Consensus       119 ~~~~~~~~~~---------------------------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         119 AARTVSSRQG---------------------------QDLAKSYG-IPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             ccceecHHHH---------------------------HHHHHHhC-CeEEEecCCCCCCHHHHHHHHHHHh
Confidence            6422000000                           01112222 4789999999999999999987653

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04157 Arl6 Arl6 subfamily

Probab=99.20  E-value=3.5e-10  Score=93.50  Aligned_cols=114  Identities=12%  Similarity=0.107  Sum_probs=62.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH---HHhcCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA---MVQLELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~---~~~~~~p~IlVlN  189 (284)
                      +..+.++||||+....       .+.+ .+..   .++++|++|+....+... ....+..+..   +...++|+++|+|
T Consensus        44 ~~~~~l~Dt~G~~~~~-------~~~~~~~~~---~d~ii~v~D~~~~~~~~~-~~~~~~~~~~~~~~~~~~~p~iiv~N  112 (162)
T cd04157          44 NLSFTAFDMSGQGKYR-------GLWEHYYKN---IQGIIFVIDSSDRLRLVV-VKDELELLLNHPDIKHRRVPILFFAN  112 (162)
T ss_pred             CEEEEEEECCCCHhhH-------HHHHHHHcc---CCEEEEEEeCCcHHHHHH-HHHHHHHHHcCcccccCCCCEEEEEe
Confidence            3467899999975411       1212 2322   467999999863321111 1122221111   1124799999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+|+.... ...++.        ..+..             .+.  ......++++||++|.|++++++.|.+
T Consensus       113 K~Dl~~~~-~~~~~~--------~~l~~-------------~~~--~~~~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         113 KMDLPDAL-TAVKIT--------QLLGL-------------ENI--KDKPWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             CccccCCC-CHHHHH--------HHhCC-------------ccc--cCceEEEEEeeCCCCCchHHHHHHHhc
Confidence            99986432 111111        00000             000  011246899999999999999988753

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.20  E-value=5.4e-10  Score=92.95  Aligned_cols=116  Identities=17%  Similarity=0.190  Sum_probs=67.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+....       .+.. .+.   ..+++++++|+.....+..+-     .+..+.+.++|.++|+||+|
T Consensus        49 ~~~~~iiDtpG~~~~~-------~~~~~~~~---~~d~il~v~d~~~~~~~~~~~-----~~~~~~~~~~p~ivv~NK~D  113 (168)
T cd01887          49 IPGITFIDTPGHEAFT-------NMRARGAS---LTDIAILVVAADDGVMPQTIE-----AIKLAKAANVPFIVALNKID  113 (168)
T ss_pred             cceEEEEeCCCcHHHH-------HHHHHHHh---hcCEEEEEEECCCCccHHHHH-----HHHHHHHcCCCEEEEEEcee
Confidence            4578999999974311       1211 122   246789999997543333221     11223457899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +....  ...+.        ..+.        .+.   ....+..+ ...++++|+++|+|+.+|++.|.+...
T Consensus       114 l~~~~--~~~~~--------~~~~--------~~~---~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  166 (168)
T cd01887         114 KPNAN--PERVK--------NELS--------ELG---LQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLLAE  166 (168)
T ss_pred             ccccc--HHHHH--------HHHH--------Hhh---ccccccccCcCcEEEeecccCCCHHHHHHHHHHhhh
Confidence            86421  11111        0000        000   00001112 357999999999999999999987643

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>PRK04213 GTP-binding protein; Provisional

Probab=99.20  E-value=3.3e-10  Score=98.02  Aligned_cols=123  Identities=16%  Similarity=0.269  Sum_probs=65.4

Q ss_pred             CEEEEeCCCCcccccccch-HHHH----HHHHH-hcCCCeEEEEEecCCCCCCH-HHH-----HHHHHHHHHHHHhcCCC
Q 023298          116 DYLVFDCPGQIELFTHVPV-LRNF----VDHLK-SRNFNVCAVYLLDSQFITDV-TKF-----ISGCMASLSAMVQLELP  183 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~-~~~l----~~~l~-~~d~~~vil~LiDa~~~~~~-~~~-----i~~~l~~l~~~~~~~~p  183 (284)
                      ++.++||||.-........ ..++    ...+. .++..+++++++|+....+. ..+     +..-......+...++|
T Consensus        53 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p  132 (201)
T PRK04213         53 DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIP  132 (201)
T ss_pred             ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCC
Confidence            5799999995221111110 1112    11222 23445788999998643211 000     00000001122245899


Q ss_pred             EEEEecCCccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc---cC--CceEEEEeccCcccHHHHH
Q 023298          184 HVNILSKMDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE---YS--MVSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       184 ~IlVlNK~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~---~~--~~~~ipiSa~~~~~l~~Ll  257 (284)
                      +++|+||+|+..+.. ...++                           ++.+..   +.  ...++++||++| |+++++
T Consensus       133 ~iiv~NK~Dl~~~~~~~~~~~---------------------------~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~  184 (201)
T PRK04213        133 PIVAVNKMDKIKNRDEVLDEI---------------------------AERLGLYPPWRQWQDIIAPISAKKG-GIEELK  184 (201)
T ss_pred             eEEEEECccccCcHHHHHHHH---------------------------HHHhcCCccccccCCcEEEEecccC-CHHHHH
Confidence            999999999864320 01111                           111110   10  125899999999 999999


Q ss_pred             HHHHHhcCC
Q 023298          258 SQIDNCIQW  266 (284)
Q Consensus       258 ~~I~~~l~~  266 (284)
                      +.|.+.+++
T Consensus       185 ~~l~~~~~~  193 (201)
T PRK04213        185 EAIRKRLHE  193 (201)
T ss_pred             HHHHHhhcC
Confidence            999988754

>cd04114 Rab30 Rab30 subfamily

Probab=99.20  E-value=4.7e-10  Score=93.71  Aligned_cols=110  Identities=10%  Similarity=0.189  Sum_probs=66.0

Q ss_pred             CEEEEeCCCCcccccccchHHHH-HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNF-VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l-~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .+.+.||||+...       ... ...+..   .+++++++|.....+.. .+..++..+......+.|.++|.||+|+.
T Consensus        57 ~~~~~D~~g~~~~-------~~~~~~~~~~---~d~~i~v~d~~~~~s~~-~~~~~~~~l~~~~~~~~~~i~v~NK~D~~  125 (169)
T cd04114          57 KLQIWDTAGQERF-------RSITQSYYRS---ANALILTYDITCEESFR-CLPEWLREIEQYANNKVITILVGNKIDLA  125 (169)
T ss_pred             EEEEEECCCcHHH-------HHHHHHHhcC---CCEEEEEEECcCHHHHH-HHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence            4678899996431       111 122322   46799999985322111 13344444444444578999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      .+. ++..-.                          .+.+.......++++||++|.|+.++++.|.+.
T Consensus       126 ~~~-~i~~~~--------------------------~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~  167 (169)
T cd04114         126 ERR-EVSQQR--------------------------AEEFSDAQDMYYLETSAKESDNVEKLFLDLACR  167 (169)
T ss_pred             ccc-ccCHHH--------------------------HHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            433 221110                          000111112679999999999999999998764

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd01865 Rab3 Rab3 subfamily

Probab=99.20  E-value=3.5e-10  Score=94.71  Aligned_cols=112  Identities=11%  Similarity=0.147  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.||||+....       .+....  ....+++++++|+..   +..+  +..++..+......+.|+++|.||+|
T Consensus        50 ~~~~l~Dt~g~~~~~-------~~~~~~--~~~~~~~l~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piivv~nK~D  117 (165)
T cd01865          50 VKLQIWDTAGQERYR-------TITTAY--YRGAMGFILMYDITN---EESFNAVQDWSTQIKTYSWDNAQVILVGNKCD  117 (165)
T ss_pred             EEEEEEECCChHHHH-------HHHHHH--ccCCcEEEEEEECCC---HHHHHHHHHHHHHHHHhCCCCCCEEEEEECcc
Confidence            357899999965311       121211  122467899999863   3333  44454443333334689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ .....                  ..       .++.+..+ ..++++||++|.|++++++.+.+.+.
T Consensus       118 l~~~~-~~~~~------------------~~-------~~~~~~~~-~~~~~~Sa~~~~gv~~l~~~l~~~~~  163 (165)
T cd01865         118 MEDER-VVSSE------------------RG-------RQLADQLG-FEFFEASAKENINVKQVFERLVDIIC  163 (165)
T ss_pred             cCccc-ccCHH------------------HH-------HHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            86533 11100                  00       11112333 37999999999999999999987653

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.19  E-value=3.4e-10  Score=93.49  Aligned_cols=109  Identities=14%  Similarity=0.230  Sum_probs=64.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      ..+.++||||+.+..       .+... ++.   .+.+++++|..   ++..+  +..+...+..+. ..++|.++|+||
T Consensus        48 ~~~~i~D~~g~~~~~-------~~~~~~~~~---~~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK  114 (164)
T cd04139          48 VQLNILDTAGQEDYA-------AIRDNYHRS---GEGFLLVFSIT---DMESFTATAEFREQILRVKDDDNVPLLLVGNK  114 (164)
T ss_pred             EEEEEEECCChhhhh-------HHHHHHhhc---CCEEEEEEECC---CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEc
Confidence            368899999976421       12222 222   24677777765   33332  222322222221 257999999999


Q ss_pred             Cccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+..... .....                           ......++ ..++++||++|+|++++++.+.+.+
T Consensus       115 ~D~~~~~~~~~~~~---------------------------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (164)
T cd04139         115 CDLEDKRQVSSEEA---------------------------ANLARQWG-VPYVETSAKTRQNVEKAFYDLVREI  161 (164)
T ss_pred             cccccccccCHHHH---------------------------HHHHHHhC-CeEEEeeCCCCCCHHHHHHHHHHHH
Confidence            99865220 01100                           01112233 5799999999999999999988765

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.19  E-value=1.1e-09  Score=98.45  Aligned_cols=138  Identities=14%  Similarity=0.195  Sum_probs=81.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+...      .....+.+..   .+.+++++|+...... ...+..      ...+.++|.++++||+|
T Consensus        63 ~~~i~liDTPG~~~f------~~~~~~~l~~---aD~~IlVvd~~~g~~~~~~~~~~------~~~~~~~P~iivvNK~D  127 (237)
T cd04168          63 DTKVNLIDTPGHMDF------IAEVERSLSV---LDGAILVISAVEGVQAQTRILWR------LLRKLNIPTIIFVNKID  127 (237)
T ss_pred             CEEEEEEeCCCccch------HHHHHHHHHH---hCeEEEEEeCCCCCCHHHHHHHH------HHHHcCCCEEEEEECcc
Confidence            568999999998652      1223344544   3578889998754222 222222      23356899999999999


Q ss_pred             cccch-hh----hhhhcC-------------------cchHHHHHHhhhcchh-----------HHHHHHHHHHHHHhcc
Q 023298          193 LVTNK-KE----IEDYLN-------------------PESQFLLSELNQHMAP-----------QFAKLNKSLIELVDEY  237 (284)
Q Consensus       193 ll~~~-~~----l~~~l~-------------------~~~~~l~~~l~~~~~~-----------~~~~l~~~i~~~l~~~  237 (284)
                      +.... .+    +.+.+.                   +-++.|.+.+.+....           ....+...+.+.+..-
T Consensus       128 ~~~a~~~~~~~~i~~~~~~~~~~~~~p~~~~~~~~~~~~~~~l~e~vae~dd~l~e~yl~~~~~~~~el~~~l~~~~~~~  207 (237)
T cd04168         128 RAGADLEKVYQEIKEKLSSDIVPMQKVGLAPNICETNEIDDEFWETLAEGDDELLEKYLEGGPIEELELDNELSARIAKR  207 (237)
T ss_pred             ccCCCHHHHHHHHHHHHCCCeEEEECCcEeeeeeeeeeccHHHHHHHhcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHhC
Confidence            86421 01    111000                   0123344433321111           1234555555555555


Q ss_pred             CCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          238 SMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       238 ~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .+..++.-||.++.|+..|++.|.+++|.
T Consensus       208 ~~~Pv~~gsa~~~~Gv~~ll~~~~~~~p~  236 (237)
T cd04168         208 KVFPVYHGSALKGIGIEELLEGITKLFPT  236 (237)
T ss_pred             CeEEEEEccccCCcCHHHHHHHHHHhcCC
Confidence            45555555999999999999999999874

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PRK11670 antiporter inner membrane protein; Provisional

Probab=99.19  E-value=3.7e-10  Score=107.87  Aligned_cols=38  Identities=11%  Similarity=0.005  Sum_probs=34.3

Q ss_pred             ECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           25 FSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        25 iG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      -|.| +||||++.|||..|++.|+||++||+|||+...+
T Consensus       114 S~KGGVGKTT~avNLA~aLA~~G~rVlLID~D~qgps~~  152 (369)
T PRK11670        114 SGKGGVGKSSTAVNLALALAAEGAKVGILDADIYGPSIP  152 (369)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCCCCcc
Confidence            3446 9999999999999999999999999999998653

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.19  E-value=4e-10  Score=90.93  Aligned_cols=110  Identities=15%  Similarity=0.251  Sum_probs=60.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.++||||+.+..   .......+..      ...++.+|.... .+-..........+......+.|.++|+||+|+
T Consensus        50 ~~~~~~D~~G~~~~~---~~~~~~~~~~------~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  120 (161)
T TIGR00231        50 YKFNLLDTAGQEDYR---AIRRLYYRAV------ESSLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDL  120 (161)
T ss_pred             EEEEEEECCCcccch---HHHHHHHhhh------hEEEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccC
Confidence            467899999965421   1111111111      233444444322 111111112222222222337899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      ....  ....                          ..+.+...+...++|+||.++.|+..+++.|.
T Consensus       121 ~~~~--~~~~--------------------------~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231       121 RDAK--LKTH--------------------------VAFLFAKLNGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             Ccch--hhHH--------------------------HHHHHhhccCCceEEeecCCCCCHHHHHHHhh
Confidence            6532  1111                          12223445556799999999999999998874

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.18  E-value=7e-10  Score=94.42  Aligned_cols=116  Identities=13%  Similarity=0.125  Sum_probs=64.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      +..+.+.||||+...       ..+.+. +..   .++++|++|++...+... ....+..+.... ..+.|+++|.||+
T Consensus        56 ~~~l~l~D~~G~~~~-------~~~~~~~~~~---ad~ii~v~D~t~~~s~~~-~~~~l~~~~~~~~~~~~piilv~NK~  124 (175)
T smart00177       56 NISFTVWDVGGQDKI-------RPLWRHYYTN---TQGLIFVVDSNDRDRIDE-AREELHRMLNEDELRDAVILVFANKQ  124 (175)
T ss_pred             CEEEEEEECCCChhh-------HHHHHHHhCC---CCEEEEEEECCCHHHHHH-HHHHHHHHhhCHhhcCCcEEEEEeCc
Confidence            346899999997541       123222 332   468999999863221111 112221111111 1257999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ...++.        +.+..              ..+. .....++++||++|+|+.++++.|.+.+
T Consensus       125 Dl~~~~-~~~~i~--------~~~~~--------------~~~~-~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      125 DLPDAM-KAAEIT--------EKLGL--------------HSIR-DRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             CcccCC-CHHHHH--------HHhCc--------------cccC-CCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            985321 111111        00000              0001 1124688999999999999999987754

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=99.18  E-value=5.4e-10  Score=108.73  Aligned_cols=43  Identities=12%  Similarity=0.037  Sum_probs=39.8

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+|..++++|++ |||||+|..||.+|.+.|++|++|++|+...
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~  136 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRP  136 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCH
Confidence            468999999999 9999999999999999999999999998653

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.18  E-value=5.7e-10  Score=92.29  Aligned_cols=114  Identities=14%  Similarity=0.142  Sum_probs=64.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH-HHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASL-SAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l-~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+...       ..+... +..   .+++++++|+....+... ....+..+ ......+.|+++|.||+
T Consensus        42 ~~~~~i~D~~G~~~~-------~~~~~~~~~~---~~~~i~v~D~~~~~~~~~-~~~~~~~~~~~~~~~~~piiiv~nK~  110 (158)
T cd00878          42 NVSFTVWDVGGQDKI-------RPLWKHYYEN---TNGIIFVVDSSDRERIEE-AKEELHKLLNEEELKGVPLLIFANKQ  110 (158)
T ss_pred             CEEEEEEECCCChhh-------HHHHHHHhcc---CCEEEEEEECCCHHHHHH-HHHHHHHHHhCcccCCCcEEEEeecc
Confidence            347899999997642       112222 222   468999999974321111 11222111 11123578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+.... ...+..        ..+..               .........++++||++|.|++++++.|.+
T Consensus       111 D~~~~~-~~~~~~--------~~~~~---------------~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         111 DLPGAL-SVSELI--------EKLGL---------------EKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             CCcccc-CHHHHH--------HhhCh---------------hhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            986532 121111        11100               001122468999999999999999988764

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>cd00154 Rab Rab family

Probab=99.18  E-value=1.8e-10  Score=93.76  Aligned_cols=109  Identities=12%  Similarity=0.201  Sum_probs=63.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+...       ..+... +..   .+++++++|+....+ -..+..++..+......+.|.++|+||+|+
T Consensus        49 ~~~~l~D~~g~~~~-------~~~~~~~~~~---~d~ii~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  117 (159)
T cd00154          49 VKLQIWDTAGQERF-------RSITPSYYRG---AHGAILVYDITNRES-FENLDKWLKELKEYAPENIPIILVGNKIDL  117 (159)
T ss_pred             EEEEEEecCChHHH-------HHHHHHHhcC---CCEEEEEEECCCHHH-HHHHHHHHHHHHHhCCCCCcEEEEEEcccc
Confidence            46789999997431       112222 222   468999999864221 112333333222222245899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      ........+..                          .++.... ...++.+|++++.|++++++.|.
T Consensus       118 ~~~~~~~~~~~--------------------------~~~~~~~-~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         118 EDQRQVSTEEA--------------------------QQFAKEN-GLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             cccccccHHHH--------------------------HHHHHHc-CCeEEEEecCCCCCHHHHHHHHh
Confidence            62220111000                          1111222 36799999999999999998875

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>PRK14974 cell division protein FtsY; Provisional

Probab=99.18  E-value=9.7e-10  Score=103.61  Aligned_cols=42  Identities=12%  Similarity=-0.050  Sum_probs=38.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      .+|++++++|++ |||||++.+|+.+|...|++|++++.|+..
T Consensus       138 ~~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R  180 (336)
T PRK14974        138 GKPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFR  180 (336)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCc
Confidence            358899999999 999999999999999999999999999764

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.18  E-value=8.5e-10  Score=106.26  Aligned_cols=38  Identities=13%  Similarity=0.125  Sum_probs=35.0

Q ss_pred             CCceEEEEeccCcccHHH-HHHHHHHhcCCCCCCCCCCC
Q 023298          238 SMVSFMPLDLRKESSIRY-VLSQIDNCIQWGEDADLKIK  275 (284)
Q Consensus       238 ~~~~~ipiSa~~~~~l~~-Ll~~I~~~l~~g~d~~~~~~  275 (284)
                      ++..++|+||+.+.++.. |.+.+.+++|+|+..++.+.
T Consensus       243 ~~~~vvpISA~~e~~l~~~l~~~i~~~lp~~p~~~~~d~  281 (396)
T PRK09602        243 KYYIVVPTSAEAELALRRAAKAGLIDYIPGDSDFEILGE  281 (396)
T ss_pred             CCCcEEEEcchhhhhHHHHHHHhHHhhCCCCCccCcccc
Confidence            567899999999999999 99999999999999998765

>cd04175 Rap1 Rap1 subgroup

Probab=99.18  E-value=3.4e-10  Score=94.33  Aligned_cols=111  Identities=11%  Similarity=0.164  Sum_probs=64.0

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~Dl  193 (284)
                      .+.+.||||+....   .    +.+. ++.   .+++++++|.....+... +..++..+.... ..+.|+++|.||+|+
T Consensus        50 ~l~i~Dt~G~~~~~---~----~~~~~~~~---~d~~ilv~d~~~~~s~~~-~~~~~~~i~~~~~~~~~piilv~nK~Dl  118 (164)
T cd04175          50 MLEILDTAGTEQFT---A----MRDLYMKN---GQGFVLVYSITAQSTFND-LQDLREQILRVKDTEDVPMILVGNKCDL  118 (164)
T ss_pred             EEEEEECCCcccch---h----HHHHHHhh---CCEEEEEEECCCHHHHHH-HHHHHHHHHHhcCCCCCCEEEEEECCcc
Confidence            45689999986422   1    2222 223   246778888753322211 223333222221 246899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .... ....-      .                   ..++.+.++ ..++++||++|.|+++++..|.+.+
T Consensus       119 ~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175         119 EDER-VVGKE------Q-------------------GQNLARQWG-CAFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             hhcc-EEcHH------H-------------------HHHHHHHhC-CEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            6432 11000      0                   001112233 5799999999999999999987654

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.18  E-value=4.3e-10  Score=97.64  Aligned_cols=133  Identities=14%  Similarity=0.193  Sum_probs=81.6

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH--HhcCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM--VQLELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~--~~~~~p~IlVlN  189 (284)
                      +.++.+|||||..+... .......+.+.+. .....++++|++|+..++..+..+...+.   ..  .+.-.++++|++
T Consensus        48 ~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~~t~~d~~~l~~l~---~~fg~~~~~~~ivv~T  124 (196)
T cd01852          48 GRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGRFTEEEEQAVETLQ---ELFGEKVLDHTIVLFT  124 (196)
T ss_pred             CeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCCcCHHHHHHHHHHH---HHhChHhHhcEEEEEE
Confidence            55899999999876432 1123344555443 23446789999998875443433322222   11  122368999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-----CceEEEEeccCcccHHHHHHHHHHhc
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-----MVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-----~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ++|.+... .+++++......                   +..+++..+     |-+..+ |+.++.++.+|++.|++.+
T Consensus       125 ~~d~l~~~-~~~~~~~~~~~~-------------------l~~l~~~c~~r~~~f~~~~~-~~~~~~q~~~Ll~~i~~~~  183 (196)
T cd01852         125 RGDDLEGG-TLEDYLENSCEA-------------------LKRLLEKCGGRYVAFNNKAK-GEEQEQQVKELLAKVESMV  183 (196)
T ss_pred             CccccCCC-cHHHHHHhccHH-------------------HHHHHHHhCCeEEEEeCCCC-cchhHHHHHHHHHHHHHHH
Confidence            99988765 666665422222                   233344432     222334 5778999999999999999


Q ss_pred             CC-CCCC
Q 023298          265 QW-GEDA  270 (284)
Q Consensus       265 ~~-g~d~  270 (284)
                      ++ |+..
T Consensus       184 ~~~~~~~  190 (196)
T cd01852         184 KENGGKP  190 (196)
T ss_pred             HhcCCCC
Confidence            97 5443

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>cd04125 RabA_like RabA-like subfamily

Probab=99.18  E-value=6.3e-10  Score=95.38  Aligned_cols=121  Identities=13%  Similarity=0.165  Sum_probs=72.4

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .+.+.||||+...       ..+.+..  ....+++++++|...   +..|  +..++..+........|.++|.||+|+
T Consensus        50 ~~~i~Dt~g~~~~-------~~~~~~~--~~~~d~iilv~d~~~---~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl  117 (188)
T cd04125          50 KLQIWDTNGQERF-------RSLNNSY--YRGAHGYLLVYDVTD---QESFENLKFWINEINRYARENVIKVIVANKSDL  117 (188)
T ss_pred             EEEEEECCCcHHH-------HhhHHHH--ccCCCEEEEEEECcC---HHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCC
Confidence            5678999996431       1122222  122468899999864   3333  444544444433345899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADLK  273 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~~~  273 (284)
                      .+.. ......                  .       ....+..+ ..++.+||++|.|+++++..+.+.+.........
T Consensus       118 ~~~~-~v~~~~------------------~-------~~~~~~~~-~~~~evSa~~~~~i~~~f~~l~~~~~~~~~~~~~  170 (188)
T cd04125         118 VNNK-VVDSNI------------------A-------KSFCDSLN-IPFFETSAKQSINVEEAFILLVKLIIKRLEEQEL  170 (188)
T ss_pred             cccc-cCCHHH------------------H-------HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHHHHhhcCcC
Confidence            6433 111100                  0       01112233 3799999999999999999888877655444444


Q ss_pred             CC
Q 023298          274 IK  275 (284)
Q Consensus       274 ~~  275 (284)
                      .|
T Consensus       171 ~~  172 (188)
T cd04125         171 SP  172 (188)
T ss_pred             Cc
Confidence            44

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04122 Rab14 Rab14 subfamily

Probab=99.17  E-value=4.2e-10  Score=94.25  Aligned_cols=110  Identities=14%  Similarity=0.190  Sum_probs=66.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++.+.||||+...       ..+.+. ++.   .+++++++|...   +..|  +..++.........+.|.++|.||+
T Consensus        51 ~~l~i~Dt~G~~~~-------~~~~~~~~~~---~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~  117 (166)
T cd04122          51 IKLQIWDTAGQERF-------RAVTRSYYRG---AAGALMVYDITR---RSTYNHLSSWLTDARNLTNPNTVIFLIGNKA  117 (166)
T ss_pred             EEEEEEECCCcHHH-------HHHHHHHhcC---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhCCCCCeEEEEEECc
Confidence            46789999997541       112222 322   467899999863   3433  4444443333333468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ....-      .                   ..+.....+ ..++++||++|+|+++++..+.+.+
T Consensus       118 Dl~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~e~Sa~~~~~i~e~f~~l~~~~  163 (166)
T cd04122         118 DLEAQR-DVTYE------E-------------------AKQFADENG-LLFLECSAKTGENVEDAFLETAKKI  163 (166)
T ss_pred             cccccc-CcCHH------H-------------------HHHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            986433 11000      0                   011112233 5799999999999999988776543

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>cd04154 Arl2 Arl2 subfamily

Probab=99.17  E-value=8.5e-10  Score=93.20  Aligned_cols=112  Identities=15%  Similarity=0.095  Sum_probs=62.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH-HHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL-SAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l-~~~~~~~~p~IlVlNK~  191 (284)
                      +..+.++||||+...       ..+.. .+..   .+++++++|+....+... ...++..+ ......+.|+++|+||+
T Consensus        57 ~~~l~l~D~~G~~~~-------~~~~~~~~~~---~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~p~iiv~nK~  125 (173)
T cd04154          57 GYKLNIWDVGGQKTL-------RPYWRNYFES---TDALIWVVDSSDRLRLDD-CKRELKELLQEERLAGATLLILANKQ  125 (173)
T ss_pred             CEEEEEEECCCCHHH-------HHHHHHHhCC---CCEEEEEEECCCHHHHHH-HHHHHHHHHhChhhcCCCEEEEEECc
Confidence            346789999997541       11212 2322   468999999864321111 11122111 11122578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHH-hccCCceEEEEeccCcccHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELV-DEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l-~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      |+.... ...+..        +.+                +.. .......++++||++|+|+++++..+.
T Consensus       126 Dl~~~~-~~~~~~--------~~~----------------~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  171 (173)
T cd04154         126 DLPGAL-SEEEIR--------EAL----------------ELDKISSHHWRIQPCSAVTGEGLLQGIDWLV  171 (173)
T ss_pred             ccccCC-CHHHHH--------HHh----------------CccccCCCceEEEeccCCCCcCHHHHHHHHh
Confidence            986422 111110        000                000 011235799999999999999998764

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.17  E-value=1.2e-09  Score=94.33  Aligned_cols=118  Identities=16%  Similarity=0.154  Sum_probs=64.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+....      ......+..   .+++++++|+.....+..  ..+   +......+.|.++|+||+|+
T Consensus        64 ~~~~~l~DtpG~~~~~------~~~~~~~~~---~d~~ilV~d~~~~~~~~~--~~~---~~~~~~~~~p~iiv~NK~Dl  129 (194)
T cd01891          64 DTKINIVDTPGHADFG------GEVERVLSM---VDGVLLLVDASEGPMPQT--RFV---LKKALELGLKPIVVINKIDR  129 (194)
T ss_pred             CEEEEEEECCCcHHHH------HHHHHHHHh---cCEEEEEEECCCCccHHH--HHH---HHHHHHcCCCEEEEEECCCC
Confidence            4578999999975411      112222333   367899999865321211  111   11223468999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--CceEEEEeccCcccH----------HHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--MVSFMPLDLRKESSI----------RYVLSQID  261 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~~~~ipiSa~~~~~l----------~~Ll~~I~  261 (284)
                      ....  .....+        ++.        .+   +..+-....  ...++++||++|.|+          .+|++.|+
T Consensus       130 ~~~~--~~~~~~--------~~~--------~~---~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~~~~~~~~~~l~~~~~  188 (194)
T cd01891         130 PDAR--PEEVVD--------EVF--------DL---FIELGATEEQLDFPVLYASAKNGWASLNLEDPSEDLEPLFDTII  188 (194)
T ss_pred             CCCC--HHHHHH--------HHH--------HH---HHHhCCccccCccCEEEeehhccccccccccchhhHHHHHHHHH
Confidence            6422  111110        000        00   000001111  247999999999554          67777777


Q ss_pred             HhcCC
Q 023298          262 NCIQW  266 (284)
Q Consensus       262 ~~l~~  266 (284)
                      ++.|.
T Consensus       189 ~~~~~  193 (194)
T cd01891         189 EHVPA  193 (194)
T ss_pred             hcCCC
Confidence            77663

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>cd00876 Ras Ras family

Probab=99.17  E-value=5.8e-10  Score=91.56  Aligned_cols=111  Identities=15%  Similarity=0.207  Sum_probs=64.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ-LELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~-~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+....       .+.. .+..   .+++++++|.....+-.. +..+...+..... .+.|+++|+||+|
T Consensus        47 ~~~~l~D~~g~~~~~-------~~~~~~~~~---~~~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~p~ivv~nK~D  115 (160)
T cd00876          47 YTLDILDTAGQEEFS-------AMRDLYIRQ---GDGFILVYSITDRESFEE-IKGYREQILRVKDDEDIPIVLVGNKCD  115 (160)
T ss_pred             EEEEEEECCChHHHH-------HHHHHHHhc---CCEEEEEEECCCHHHHHH-HHHHHHHHHHhcCCCCCcEEEEEECCc
Confidence            467899999976521       1222 2333   357888888753221111 2222222222222 4799999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +...+ ....      +                   .+.+....++ ..++++|++++.|+.++++.|.+.
T Consensus       116 ~~~~~-~~~~------~-------------------~~~~~~~~~~-~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876         116 LENER-QVSK------E-------------------EGKALAKEWG-CPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             ccccc-eecH------H-------------------HHHHHHHHcC-CcEEEeccCCCCCHHHHHHHHHhh
Confidence            86522 1100      0                   0011112232 679999999999999999988764

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.17  E-value=5.7e-10  Score=103.35  Aligned_cols=164  Identities=15%  Similarity=0.211  Sum_probs=100.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      ...++|.|+| ||||||..+++.             .+|-...+|++-              ++..+|-           
T Consensus       168 ~pTivVaG~PNVGKSSlv~~lT~-------------AkpEvA~YPFTT--------------K~i~vGh-----------  209 (346)
T COG1084         168 LPTIVVAGYPNVGKSSLVRKLTT-------------AKPEVAPYPFTT--------------KGIHVGH-----------  209 (346)
T ss_pred             CCeEEEecCCCCcHHHHHHHHhc-------------CCCccCCCCccc--------------cceeEee-----------
Confidence            4559999999 999999999998             788887666631              1222331           


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHH----HHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNF----VDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCM  171 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l----~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l  171 (284)
                                 ++ ++...+=+|||||...  ..-...+.+    +-+|.-  ...+|+|++|++..  .+....++ ++
T Consensus       210 -----------fe-~~~~R~QvIDTPGlLD--RPl~ErN~IE~qAi~AL~h--l~~~IlF~~D~Se~cgy~lE~Q~~-L~  272 (346)
T COG1084         210 -----------FE-RGYLRIQVIDTPGLLD--RPLEERNEIERQAILALRH--LAGVILFLFDPSETCGYSLEEQIS-LL  272 (346)
T ss_pred             -----------ee-cCCceEEEecCCcccC--CChHHhcHHHHHHHHHHHH--hcCeEEEEEcCccccCCCHHHHHH-HH
Confidence                       01 1123577899999875  222222223    222322  24689999999742  34444332 22


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES  251 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~  251 (284)
                      ..+.  ...+.|++.|+||+|....+ .+++.-                           ..+...+....+-+++..+.
T Consensus       273 ~eIk--~~f~~p~v~V~nK~D~~~~e-~~~~~~---------------------------~~~~~~~~~~~~~~~~~~~~  322 (346)
T COG1084         273 EEIK--ELFKAPIVVVINKIDIADEE-KLEEIE---------------------------ASVLEEGGEEPLKISATKGC  322 (346)
T ss_pred             HHHH--HhcCCCeEEEEecccccchh-HHHHHH---------------------------HHHHhhccccccceeeeehh
Confidence            2211  23558999999999987543 333221                           11122334556778899999


Q ss_pred             cHHHHHHHHHHhcCCC
Q 023298          252 SIRYVLSQIDNCIQWG  267 (284)
Q Consensus       252 ~l~~Ll~~I~~~l~~g  267 (284)
                      +++.+-..+.+...++
T Consensus       323 ~~d~~~~~v~~~a~~~  338 (346)
T COG1084         323 GLDKLREEVRKTALEP  338 (346)
T ss_pred             hHHHHHHHHHHHhhch
Confidence            9998888887774444

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.17  E-value=5.3e-10  Score=97.14  Aligned_cols=114  Identities=16%  Similarity=0.235  Sum_probs=69.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH----hcCCCEEEE
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV----QLELPHVNI  187 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~----~~~~p~IlV  187 (284)
                      ..+.+.||||+.. +      ..+.+. +..   .+++++++|..   ++..|  +..++..+....    ..+.|+++|
T Consensus        50 ~~l~l~Dt~G~~~-~------~~~~~~~~~~---a~~~ilv~D~t---~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv  116 (201)
T cd04107          50 VRLQLWDIAGQER-F------GGMTRVYYRG---AVGAIIVFDVT---RPSTFEAVLKWKADLDSKVTLPNGEPIPCLLL  116 (201)
T ss_pred             EEEEEEECCCchh-h------hhhHHHHhCC---CCEEEEEEECC---CHHHHHHHHHHHHHHHHhhcccCCCCCcEEEE
Confidence            3678999999743 1      112222 222   36789999975   34443  222332222211    246899999


Q ss_pred             ecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          188 LSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       188 lNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      .||+|+.... ....                         ..+.++...+++..++++||++|.|++++++.+.+.+-..
T Consensus       117 ~NK~Dl~~~~-~~~~-------------------------~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~  170 (201)
T cd04107         117 ANKCDLKKRL-AKDG-------------------------EQMDQFCKENGFIGWFETSAKEGINIEEAMRFLVKNILAN  170 (201)
T ss_pred             EECCCccccc-ccCH-------------------------HHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            9999986322 1100                         0012233455667899999999999999999998776543

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.17  E-value=4.1e-10  Score=93.21  Aligned_cols=114  Identities=15%  Similarity=0.114  Sum_probs=62.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.||||+...       ..+.. .+..   .++++|++|+....+... +...+..+.. ....+.|+++|+||+|
T Consensus        44 ~~l~i~D~~G~~~~-------~~~~~~~~~~---~~~iv~v~D~~~~~~~~~-~~~~~~~~~~~~~~~~~piilv~nK~D  112 (160)
T cd04156          44 LSLTVWDVGGQEKM-------RTVWKCYLEN---TDGLVYVVDSSDEARLDE-SQKELKHILKNEHIKGVPVVLLANKQD  112 (160)
T ss_pred             eEEEEEECCCCHhH-------HHHHHHHhcc---CCEEEEEEECCcHHHHHH-HHHHHHHHHhchhhcCCCEEEEEECcc
Confidence            46899999997541       11212 2322   467899999864321111 2222221111 1114789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      +.... ...+..        ..+..             .++ .......++++||++|+|++++++.|.+
T Consensus       113 l~~~~-~~~~i~--------~~~~~-------------~~~-~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         113 LPGAL-TAEEIT--------RRFKL-------------KKY-CSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             cccCc-CHHHHH--------HHcCC-------------ccc-CCCCcEEEEecccccCCChHHHHHHHhc
Confidence            85321 111110        00000             000 1111246899999999999999998854

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=99.17  E-value=5.3e-10  Score=99.42  Aligned_cols=150  Identities=17%  Similarity=0.199  Sum_probs=83.9

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecCcCCCC---CCCCcc----ccccccc------------------
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLDPAAEN---FDYPVA----MDIRELI------------------   73 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq~~~---~~~~~~----~dir~~i------------------   73 (284)
                      .+.|.|.| |||||++..|+..+.. .|++|++||.||..+.   +..+..    -+.|+++                  
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVDaDpd~nL~~~LGve~~~~~lg~~~e~~~k~~~a~~~~~~~~~fk~   81 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVDADPDSNLPEALGVEEPMKYLGGKRELLKKRTGAEPGGPPGEMFKE   81 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEEEeCCCCCChHHhcCCCCCCcccccHHHHHHHHhccCCCCCccccccc
Confidence            37899999 9999999996666555 5699999999995542   111110    0122211                  


Q ss_pred             --cHHHHhhhcCc-ccC------------chhhhh-hHhhhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchH
Q 023298           74 --SLEDVMEELGL-GPN------------GGLIYC-MEHLEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVL  135 (284)
Q Consensus        74 --~~~~vm~~~~l-gPn------------g~l~~~-~e~~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~  135 (284)
                        .+.+++.++.. .|+            |.-=+| |..       |+++-|+...  ++++|++||=..+|-|.+..  
T Consensus        82 ~~~~~di~~e~~~e~~~~~LLvmGkie~~GeGC~Cp~~a-------llR~~l~~l~~~~~e~VivDtEAGiEHfgRg~--  152 (255)
T COG3640          82 NPLVSDLPDEYLVENGDIDLLVMGKIEEGGEGCACPMNA-------LLRRLLRHLILNRYEVVIVDTEAGIEHFGRGT--  152 (255)
T ss_pred             CcchhhhhHHHhhhcCCccEEEeccccCCCCcccchHHH-------HHHHHHHHHhcccCcEEEEecccchhhhcccc--
Confidence              12222221111 011            111112 222       3333333222  58999999999887443211  


Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcC-CCEEEEecCCccc
Q 023298          136 RNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLE-LPHVNILSKMDLV  194 (284)
Q Consensus       136 ~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~Dll  194 (284)
                            .+.   .++++.++|++.- ....+.+..+      ...++ +++.+|+||+|--
T Consensus       153 ------~~~---vD~vivVvDpS~~sl~taeri~~L------~~elg~k~i~~V~NKv~e~  198 (255)
T COG3640         153 ------IEG---VDLVIVVVDPSYKSLRTAERIKEL------AEELGIKRIFVVLNKVDEE  198 (255)
T ss_pred             ------ccC---CCEEEEEeCCcHHHHHHHHHHHHH------HHHhCCceEEEEEeeccch
Confidence                  222   4678889998643 2223323222      22567 8999999999853

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.17  E-value=5.6e-10  Score=112.96  Aligned_cols=114  Identities=13%  Similarity=0.099  Sum_probs=71.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHHHHhcCCCE-EEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSAMVQLELPH-VNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~~~~~~~p~-IlVlNK~D  192 (284)
                      ..+.|+||||+-.      ..+.|...+..   .+++++++|+...-.+... ...      .+...+.|. |+|+||+|
T Consensus        51 ~~i~~IDtPGhe~------fi~~m~~g~~~---~D~~lLVVda~eg~~~qT~ehl~------il~~lgi~~iIVVlNKiD  115 (614)
T PRK10512         51 RVLGFIDVPGHEK------FLSNMLAGVGG---IDHALLVVACDDGVMAQTREHLA------ILQLTGNPMLTVALTKAD  115 (614)
T ss_pred             cEEEEEECCCHHH------HHHHHHHHhhc---CCEEEEEEECCCCCcHHHHHHHH------HHHHcCCCeEEEEEECCc
Confidence            3578999999632      12233333322   4688999998754333322 211      223456775 79999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--CceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--MVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +++++ .+....                       ..+.+.+...+  ...++|+||.+|+|++.|++.|.+..+..
T Consensus       116 lv~~~-~~~~v~-----------------------~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~~~~~  168 (614)
T PRK10512        116 RVDEA-RIAEVR-----------------------RQVKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQLPERE  168 (614)
T ss_pred             cCCHH-HHHHHH-----------------------HHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHhhccc
Confidence            97533 332221                       11223334444  36799999999999999999999876654

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.16  E-value=5.9e-10  Score=95.71  Aligned_cols=118  Identities=14%  Similarity=0.124  Sum_probs=65.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHH-HHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFV-DHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~-~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlN  189 (284)
                      +.++.++||||+...       ..+. ..+..   .+.++|++|++.   +..+  ....+..+... ...+.|+++|+|
T Consensus        60 ~~~~~~~D~~G~~~~-------~~~~~~~~~~---ad~ii~vvD~~~---~~~~~~~~~~l~~l~~~~~~~~~piliv~N  126 (184)
T smart00178       60 NIKFTTFDLGGHQQA-------RRLWKDYFPE---VNGIVYLVDAYD---KERFAESKRELDALLSDEELATVPFLILGN  126 (184)
T ss_pred             CEEEEEEECCCCHHH-------HHHHHHHhCC---CCEEEEEEECCc---HHHHHHHHHHHHHHHcChhhcCCCEEEEEe
Confidence            347899999997541       1121 22322   468999999863   3332  11122211111 124789999999


Q ss_pred             CCccccc--hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          190 KMDLVTN--KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       190 K~Dll~~--~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      |+|+...  ..++.+.+.-         .+...        .  ..-.......++++||++|+|++++++.+.+.
T Consensus       127 K~Dl~~~~~~~~i~~~l~l---------~~~~~--------~--~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      127 KIDAPYAASEDELRYALGL---------TNTTG--------S--KGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             CccccCCCCHHHHHHHcCC---------Ccccc--------c--ccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence            9998431  1122222210         00000        0  00002235679999999999999999988653

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd01866 Rab2 Rab2 subfamily

Probab=99.15  E-value=7.5e-10  Score=93.09  Aligned_cols=110  Identities=15%  Similarity=0.168  Sum_probs=65.9

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ++.+.||||+.+.       ..+.+..-  ...+++++++|+..   +..+  +..++..+......+.|+++|.||+|+
T Consensus        54 ~~~i~Dt~G~~~~-------~~~~~~~~--~~~d~il~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl  121 (168)
T cd01866          54 KLQIWDTAGQESF-------RSITRSYY--RGAAGALLVYDITR---RETFNHLTSWLEDARQHSNSNMTIMLIGNKCDL  121 (168)
T ss_pred             EEEEEECCCcHHH-------HHHHHHHh--ccCCEEEEEEECCC---HHHHHHHHHHHHHHHHhCCCCCcEEEEEECccc
Confidence            6789999996431       11222221  22467999999863   3333  334443322222246899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..+. ....-      .                   ...+....+ ..++++||++++|+++++..+.+.+
T Consensus       122 ~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~e~Sa~~~~~i~~~~~~~~~~~  165 (168)
T cd01866         122 ESRR-EVSYE------E-------------------GEAFAKEHG-LIFMETSAKTASNVEEAFINTAKEI  165 (168)
T ss_pred             cccc-CCCHH------H-------------------HHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            6432 11000      0                   011112232 5799999999999999998887665

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.15  E-value=7.2e-10  Score=114.70  Aligned_cols=117  Identities=16%  Similarity=0.220  Sum_probs=74.1

Q ss_pred             CCCEEEEeCCCCcccccc---cchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTH---VPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~---~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||+......   ....+++.+........+++++++|+....+. .++      ...+.+.++|+++|+||
T Consensus        49 ~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler~-l~l------~~ql~e~giPvIvVlNK  121 (772)
T PRK09554         49 DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERN-LYL------TLQLLELGIPCIVALNM  121 (772)
T ss_pred             ceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchhh-HHH------HHHHHHcCCCEEEEEEc
Confidence            457899999998764321   12234443332122335789999999764321 211      22345678999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+.+++ ....-.                          .++-+.++ ..++|+||.+|+|+++|.+.+.+..+
T Consensus       122 ~Dl~~~~-~i~id~--------------------------~~L~~~LG-~pVvpiSA~~g~GIdeL~~~I~~~~~  168 (772)
T PRK09554        122 LDIAEKQ-NIRIDI--------------------------DALSARLG-CPVIPLVSTRGRGIEALKLAIDRHQA  168 (772)
T ss_pred             hhhhhcc-CcHHHH--------------------------HHHHHHhC-CCEEEEEeecCCCHHHHHHHHHHhhh
Confidence            9986433 221100                          01112233 58999999999999999999998764

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=99.15  E-value=2e-09  Score=94.45  Aligned_cols=43  Identities=16%  Similarity=0.114  Sum_probs=36.8

Q ss_pred             CceEEEEECC-C-CcHHHHHHHHHHHHHh-cCCceEEEecCcCCCC
Q 023298           18 ALVIKCVFSP-P-PNQSTYCSSLYRHCET-VRRTMHIVNLDPAAEN   60 (284)
Q Consensus        18 ~~~~~~viG~-~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq~~~   60 (284)
                      +.+.+.|+|+ | +||||++.+||.+|++ .|+||++||+|||...
T Consensus        34 ~~~vi~v~s~kgG~GkSt~a~nLA~~la~~~g~~VLlvD~D~~~~~   79 (207)
T TIGR03018        34 NNNLIMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDADLRRPS   79 (207)
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHHHHhcCCeEEEEECCCCChh
Confidence            3456777765 6 9999999999999997 6999999999999853

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>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=99.14  E-value=1.4e-09  Score=92.29  Aligned_cols=39  Identities=10%  Similarity=0.057  Sum_probs=36.4

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +++++|++ |||||++.+++..+++.|.+|++||+|++..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~~   41 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRP   41 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCh
Confidence            57899999 9999999999999999999999999999754

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.

>cd04127 Rab27A Rab27a subfamily

Probab=99.14  E-value=5.7e-10  Score=94.37  Aligned_cols=111  Identities=14%  Similarity=0.229  Sum_probs=65.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      ..+-++||||+-+.       ..+.+..-  ...+++++++|+.   ++..|  +..++..+.... ..+.|+++|.||+
T Consensus        63 ~~~~i~Dt~G~~~~-------~~~~~~~~--~~~~~~i~v~d~~---~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~  130 (180)
T cd04127          63 IHLQLWDTAGQERF-------RSLTTAFF--RDAMGFLLIFDLT---NEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKA  130 (180)
T ss_pred             EEEEEEeCCChHHH-------HHHHHHHh--CCCCEEEEEEECC---CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCc
Confidence            46789999996431       11222221  1246789999986   34444  333333222211 1367999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+...+ ....-                         ...++.+.++ ..++++||++|.|++++++.+.+.+
T Consensus       131 Dl~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~e~Sak~~~~v~~l~~~l~~~~  176 (180)
T cd04127         131 DLEDQR-QVSEE-------------------------QAKALADKYG-IPYFETSAATGTNVEKAVERLLDLV  176 (180)
T ss_pred             cchhcC-ccCHH-------------------------HHHHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            986432 11100                         0011123333 4789999999999999999987643

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd04109 Rab28 Rab28 subfamily

Probab=99.14  E-value=7.7e-10  Score=97.37  Aligned_cols=112  Identities=13%  Similarity=0.158  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh---cCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ---LELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~---~~~p~IlVl  188 (284)
                      ..+.+.||||+...       ..+... +..   .+++++++|+...   ..|  +..++..+.....   .+.|+++|.
T Consensus        50 ~~~~i~Dt~G~~~~-------~~l~~~~~~~---ad~iilV~D~t~~---~s~~~~~~w~~~l~~~~~~~~~~~piilVg  116 (215)
T cd04109          50 VTLQVWDIGGQSIG-------GKMLDKYIYG---AHAVFLVYDVTNS---QSFENLEDWYSMVRKVLKSSETQPLVVLVG  116 (215)
T ss_pred             EEEEEEECCCcHHH-------HHHHHHHhhc---CCEEEEEEECCCH---HHHHHHHHHHHHHHHhccccCCCceEEEEE
Confidence            36789999997431       123222 222   4689999998643   333  3334333332221   245789999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ||+|+...+ ....-                  ..       .++...++ ..++++||++|+|++++++.+.+.+..
T Consensus       117 NK~DL~~~~-~v~~~------------------~~-------~~~~~~~~-~~~~~iSAktg~gv~~lf~~l~~~l~~  167 (215)
T cd04109         117 NKTDLEHNR-TVKDD------------------KH-------ARFAQANG-MESCLVSAKTGDRVNLLFQQLAAELLG  167 (215)
T ss_pred             ECccccccc-ccCHH------------------HH-------HHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            999986432 11000                  00       11223344 468899999999999999999887653

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>PRK13236 nitrogenase reductase; Reviewed

Probab=99.14  E-value=1.3e-10  Score=107.60  Aligned_cols=45  Identities=16%  Similarity=0.181  Sum_probs=41.0

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      ..+.+.|.|.| |||||++.|||..|++.|+||++||+|||.+.+.
T Consensus         5 ~~~~~~~~GKGGVGKTt~a~NLA~~La~~G~rVLliD~D~q~~~~~   50 (296)
T PRK13236          5 NIRQIAFYGKGGIGKSTTSQNTLAAMAEMGQRILIVGCDPKADSTR   50 (296)
T ss_pred             CceEEEEECCCcCCHHHHHHHHHHHHHHCCCcEEEEEccCCCCccc
Confidence            34667889999 9999999999999999999999999999998654

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.13  E-value=7e-10  Score=107.15  Aligned_cols=113  Identities=23%  Similarity=0.334  Sum_probs=65.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCC-CEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLEL-PHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~-p~IlVlNK~  191 (284)
                      +.++.|+||||+..      ....+...+..   .+++++++|+...-.+. .-...+      ....+. +.|+|+||+
T Consensus        79 ~~~~~liDtPGh~~------f~~~~~~~~~~---aD~allVVda~~G~~~qt~~~~~~------~~~~~~~~iivviNK~  143 (406)
T TIGR02034        79 KRKFIVADTPGHEQ------YTRNMATGAST---ADLAVLLVDARKGVLEQTRRHSYI------ASLLGIRHVVLAVNKM  143 (406)
T ss_pred             CeEEEEEeCCCHHH------HHHHHHHHHhh---CCEEEEEEECCCCCccccHHHHHH------HHHcCCCcEEEEEEec
Confidence            55899999999533      23334444433   46899999997542222 112111      113344 578899999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHH------------HH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRY------------VL  257 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~------------Ll  257 (284)
                      |+.....+..+                      .....+.+++..+++  ..++|+||.+|+|+.+            |+
T Consensus       144 D~~~~~~~~~~----------------------~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~~~~~~wy~g~tL~  201 (406)
T TIGR02034       144 DLVDYDEEVFE----------------------NIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVSRSESMPWYSGPTLL  201 (406)
T ss_pred             ccccchHHHHH----------------------HHHHHHHHHHHHcCCCCccEEEeecccCCCCcccccCCCccchhHHH
Confidence            98742211110                      111112233344444  4699999999999875            66


Q ss_pred             HHHHHh
Q 023298          258 SQIDNC  263 (284)
Q Consensus       258 ~~I~~~  263 (284)
                      +.++..
T Consensus       202 ~~L~~~  207 (406)
T TIGR02034       202 EILETV  207 (406)
T ss_pred             HHHHhc
Confidence            777654

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>cd04116 Rab9 Rab9 subfamily

Probab=99.13  E-value=4.5e-10  Score=94.14  Aligned_cols=110  Identities=10%  Similarity=0.180  Sum_probs=62.4

Q ss_pred             CEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH----hcCCCEEEEecC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV----QLELPHVNILSK  190 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~----~~~~p~IlVlNK  190 (284)
                      .+.|.||||+...       ..+.. .++.   .+++++++|.....+... +..+...+....    ..+.|.++|.||
T Consensus        55 ~l~i~D~~G~~~~-------~~~~~~~~~~---~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~~~piilv~nK  123 (170)
T cd04116          55 TLQIWDTAGQERF-------RSLRTPFYRG---SDCCLLTFAVDDSQSFQN-LSNWKKEFIYYADVKEPESFPFVVLGNK  123 (170)
T ss_pred             EEEEEeCCChHHH-------HHhHHHHhcC---CCEEEEEEECCCHHHHHh-HHHHHHHHHHhcccccCCCCcEEEEEEC
Confidence            5678899997531       11222 2322   345666666643211111 222322222221    245799999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +|+..+.  ...                         ..+.++.++++...++++||++|+|+.++++.+.+.
T Consensus       124 ~Dl~~~~--~~~-------------------------~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         124 NDIPERQ--VST-------------------------EEAQAWCRENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             ccccccc--cCH-------------------------HHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            9985322  100                         001122345555689999999999999999988754

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=99.13  E-value=1.4e-09  Score=101.78  Aligned_cols=43  Identities=19%  Similarity=0.154  Sum_probs=37.9

Q ss_pred             ceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           19 LVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        19 ~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .+++.|+|. | |||||++.|||..|++.|++|++||+|||.+..
T Consensus        93 ~~vIav~~~KGGvGkTT~a~nLA~~la~~g~~VlLvD~D~~~~~~  137 (322)
T TIGR03815        93 GVVVAVIGGRGGAGASTLAAALALAAARHGLRTLLVDADPWGGGL  137 (322)
T ss_pred             ceEEEEEcCCCCCcHHHHHHHHHHHHHhcCCCEEEEecCCCCCCe
Confidence            455777765 6 999999999999999999999999999998854

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>cd04123 Rab21 Rab21 subfamily

Probab=99.13  E-value=1.3e-09  Score=89.63  Aligned_cols=111  Identities=13%  Similarity=0.152  Sum_probs=65.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .+.++||||+....       .+... +..   .+++++++|.....+.. .+..++..+......++|.++|+||+|+.
T Consensus        50 ~~~~~D~~g~~~~~-------~~~~~~~~~---~~~~i~v~d~~~~~s~~-~~~~~~~~i~~~~~~~~piiiv~nK~D~~  118 (162)
T cd04123          50 DLAIWDTAGQERYH-------ALGPIYYRD---ADGAILVYDITDADSFQ-KVKKWIKELKQMRGNNISLVIVGNKIDLE  118 (162)
T ss_pred             EEEEEECCchHHHH-------HhhHHHhcc---CCEEEEEEECCCHHHHH-HHHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence            57899999975421       12222 222   46789999975332111 12333333333333368999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .+. .+..-                         .+.+....++ ..++++|++++.|++++++.+.+.+
T Consensus       119 ~~~-~~~~~-------------------------~~~~~~~~~~-~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         119 RQR-VVSKS-------------------------EAEEYAKSVG-AKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             ccc-CCCHH-------------------------HHHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            432 11100                         0011112222 5688999999999999999987643

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>cd04149 Arf6 Arf6 subfamily

Probab=99.13  E-value=8.6e-10  Score=93.35  Aligned_cols=112  Identities=14%  Similarity=0.113  Sum_probs=62.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~  191 (284)
                      +..+.+.||||+...       ..+.. .+..   .++++|++|+....+.... ...+..+.. -...+.|+++|.||+
T Consensus        52 ~~~~~l~Dt~G~~~~-------~~~~~~~~~~---a~~ii~v~D~t~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~  120 (168)
T cd04149          52 NVKFNVWDVGGQDKI-------RPLWRHYYTG---TQGLIFVVDSADRDRIDEA-RQELHRIINDREMRDALLLVFANKQ  120 (168)
T ss_pred             CEEEEEEECCCCHHH-------HHHHHHHhcc---CCEEEEEEeCCchhhHHHH-HHHHHHHhcCHhhcCCcEEEEEECc
Confidence            346899999997541       11212 2322   4689999998643222221 122111111 011358999999999


Q ss_pred             ccccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          192 DLVTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       192 Dll~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+....  .++.+++.         +.               +  .......++++||++|+|++++++.|.+
T Consensus       121 Dl~~~~~~~~i~~~~~---------~~---------------~--~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         121 DLPDAMKPHEIQEKLG---------LT---------------R--IRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             CCccCCCHHHHHHHcC---------CC---------------c--cCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            985321  02222211         00               0  0011246899999999999999988753

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

Probab=99.13  E-value=1.1e-09  Score=96.84  Aligned_cols=38  Identities=13%  Similarity=0.116  Sum_probs=36.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +++.|.| +||||++.+++.++++.|+||++||+||+.+
T Consensus         2 ~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~d~~~~   40 (217)
T cd02035           2 IFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVSTDPAHN   40 (217)
T ss_pred             EEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEECCCCcc
Confidence            6889999 9999999999999999999999999999995

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.13  E-value=5.9e-10  Score=94.16  Aligned_cols=120  Identities=12%  Similarity=0.105  Sum_probs=66.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--H-HHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--I-SGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i-~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+.+....+.        . .....+++++++|...   +..|  + ..++..+.. ...+.|+++|.||+
T Consensus        48 ~~~~i~Dt~G~~~~~~~~~--------~-~~~~a~~~i~v~d~~~---~~sf~~~~~~~~~~~~~-~~~~~piilv~nK~  114 (173)
T cd04130          48 VRLQLCDTAGQDEFDKLRP--------L-CYPDTDVFLLCFSVVN---PSSFQNISEKWIPEIRK-HNPKAPIILVGTQA  114 (173)
T ss_pred             EEEEEEECCCChhhccccc--------c-ccCCCcEEEEEEECCC---HHHHHHHHHHHHHHHHh-hCCCCCEEEEeeCh
Confidence            3678999999855322111        1 1122468899999863   3333  2 123322221 12368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      |+......+..+.......    +.          .....++.+.++...++++||++|.|++++++.+.
T Consensus       115 Dl~~~~~~~~~~~~~~~~~----v~----------~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~  170 (173)
T cd04130         115 DLRTDVNVLIQLARYGEKP----VS----------QSRAKALAEKIGACEYIECSALTQKNLKEVFDTAI  170 (173)
T ss_pred             hhccChhHHHHHhhcCCCC----cC----------HHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHH
Confidence            9865431111111100000    00          00111222445666899999999999999998764

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>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=99.13  E-value=6.7e-10  Score=97.21  Aligned_cols=152  Identities=14%  Similarity=0.140  Sum_probs=79.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      |+.++++||. |||||++.-||.++..+|++|.+|.+|...-.-       +..+-++.++|   ++ |--..-..    
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga-------~eQL~~~a~~l---~v-p~~~~~~~----   65 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGA-------VEQLKTYAEIL---GV-PFYVARTE----   65 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHH-------HHHHHHHHHHH---TE-EEEESSTT----
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccH-------HHHHHHHHHHh---cc-ccchhhcc----
Confidence            7889999999 999999999999999889999999999876420       11111122221   11 10000000    


Q ss_pred             hhcHHHHHHHHhhcc--CCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNY--LDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLS  175 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~--~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~  175 (284)
                       ..-.+.+.+.+++.  .++++|+|||||....  .......|.+.+.... .+-+.+++++....+.-..+.       
T Consensus        66 -~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~--d~~~~~el~~~~~~~~-~~~~~LVlsa~~~~~~~~~~~-------  134 (196)
T PF00448_consen   66 -SDPAEIAREALEKFRKKGYDLVLIDTAGRSPR--DEELLEELKKLLEALN-PDEVHLVLSATMGQEDLEQAL-------  134 (196)
T ss_dssp             -SCHHHHHHHHHHHHHHTTSSEEEEEE-SSSST--HHHHHHHHHHHHHHHS-SSEEEEEEEGGGGGHHHHHHH-------
T ss_pred             -hhhHHHHHHHHHHHhhcCCCEEEEecCCcchh--hHHHHHHHHHHhhhcC-CccceEEEecccChHHHHHHH-------
Confidence             00001122222211  1579999999997652  1222333433333222 345777888754322111111       


Q ss_pred             HHHhcCCCEEEEecCCccccc
Q 023298          176 AMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       176 ~~~~~~~p~IlVlNK~Dll~~  196 (284)
                      ...+.-.+.=++++|.|-..+
T Consensus       135 ~~~~~~~~~~lIlTKlDet~~  155 (196)
T PF00448_consen  135 AFYEAFGIDGLILTKLDETAR  155 (196)
T ss_dssp             HHHHHSSTCEEEEESTTSSST
T ss_pred             HHhhcccCceEEEEeecCCCC
Confidence            111222345677999997653

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 ....

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.13  E-value=4.8e-10  Score=108.06  Aligned_cols=158  Identities=18%  Similarity=0.221  Sum_probs=103.0

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEH   96 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~   96 (284)
                      |.+ ++++|+| ||||+|-..|+.      +..++|--=|+.+          ||.+      ++               
T Consensus       217 G~k-vvIiG~PNvGKSSLLNaL~~------~d~AIVTdI~GTT----------RDvi------ee---------------  258 (454)
T COG0486         217 GLK-VVIIGRPNVGKSSLLNALLG------RDRAIVTDIAGTT----------RDVI------EE---------------  258 (454)
T ss_pred             Cce-EEEECCCCCcHHHHHHHHhc------CCceEecCCCCCc----------cceE------EE---------------
Confidence            444 8999999 999999998887      5555554333332          1211      10               


Q ss_pred             hhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHH
Q 023298           97 LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMAS  173 (284)
Q Consensus        97 ~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~  173 (284)
                         .+      .+.   +..+-++||.|.-|.   ....+++  -++.+++..+++++|++|++.. ...+..+..    
T Consensus       259 ---~i------~i~---G~pv~l~DTAGiRet---~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~~~----  319 (454)
T COG0486         259 ---DI------NLN---GIPVRLVDTAGIRET---DDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLALIE----  319 (454)
T ss_pred             ---EE------EEC---CEEEEEEecCCcccC---ccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHHHH----
Confidence               00      122   557899999998762   2334443  4444444446899999999864 222222211    


Q ss_pred             HHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccH
Q 023298          174 LSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSI  253 (284)
Q Consensus       174 l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l  253 (284)
                         ....++|+++|+||+|+..+. .....                               +...-..++++|+++|+|+
T Consensus       320 ---~~~~~~~~i~v~NK~DL~~~~-~~~~~-------------------------------~~~~~~~~i~iSa~t~~Gl  364 (454)
T COG0486         320 ---LLPKKKPIIVVLNKADLVSKI-ELESE-------------------------------KLANGDAIISISAKTGEGL  364 (454)
T ss_pred             ---hcccCCCEEEEEechhccccc-ccchh-------------------------------hccCCCceEEEEecCccCH
Confidence               235679999999999998654 21111                               0111236899999999999


Q ss_pred             HHHHHHHHHhcCCC
Q 023298          254 RYVLSQIDNCIQWG  267 (284)
Q Consensus       254 ~~Ll~~I~~~l~~g  267 (284)
                      +.|.++|.+.++.+
T Consensus       365 ~~L~~~i~~~~~~~  378 (454)
T COG0486         365 DALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999999999887

>PRK10867 signal recognition particle protein; Provisional

Probab=99.12  E-value=7.3e-10  Score=107.65  Aligned_cols=43  Identities=9%  Similarity=0.086  Sum_probs=39.8

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq~~   59 (284)
                      .+|.+++++|++ |||||+|.+||.+|... |++|++|++|++..
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~  142 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRP  142 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccch
Confidence            358899999999 99999999999999998 99999999999765

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.12  E-value=1.5e-09  Score=88.46  Aligned_cols=113  Identities=18%  Similarity=0.207  Sum_probs=62.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH-HHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS-LSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~-l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+...       ..+.. .+..   .+++++++|+....+... ....+.. +......++|+++|+||+|
T Consensus        44 ~~~~~~D~~g~~~~-------~~~~~~~~~~---~d~ii~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~p~iiv~nK~D  112 (159)
T cd04159          44 VTLKVWDLGGQPRF-------RSMWERYCRG---VNAIVYVVDAADRTALEA-AKNELHDLLEKPSLEGIPLLVLGNKND  112 (159)
T ss_pred             EEEEEEECCCCHhH-------HHHHHHHHhc---CCEEEEEEECCCHHHHHH-HHHHHHHHHcChhhcCCCEEEEEeCcc
Confidence            36789999997431       11222 2322   467899999864321111 1111111 1111124789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      +.... ......+        .+..              .. .......++++|+++|.|++.+++.|.+
T Consensus       113 ~~~~~-~~~~~~~--------~~~~--------------~~-~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         113 LPGAL-SVDELIE--------QMNL--------------KS-ITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             ccCCc-CHHHHHH--------HhCc--------------cc-ccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            86533 2211110        0000              00 0012257899999999999999998864

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.12  E-value=8.3e-10  Score=93.52  Aligned_cols=114  Identities=13%  Similarity=0.114  Sum_probs=64.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+.+..       .+... +..   .+.+++++|.....+. ..+..+...+.. ....+.|+++|.||+|
T Consensus        49 ~~~~l~D~~g~~~~~-------~~~~~~~~~---~~~~i~v~d~~~~~~~-~~~~~~~~~~~~~~~~~~~p~ilv~NK~D  117 (180)
T cd04137          49 YHLEIVDTAGQDEYS-------ILPQKYSIG---IHGYILVYSVTSRKSF-EVVKVIYDKILDMLGKESVPIVLVGNKSD  117 (180)
T ss_pred             EEEEEEECCChHhhH-------HHHHHHHhh---CCEEEEEEECCCHHHH-HHHHHHHHHHHHhcCCCCCCEEEEEEchh
Confidence            467899999975411       11111 222   2457777887643211 112222222222 1234689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +...+ .....      .                   +..+...++ ..++++||+++.|+.+++..+.+.+..
T Consensus       118 l~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (180)
T cd04137         118 LHTQR-QVSTE------E-------------------GKELAESWG-AAFLESSARENENVEEAFELLIEEIEK  164 (180)
T ss_pred             hhhcC-ccCHH------H-------------------HHHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            85422 11100      0                   001112233 578999999999999999998876543

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.12  E-value=8.7e-10  Score=93.56  Aligned_cols=112  Identities=13%  Similarity=0.057  Sum_probs=61.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH--HHHHHHHHHHH-hcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI--SGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i--~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      +.++.++||||+.+..      ......++.   .++++|++|++..   ..+-  ...+..+.... ..+.|+++|+||
T Consensus        58 ~~~~~l~D~~G~~~~~------~~~~~~~~~---~d~vi~V~D~s~~---~~~~~~~~~l~~~~~~~~~~~~p~viv~NK  125 (174)
T cd04153          58 NIRFLMWDIGGQESLR------SSWNTYYTN---TDAVILVIDSTDR---ERLPLTKEELYKMLAHEDLRKAVLLVLANK  125 (174)
T ss_pred             CeEEEEEECCCCHHHH------HHHHHHhhc---CCEEEEEEECCCH---HHHHHHHHHHHHHHhchhhcCCCEEEEEEC
Confidence            3478999999975411      111122333   4689999998643   2221  11111111111 135899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      +|+.... ...++.        ..+..              ...... ...++++||++|+|+++++..|.
T Consensus       126 ~Dl~~~~-~~~~i~--------~~l~~--------------~~~~~~-~~~~~~~SA~~g~gi~e~~~~l~  172 (174)
T cd04153         126 QDLKGAM-TPAEIS--------ESLGL--------------TSIRDH-TWHIQGCCALTGEGLPEGLDWIA  172 (174)
T ss_pred             CCCCCCC-CHHHHH--------HHhCc--------------ccccCC-ceEEEecccCCCCCHHHHHHHHh
Confidence            9985321 111110        00100              000111 14689999999999999998875

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.12  E-value=6.5e-10  Score=93.71  Aligned_cols=114  Identities=14%  Similarity=0.236  Sum_probs=71.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.+.||||+.. +.  .    +.+. +..   .+++++++|...   +..+  +..++..+..... +.|+++|.||+
T Consensus        49 ~~l~i~Dt~G~~~-~~--~----~~~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~  114 (166)
T cd00877          49 IRFNVWDTAGQEK-FG--G----LRDGYYIG---GQCAIIMFDVTS---RVTYKNVPNWHRDLVRVCG-NIPIVLCGNKV  114 (166)
T ss_pred             EEEEEEECCCChh-hc--c----ccHHHhcC---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhCC-CCcEEEEEEch
Confidence            4678999999754 11  1    1111 222   467899999863   3333  3444444333332 79999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~  271 (284)
                      |+..+.  .....                          .+. .......++++||++|+|++++++.+.+.+-..++.+
T Consensus       115 Dl~~~~--~~~~~--------------------------~~~-~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~~  165 (166)
T cd00877         115 DIKDRK--VKAKQ--------------------------ITF-HRKKNLQYYEISAKSNYNFEKPFLWLARKLLGNPNLE  165 (166)
T ss_pred             hccccc--CCHHH--------------------------HHH-HHHcCCEEEEEeCCCCCChHHHHHHHHHHHHhccccc
Confidence            986321  11000                          001 1123467999999999999999999998887666543

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>cd01893 Miro1 Miro1 subfamily

Probab=99.12  E-value=2.3e-09  Score=89.99  Aligned_cols=114  Identities=9%  Similarity=0.162  Sum_probs=66.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHH---HHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFIS---GCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~---~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ..++.++||||+.+..      ..+...+..   .+++++++|+..   +..+-.   .++..+... ..+.|+++|.||
T Consensus        46 ~~~~~i~Dt~G~~~~~------~~~~~~~~~---ad~~ilv~d~~~---~~s~~~~~~~~~~~i~~~-~~~~pviiv~nK  112 (166)
T cd01893          46 RVPTTIVDTSSRPQDR------ANLAAEIRK---ANVICLVYSVDR---PSTLERIRTKWLPLIRRL-GVKVPIILVGNK  112 (166)
T ss_pred             eEEEEEEeCCCchhhh------HHHhhhccc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHHh-CCCCCEEEEEEc
Confidence            3478999999975421      112222322   457888898753   333321   232222222 237899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.+.. .... ++       +.               +..+.+.+. ...++++||++|.|++++++.+.+..
T Consensus       113 ~Dl~~~~-~~~~-~~-------~~---------------~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~  163 (166)
T cd01893         113 SDLRDGS-SQAG-LE-------EE---------------MLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAV  163 (166)
T ss_pred             hhccccc-chhH-HH-------HH---------------HHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHh
Confidence            9996533 1110 00       00               011112222 24799999999999999999998764

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.12  E-value=7e-10  Score=93.30  Aligned_cols=124  Identities=10%  Similarity=0.146  Sum_probs=65.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+.+...       +.. .+..   .+++++++|.....+-......++..+.. ...++|+++|.||+|+
T Consensus        49 ~~l~i~Dt~G~~~~~~-------~~~~~~~~---~d~~i~v~~~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl  117 (175)
T cd01870          49 VELALWDTAGQEDYDR-------LRPLSYPD---TDVILMCFSIDSPDSLENIPEKWTPEVKH-FCPNVPIILVGNKKDL  117 (175)
T ss_pred             EEEEEEeCCCchhhhh-------ccccccCC---CCEEEEEEECCCHHHHHHHHHHHHHHHHh-hCCCCCEEEEeeChhc
Confidence            3678999999754211       111 1222   35677777765322111211122222111 1237899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      .... .....+.        .... . ...   .....++...++...++++||++|.|+++++..|.+.
T Consensus       118 ~~~~-~~~~~i~--------~~~~-~-~v~---~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~  173 (175)
T cd01870         118 RNDE-HTRRELA--------KMKQ-E-PVK---PEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRA  173 (175)
T ss_pred             ccCh-hhhhhhh--------hccC-C-Ccc---HHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHH
Confidence            6533 2211110        0000 0 000   0001122234556689999999999999999998764

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.12  E-value=9.7e-10  Score=107.53  Aligned_cols=108  Identities=14%  Similarity=0.092  Sum_probs=69.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHH--HHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRN--FVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~--l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +..+.++||||+.+  .+ ...+.  +.+.+......+++++++|++...+....  ..+.   .  ..++|+++|+||+
T Consensus       262 g~~i~l~DT~G~~~--~~-~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~--~~l~---~--~~~~piiiV~NK~  331 (449)
T PRK05291        262 GIPLRLIDTAGIRE--TD-DEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDD--EILE---E--LKDKPVIVVLNKA  331 (449)
T ss_pred             CeEEEEEeCCCCCC--Cc-cHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHH--HHHH---h--cCCCCcEEEEEhh
Confidence            44689999999864  21 22222  22222222335789999999754333321  1111   1  3578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+..+. ...                                  ......++++||++|.|++.|++.|.+.+..
T Consensus       332 DL~~~~-~~~----------------------------------~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        332 DLTGEI-DLE----------------------------------EENGKPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             hccccc-hhh----------------------------------hccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence            986533 111                                  0112468999999999999999999998864

>cd04144 Ras2 Ras2 subfamily

Probab=99.12  E-value=9.8e-10  Score=94.62  Aligned_cols=112  Identities=12%  Similarity=0.174  Sum_probs=66.3

Q ss_pred             CEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh---cCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ---LELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~---~~~p~IlVlNK~  191 (284)
                      .+-++||||+....   .    +.+ .+..   .+++++++|.....+... +..++..+.....   .+.|+++|.||+
T Consensus        48 ~l~i~Dt~G~~~~~---~----~~~~~~~~---ad~~ilv~d~~~~~s~~~-~~~~~~~i~~~~~~~~~~~piilvgNK~  116 (190)
T cd04144          48 MLEVLDTAGQEEYT---A----LRDQWIRE---GEGFILVYSITSRSTFER-VERFREQIQRVKDESAADVPIMIVGNKC  116 (190)
T ss_pred             EEEEEECCCchhhH---H----HHHHHHHh---CCEEEEEEECCCHHHHHH-HHHHHHHHHHHhcccCCCCCEEEEEECh
Confidence            56789999975421   1    212 2333   357888888753322111 3344443333222   368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...+ .+....                         ..+....++ ..++++||++|.|++++++.+.+.+.
T Consensus       117 Dl~~~~-~v~~~~-------------------------~~~~~~~~~-~~~~e~SAk~~~~v~~l~~~l~~~l~  163 (190)
T cd04144         117 DKVYER-EVSTEE-------------------------GAALARRLG-CEFIEASAKTNVNVERAFYTLVRALR  163 (190)
T ss_pred             hccccC-ccCHHH-------------------------HHHHHHHhC-CEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            986432 211000                         011123344 47999999999999999998887643

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>PLN03118 Rab family protein; Provisional

Probab=99.12  E-value=1.7e-09  Score=94.81  Aligned_cols=116  Identities=11%  Similarity=0.138  Sum_probs=68.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHH-HHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISG-CMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~-~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      .++.++||||+...       ..+... +..   .+++++++|+....+... +.. +...+.... ..+.|.++|.||+
T Consensus        62 ~~l~l~Dt~G~~~~-------~~~~~~~~~~---~d~~vlv~D~~~~~sf~~-~~~~~~~~~~~~~~~~~~~~ilv~NK~  130 (211)
T PLN03118         62 LKLTIWDTAGQERF-------RTLTSSYYRN---AQGIILVYDVTRRETFTN-LSDVWGKEVELYSTNQDCVKMLVGNKV  130 (211)
T ss_pred             EEEEEEECCCchhh-------HHHHHHHHhc---CCEEEEEEECCCHHHHHH-HHHHHHHHHHHhcCCCCCCEEEEEECc
Confidence            46799999997542       112222 322   367899999864322111 211 212122111 2457999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      |+...+ .+..-.      .                   .+....++ ..++++||+++.|++++++.|.+.+...+
T Consensus       131 Dl~~~~-~i~~~~------~-------------------~~~~~~~~-~~~~e~SAk~~~~v~~l~~~l~~~~~~~~  180 (211)
T PLN03118        131 DRESER-DVSREE------G-------------------MALAKEHG-CLFLECSAKTRENVEQCFEELALKIMEVP  180 (211)
T ss_pred             cccccC-ccCHHH------H-------------------HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            986433 211000      0                   01112233 46899999999999999999998876544

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.11  E-value=1.6e-09  Score=104.12  Aligned_cols=115  Identities=19%  Similarity=0.312  Sum_probs=68.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEE-EEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHV-NILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~D  192 (284)
                      +.++.++||||+..      ....+...+.   ..+++++++|+...-.+...  .   .+......+.|++ +|+||+|
T Consensus        74 ~~~~~liDtpGh~~------f~~~~~~~~~---~~D~~ilVvda~~g~~~qt~--e---~l~~~~~~gi~~iIvvvNK~D  139 (394)
T TIGR00485        74 NRHYAHVDCPGHAD------YVKNMITGAA---QMDGAILVVSATDGPMPQTR--E---HILLARQVGVPYIVVFLNKCD  139 (394)
T ss_pred             CEEEEEEECCchHH------HHHHHHHHHh---hCCEEEEEEECCCCCcHHHH--H---HHHHHHHcCCCEEEEEEEecc
Confidence            45789999999643      1223333332   24678899999753223322  1   1112335688876 6899999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcc--------cHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKES--------SIRYVLSQI  260 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~--------~l~~Ll~~I  260 (284)
                      ++.++ +..+..                      ...+.+++..+++    ..++|+||.+|.        ++..|++.+
T Consensus       140 l~~~~-~~~~~~----------------------~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~g~~~~~~~~~~ll~~l  196 (394)
T TIGR00485       140 MVDDE-ELLELV----------------------EMEVRELLSEYDFPGDDTPIIRGSALKALEGDAEWEAKILELMDAV  196 (394)
T ss_pred             cCCHH-HHHHHH----------------------HHHHHHHHHhcCCCccCccEEECccccccccCCchhHhHHHHHHHH
Confidence            97543 221111                      0122333444443    679999999875        466788888


Q ss_pred             HHhcC
Q 023298          261 DNCIQ  265 (284)
Q Consensus       261 ~~~l~  265 (284)
                      ++..|
T Consensus       197 ~~~~~  201 (394)
T TIGR00485       197 DEYIP  201 (394)
T ss_pred             HhcCC
Confidence            77654

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=99.11  E-value=7.3e-10  Score=114.29  Aligned_cols=158  Identities=14%  Similarity=0.094  Sum_probs=89.9

Q ss_pred             CceEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC----CCCccccccc----cccHHHHhh-----hc
Q 023298           18 ALVIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF----DYPVAMDIRE----LISLEDVME-----EL   82 (284)
Q Consensus        18 ~~~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~----~~~~~~dir~----~i~~~~vm~-----~~   82 (284)
                      ++++++|.|+.  +||||++.|||.+++..|+||++||+|++....    ..+....+.+    -..+++++.     +.
T Consensus       530 ~~kvI~vtS~~~g~GKTtva~nLA~~la~~G~rVLlID~D~r~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~l  609 (726)
T PRK09841        530 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGGF  609 (726)
T ss_pred             CCeEEEEecCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCCcHHHHcCCCCCCCHHHHhCCCCCHHHheeccCCCCE
Confidence            55778899885  999999999999999999999999999997532    1111111111    122333332     34


Q ss_pred             CcccCchhhh-hhHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC
Q 023298           83 GLGPNGGLIY-CMEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI  160 (284)
Q Consensus        83 ~lgPng~l~~-~~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~  160 (284)
                      .+.|.|.... ..+++. ..+.+.+ +.+..  +++||||||||......     -.+   +.  ...+.+++++.....
T Consensus       610 ~vl~~g~~~~~p~ell~~~~~~~ll-~~l~~--~yD~IIIDtPP~~~~~D-----a~~---la--~~ad~~llVvr~~~t  676 (726)
T PRK09841        610 DVITRGQVPPNPSELLMRDRMRQLL-EWAND--HYDLVIVDTPPMLAVSD-----AAV---VG--RSVGTSLLVARFGLN  676 (726)
T ss_pred             EEEeCCCCCCCHHHHhCcHHHHHHH-HHHHh--cCCEEEEeCCCccccch-----HHH---HH--HhCCeEEEEEeCCCC
Confidence            4556554322 223332 2332222 23332  78999999999765211     011   11  112456666644322


Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCCEE-EEecCCcc
Q 023298          161 TDVTKFISGCMASLSAMVQLELPHV-NILSKMDL  193 (284)
Q Consensus       161 ~~~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~Dl  193 (284)
                        ...-+.   .++..+.+.+.+.+ +|+|+++.
T Consensus       677 --~~~~~~---~~~~~l~~~~~~~~G~VlN~~~~  705 (726)
T PRK09841        677 --TAKEVS---LSMQRLEQAGVNIKGAILNGVIK  705 (726)
T ss_pred             --CHHHHH---HHHHHHHhCCCceEEEEEeCccc
Confidence              212222   23344455666654 88999974

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.11  E-value=1.5e-09  Score=90.84  Aligned_cols=114  Identities=12%  Similarity=0.111  Sum_probs=61.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~  191 (284)
                      +.++.+.||||+...       ..+... ++.   .++++|++|+....+... +...+..+... ...+.|.++|.||+
T Consensus        43 ~~~~~l~D~~G~~~~-------~~~~~~~~~~---ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~NK~  111 (159)
T cd04150          43 NISFTVWDVGGQDKI-------RPLWRHYFQN---TQGLIFVVDSNDRERIGE-AREELQRMLNEDELRDAVLLVFANKQ  111 (159)
T ss_pred             CEEEEEEECCCCHhH-------HHHHHHHhcC---CCEEEEEEeCCCHHHHHH-HHHHHHHHHhcHHhcCCCEEEEEECC
Confidence            446899999997541       112222 333   468999999864322221 11222211111 11358999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+.... ...+..        ..+..              ..+. .....++++||++|+|++++++.|.+
T Consensus       112 Dl~~~~-~~~~i~--------~~~~~--------------~~~~-~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         112 DLPNAM-SAAEVT--------DKLGL--------------HSLR-NRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             CCCCCC-CHHHHH--------HHhCc--------------cccC-CCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            985321 111111        00000              0000 11235789999999999999988753

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>cd04135 Tc10 TC10 subfamily

Probab=99.11  E-value=6.7e-10  Score=93.31  Aligned_cols=123  Identities=11%  Similarity=0.103  Sum_probs=66.4

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      .+-++||||+......+       . . .....+++++++|.....+-......++..+... ..+.|+++|.||+|+..
T Consensus        49 ~~~i~Dt~G~~~~~~~~-------~-~-~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~  118 (174)
T cd04135          49 LLGLYDTAGQEDYDRLR-------P-L-SYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRD  118 (174)
T ss_pred             EEEEEeCCCcccccccc-------c-c-cCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhc
Confidence            46789999975522111       1 1 1112357788888753322111111222222222 45799999999999865


Q ss_pred             chhhhhhhcCcchHHHHHHhhh-cchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          196 NKKEIEDYLNPESQFLLSELNQ-HMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~-~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      ..........         ... ...      .....+....++...++.+||++|.|++++++.+.+.
T Consensus       119 ~~~~~~~~~~---------~~~~~v~------~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~  172 (174)
T cd04135         119 DPKTLARLND---------MKEKPVT------VEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILA  172 (174)
T ss_pred             ChhhHHHHhh---------ccCCCCC------HHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHH
Confidence            3311111100         000 000      0011223345666689999999999999999988764

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.11  E-value=1.4e-09  Score=107.09  Aligned_cols=105  Identities=22%  Similarity=0.260  Sum_probs=60.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcC-CCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLE-LPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~-~p~IlVlNK~  191 (284)
                      +.+++|+||||+ +     .....+...+.   ..+++++++|+...-.+ ......++      ...+ .|.|+|+||+
T Consensus       106 ~~~i~~iDTPGh-~-----~f~~~~~~~l~---~aD~allVVDa~~G~~~qt~~~~~l~------~~lg~~~iIvvvNKi  170 (474)
T PRK05124        106 KRKFIIADTPGH-E-----QYTRNMATGAS---TCDLAILLIDARKGVLDQTRRHSFIA------TLLGIKHLVVAVNKM  170 (474)
T ss_pred             CcEEEEEECCCc-H-----HHHHHHHHHHh---hCCEEEEEEECCCCccccchHHHHHH------HHhCCCceEEEEEee
Confidence            568999999993 2     22333444443   35789999999753221 11111111      1223 4788999999


Q ss_pred             ccccchhh-hhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC---CceEEEEeccCcccHHHH
Q 023298          192 DLVTNKKE-IEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS---MVSFMPLDLRKESSIRYV  256 (284)
Q Consensus       192 Dll~~~~~-l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~---~~~~ipiSa~~~~~l~~L  256 (284)
                      |+.....+ +.+..                       ..+..++..++   ...++|+||++|+|+..+
T Consensus       171 D~~~~~~~~~~~i~-----------------------~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        171 DLVDYSEEVFERIR-----------------------EDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             ccccchhHHHHHHH-----------------------HHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            99742201 11111                       11222233333   478999999999998763

>cd04120 Rab12 Rab12 subfamily

Probab=99.11  E-value=1.1e-09  Score=96.10  Aligned_cols=113  Identities=12%  Similarity=0.170  Sum_probs=68.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++.+.||+|+-..       ..+.+. +..   ++++++++|...   +..|  +..++..+......+.|+++|.||+
T Consensus        49 v~l~iwDtaGqe~~-------~~l~~~y~~~---ad~iIlVfDvtd---~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~  115 (202)
T cd04120          49 IRLQIWDTAGQERF-------NSITSAYYRS---AKGIILVYDITK---KETFDDLPKWMKMIDKYASEDAELLLVGNKL  115 (202)
T ss_pred             EEEEEEeCCCchhh-------HHHHHHHhcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhCCCCCcEEEEEECc
Confidence            46789999997541       112222 322   467899999864   3333  3444443333323468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+...+ ++....                      .   .++.+......++.+||++|.|+++++..+.+.+..
T Consensus       116 DL~~~~-~v~~~~----------------------~---~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~  164 (202)
T cd04120         116 DCETDR-EISRQQ----------------------G---EKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK  164 (202)
T ss_pred             cccccc-ccCHHH----------------------H---HHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHH
Confidence            985432 221110                      0   011122222578999999999999999888776543

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>PRK11519 tyrosine kinase; Provisional

Probab=99.11  E-value=7.2e-10  Score=114.24  Aligned_cols=158  Identities=13%  Similarity=0.106  Sum_probs=92.8

Q ss_pred             CceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC----CCCcccccc----ccccHHHHh-----hhc
Q 023298           18 ALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF----DYPVAMDIR----ELISLEDVM-----EEL   82 (284)
Q Consensus        18 ~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~----~~~~~~dir----~~i~~~~vm-----~~~   82 (284)
                      +...++|.|+ | +||||+|.|||..++..|+||++||+|++...+    ..+...-+.    +..++++++     .++
T Consensus       525 ~~kvi~vts~~~geGKTt~a~nLA~~la~~g~rvLlID~Dlr~~~~~~~~~~~~~~gl~~~l~~~~~l~~~i~~~~~~~l  604 (719)
T PRK11519        525 QNNVLMMTGVSPSIGKTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSDILIGQGDITTAAKPTSIANF  604 (719)
T ss_pred             CceEEEEECCCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCcHHHHhCCCCCCCHHHHhCCCCCHHHhecccCcCCE
Confidence            4567888885 5 999999999999999999999999999997632    111111111    122344443     345


Q ss_pred             CcccCchhhh-hhHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC
Q 023298           83 GLGPNGGLIY-CMEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI  160 (284)
Q Consensus        83 ~lgPng~l~~-~~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~  160 (284)
                      .+.|.|.... ..+++. ..+.+.+ +.+++  +++||||||||.....     .-.+   +.  ...+.+++++-....
T Consensus       605 ~~lp~g~~~~~~~ell~s~~~~~ll-~~l~~--~yD~ViiDtpP~~~v~-----Da~~---l~--~~~d~~l~Vvr~~~t  671 (719)
T PRK11519        605 DLIPRGQVPPNPSELLMSERFAELV-NWASK--NYDLVLIDTPPILAVT-----DAAI---VG--RHVGTTLMVARYAVN  671 (719)
T ss_pred             EEEeCCCCCCCHHHHhhHHHHHHHH-HHHHh--cCCEEEEeCCCcccch-----HHHH---HH--HHCCeEEEEEeCCCC
Confidence            5566655422 223332 2332222 23332  7899999999976421     0111   11  123567787765322


Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCCEE-EEecCCcc
Q 023298          161 TDVTKFISGCMASLSAMVQLELPHV-NILSKMDL  193 (284)
Q Consensus       161 ~~~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~Dl  193 (284)
                        +...+.   .++..+.+.+.+.+ +|+|+++.
T Consensus       672 --~~~~~~---~~~~~l~~~~~~~~G~VlN~v~~  700 (719)
T PRK11519        672 --TLKEVE---TSLSRFEQNGIPVKGVILNSIFR  700 (719)
T ss_pred             --CHHHHH---HHHHHHHhCCCCeEEEEEeCCcc
Confidence              223232   33445556777776 78999864

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.10  E-value=2.1e-09  Score=91.66  Aligned_cols=120  Identities=10%  Similarity=0.057  Sum_probs=69.8

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      .+.+.||||+.+..       .+....  ....+++++++|.....+-......++..+.. ...+.|.|+|.||+|+..
T Consensus        50 ~l~i~Dt~G~~~~~-------~~~~~~--~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~  119 (187)
T cd04132          50 ELALWDTAGQEEYD-------RLRPLS--YPDVDVLLICYAVDNPTSLDNVEDKWFPEVNH-FCPGTPIMLVGLKTDLRK  119 (187)
T ss_pred             EEEEEECCCchhHH-------HHHHHh--CCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEeChhhhh
Confidence            57899999975411       121111  12246899999986433222222223322221 124689999999999864


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      .. ........                     ....++...++...++++||++|.|+++++..+.+.+...
T Consensus       120 ~~-~~~~~v~~---------------------~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  169 (187)
T cd04132         120 DK-NLDRKVTP---------------------AQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALKK  169 (187)
T ss_pred             Cc-cccCCcCH---------------------HHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhh
Confidence            32 11111110                     0011223445555899999999999999999888776543

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.10  E-value=1.7e-09  Score=93.85  Aligned_cols=116  Identities=9%  Similarity=0.132  Sum_probs=69.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK  190 (284)
                      ..+.++||||+.+..   .    +.+ .+..   .+++++++|+..   +..+  +..++..+..... .++|+++|+||
T Consensus        47 ~~l~i~D~~G~~~~~---~----~~~~~~~~---ad~vilv~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~NK  113 (198)
T cd04147          47 LTLDILDTSGSYSFP---A----MRKLSIQN---SDAFALVYAVDD---PESFEEVERLREEILEVKEDKFVPIVVVGNK  113 (198)
T ss_pred             EEEEEEECCCchhhh---H----HHHHHhhc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCcEEEEEEc
Confidence            367899999975421   1    111 1222   468899999863   3333  3333332222222 47999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHh-ccCCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVD-EYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~-~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      +|+...+..+..-.          .               .+... .+ ...++++||++|.|++++++.+.+.++....
T Consensus       114 ~Dl~~~~~~v~~~~----------~---------------~~~~~~~~-~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~  167 (198)
T cd04147         114 ADSLEEERQVPAKD----------A---------------LSTVELDW-NCGFVETSAKDNENVLEVFKELLRQANLPYN  167 (198)
T ss_pred             cccccccccccHHH----------H---------------HHHHHhhc-CCcEEEecCCCCCCHHHHHHHHHHHhhcccc
Confidence            99865321111000          0               00111 12 2578999999999999999999988775444

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.10  E-value=3.1e-10  Score=90.19  Aligned_cols=113  Identities=11%  Similarity=0.097  Sum_probs=67.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+......      ....+..   .+++++++|+.......................+.|+++|+||+|+
T Consensus        44 ~~~~~l~D~~g~~~~~~~------~~~~~~~---~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~  114 (157)
T cd00882          44 KVKLQIWDTAGQERFRSL------RRLYYRG---ADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDL  114 (157)
T ss_pred             EEEEEEEecCChHHHHhH------HHHHhcC---CCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEecccc
Confidence            447899999997652211      1112222   4678999998743222221111012233445678999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      .... ......                         ............++++|+.++.|+..+++.|.
T Consensus       115 ~~~~-~~~~~~-------------------------~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         115 PEER-VVSEEE-------------------------LAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             cccc-chHHHH-------------------------HHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            6543 111110                         01112233457899999999999999998874

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.10  E-value=1.7e-09  Score=108.90  Aligned_cols=116  Identities=15%  Similarity=0.159  Sum_probs=72.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCC-EEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELP-HVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p-~IlVlNK~Dl  193 (284)
                      ..+.++||||+-.      ....+...+.   ..+++++++|+...-.+..+-  .   +..+...+.| .|+|+||+|+
T Consensus        50 ~~v~~iDtPGhe~------f~~~~~~g~~---~aD~aILVVDa~~G~~~qT~e--h---l~il~~lgi~~iIVVlNK~Dl  115 (581)
T TIGR00475        50 YRLGFIDVPGHEK------FISNAIAGGG---GIDAALLVVDADEGVMTQTGE--H---LAVLDLLGIPHTIVVITKADR  115 (581)
T ss_pred             EEEEEEECCCHHH------HHHHHHhhhc---cCCEEEEEEECCCCCcHHHHH--H---HHHHHHcCCCeEEEEEECCCC
Confidence            4679999999532      1222333232   246899999997532333321  1   1123346788 9999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC---CceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS---MVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~---~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      ++.+ .+....                       ..+.+++..++   ...++|+||++|+|++++...|.+.+..-+
T Consensus       116 v~~~-~~~~~~-----------------------~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~~~~  169 (581)
T TIGR00475       116 VNEE-EIKRTE-----------------------MFMKQILNSYIFLKNAKIFKTSAKTGQGIGELKKELKNLLESLD  169 (581)
T ss_pred             CCHH-HHHHHH-----------------------HHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHHHHHHHHHhCC
Confidence            7543 222111                       11223333333   367999999999999999999988776544

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.09  E-value=1.3e-09  Score=90.30  Aligned_cols=107  Identities=13%  Similarity=0.253  Sum_probs=63.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++.+.||||+...       ..+.+ .+..   .+++++++|+..   +..+  +..++..+.. ...+.|+++|.||+
T Consensus        51 ~~~~i~D~~G~~~~-------~~~~~~~~~~---~~~~v~v~d~~~---~~s~~~l~~~~~~~~~-~~~~~p~iiv~nK~  116 (162)
T cd04106          51 VRLMLWDTAGQEEF-------DAITKAYYRG---AQACILVFSTTD---RESFEAIESWKEKVEA-ECGDIPMVLVQTKI  116 (162)
T ss_pred             EEEEEeeCCchHHH-------HHhHHHHhcC---CCEEEEEEECCC---HHHHHHHHHHHHHHHH-hCCCCCEEEEEECh
Confidence            36889999997531       11222 2322   356788888753   3333  2333322211 12478999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+.... ....-                         ...++.+.++ ..++++||+++.|+++++..|.+
T Consensus       117 Dl~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~  160 (162)
T cd04106         117 DLLDQA-VITNE-------------------------EAEALAKRLQ-LPLFRTSVKDDFNVTELFEYLAE  160 (162)
T ss_pred             hccccc-CCCHH-------------------------HHHHHHHHcC-CeEEEEECCCCCCHHHHHHHHHH
Confidence            986533 11100                         0011123333 37999999999999999988864

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.09  E-value=1.9e-09  Score=92.56  Aligned_cols=111  Identities=15%  Similarity=0.198  Sum_probs=63.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh----cCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ----LELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~----~~~p~IlVl  188 (284)
                      +..+.+.||||+..       ...+... +..   .++++|++|++..   ..+- .+...+..+..    .+.|.++|.
T Consensus        60 ~~~~~i~D~~Gq~~-------~~~~~~~~~~~---a~~iI~V~D~s~~---~s~~-~~~~~l~~~l~~~~~~~~piilv~  125 (181)
T PLN00223         60 NISFTVWDVGGQDK-------IRPLWRHYFQN---TQGLIFVVDSNDR---DRVV-EARDELHRMLNEDELRDAVLLVFA  125 (181)
T ss_pred             CEEEEEEECCCCHH-------HHHHHHHHhcc---CCEEEEEEeCCcH---HHHH-HHHHHHHHHhcCHhhCCCCEEEEE
Confidence            34689999999743       1122222 322   4689999998643   3321 11112222221    368999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ||+|+.... ...++.        +.+.                 +...  ....++++||++|+|+.++++.|.+.+
T Consensus       126 NK~Dl~~~~-~~~~~~--------~~l~-----------------l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  177 (181)
T PLN00223        126 NKQDLPNAM-NAAEIT--------DKLG-----------------LHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNI  177 (181)
T ss_pred             ECCCCCCCC-CHHHHH--------HHhC-----------------ccccCCCceEEEeccCCCCCCHHHHHHHHHHHH
Confidence            999985432 111111        0000                 0000  112467899999999999999887654

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.09  E-value=4.1e-10  Score=113.56  Aligned_cols=119  Identities=18%  Similarity=0.194  Sum_probs=75.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+.+..... ..+++.+........+++++++|++...+....       .....+.++|+++|+||+|+
T Consensus        40 ~~~i~lvDtPG~~~~~~~s-~~e~v~~~~l~~~~aDvvI~VvDat~ler~l~l-------~~ql~~~~~PiIIVlNK~Dl  111 (591)
T TIGR00437        40 GEDIEIVDLPGIYSLTTFS-LEEEVARDYLLNEKPDLVVNVVDASNLERNLYL-------TLQLLELGIPMILALNLVDE  111 (591)
T ss_pred             CeEEEEEECCCccccCccc-hHHHHHHHHHhhcCCCEEEEEecCCcchhhHHH-------HHHHHhcCCCEEEEEehhHH
Confidence            4468999999987644322 223343333222235789999999764322111       12234578999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      .+++ .+..-.                          .++-+..+ ..++|+||++|+|++++++.+.+...+++
T Consensus       112 ~~~~-~i~~d~--------------------------~~L~~~lg-~pvv~tSA~tg~Gi~eL~~~i~~~~~~~~  158 (591)
T TIGR00437       112 AEKK-GIRIDE--------------------------EKLEERLG-VPVVPTSATEGRGIERLKDAIRKAIGLKE  158 (591)
T ss_pred             HHhC-CChhhH--------------------------HHHHHHcC-CCEEEEECCCCCCHHHHHHHHHHHhhcch
Confidence            6433 221000                          01112223 68999999999999999999998766554

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>cd01863 Rab18 Rab18 subfamily

Probab=99.09  E-value=1.6e-09  Score=89.68  Aligned_cols=111  Identities=9%  Similarity=0.134  Sum_probs=65.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+....       .+....-  ...+++++++|+....+... +..++..+.... ..+.|.++|.||+|+
T Consensus        49 ~~~~l~D~~g~~~~~-------~~~~~~~--~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~~~~~iv~nK~D~  118 (161)
T cd01863          49 VKLAIWDTAGQERFR-------TLTSSYY--RGAQGVILVYDVTRRDTFTN-LETWLNELETYSTNNDIVKMLVGNKIDK  118 (161)
T ss_pred             EEEEEEECCCchhhh-------hhhHHHh--CCCCEEEEEEECCCHHHHHh-HHHHHHHHHHhCCCCCCcEEEEEECCcc
Confidence            467999999964311       1112121  12467999999864322222 333433333332 357899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      ........+.                           .++.... -..++++||++|+|++++++.+.+.
T Consensus       119 ~~~~~~~~~~---------------------------~~~~~~~-~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         119 ENREVTREEG---------------------------LKFARKH-NMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             cccccCHHHH---------------------------HHHHHHc-CCEEEEEecCCCCCHHHHHHHHHHh
Confidence            6322011111                           0111222 2579999999999999999988764

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.09  E-value=1.4e-09  Score=105.43  Aligned_cols=112  Identities=20%  Similarity=0.309  Sum_probs=65.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCC--CCCH-HHHHHHHHHHHHHHHhcCC-CEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQF--ITDV-TKFISGCMASLSAMVQLEL-PHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~--~~~~-~~~i~~~l~~l~~~~~~~~-p~IlVlN  189 (284)
                      ++++.++||||+.. |     ...+...+.   ..+++++++|+..  ...+ ......+      ....+. |.++|+|
T Consensus        83 ~~~i~liDtpG~~~-~-----~~~~~~~~~---~aD~~ilVvDa~~~~~~~~~~~~~~~~------~~~~~~~~iivviN  147 (425)
T PRK12317         83 KYYFTIVDCPGHRD-F-----VKNMITGAS---QADAAVLVVAADDAGGVMPQTREHVFL------ARTLGINQLIVAIN  147 (425)
T ss_pred             CeEEEEEECCCccc-c-----hhhHhhchh---cCCEEEEEEEcccCCCCCcchHHHHHH------HHHcCCCeEEEEEE
Confidence            56899999999633 1     122222232   3578999999975  2111 1111111      123454 5889999


Q ss_pred             CCccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHHH---------
Q 023298          190 KMDLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIRY---------  255 (284)
Q Consensus       190 K~Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~~---------  255 (284)
                      |+|+.... ..+...                       ...+.+++..+++    ..++|+||++|+|+++         
T Consensus       148 K~Dl~~~~~~~~~~~-----------------------~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~~~~wy~  204 (425)
T PRK12317        148 KMDAVNYDEKRYEEV-----------------------KEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSENMPWYN  204 (425)
T ss_pred             ccccccccHHHHHHH-----------------------HHHHHHHHHhhCCCcCcceEEEeecccCCCccccccCCCccc
Confidence            99987421 011111                       1122333344443    5799999999999986         


Q ss_pred             ---HHHHHHHh
Q 023298          256 ---VLSQIDNC  263 (284)
Q Consensus       256 ---Ll~~I~~~  263 (284)
                         |++.|+..
T Consensus       205 g~~L~~~l~~~  215 (425)
T PRK12317        205 GPTLLEALDNL  215 (425)
T ss_pred             HHHHHHHHhcC
Confidence               77777653

>cd04140 ARHI_like ARHI subfamily

Probab=99.09  E-value=2.3e-09  Score=89.81  Aligned_cols=111  Identities=9%  Similarity=0.152  Sum_probs=64.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh---cCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ---LELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~---~~~p~IlVlNK  190 (284)
                      ..+.++||||+....       .+.+. +..   .+++++++|.....+... +..++..+.....   .+.|.++|.||
T Consensus        49 ~~l~i~Dt~G~~~~~-------~~~~~~~~~---~~~~ilv~d~~~~~s~~~-~~~~~~~i~~~~~~~~~~~piilv~nK  117 (165)
T cd04140          49 CTLQITDTTGSHQFP-------AMQRLSISK---GHAFILVYSVTSKQSLEE-LKPIYELICEIKGNNIEKIPIMLVGNK  117 (165)
T ss_pred             EEEEEEECCCCCcch-------HHHHHHhhc---CCEEEEEEECCCHHHHHH-HHHHHHHHHHHhcCCCCCCCEEEEEEC
Confidence            367899999986421       12221 222   356778888753322111 3333332322221   46899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +|+.... ++....                      .   ......++ ..++++||++|+|++++++.|.+.
T Consensus       118 ~Dl~~~~-~v~~~~----------------------~---~~~~~~~~-~~~~e~SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140         118 CDESHKR-EVSSNE----------------------G---AACATEWN-CAFMETSAKTNHNVQELFQELLNL  163 (165)
T ss_pred             ccccccC-eecHHH----------------------H---HHHHHHhC-CcEEEeecCCCCCHHHHHHHHHhc
Confidence            9986432 211100                      0   01112233 578999999999999999988653

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.08  E-value=2.2e-09  Score=109.22  Aligned_cols=113  Identities=20%  Similarity=0.272  Sum_probs=66.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcC-CCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLE-LPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~-~p~IlVlNK~  191 (284)
                      +.+++|+||||+..      ....+...+..   .+++++++|+.....+. .....+      ....+ .|.|+|+||+
T Consensus       103 ~~~~~liDtPG~~~------f~~~~~~~~~~---aD~~llVvda~~g~~~~t~e~~~~------~~~~~~~~iivvvNK~  167 (632)
T PRK05506        103 KRKFIVADTPGHEQ------YTRNMVTGAST---ADLAIILVDARKGVLTQTRRHSFI------ASLLGIRHVVLAVNKM  167 (632)
T ss_pred             CceEEEEECCChHH------HHHHHHHHHHh---CCEEEEEEECCCCccccCHHHHHH------HHHhCCCeEEEEEEec
Confidence            56899999999532      22334444433   57899999997542221 111111      11234 4678899999


Q ss_pred             ccccc-hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHH------------HH
Q 023298          192 DLVTN-KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIR------------YV  256 (284)
Q Consensus       192 Dll~~-~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~------------~L  256 (284)
                      |+++. +..+.+.                       ...+.+++..+++  ..++|+||++|+|+.            .|
T Consensus       168 D~~~~~~~~~~~i-----------------------~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~~~~~~~wy~g~tL  224 (632)
T PRK05506        168 DLVDYDQEVFDEI-----------------------VADYRAFAAKLGLHDVTFIPISALKGDNVVTRSARMPWYEGPSL  224 (632)
T ss_pred             ccccchhHHHHHH-----------------------HHHHHHHHHHcCCCCccEEEEecccCCCccccccCCCcccHhHH
Confidence            99742 2111111                       1122334445555  569999999999987            47


Q ss_pred             HHHHHHhc
Q 023298          257 LSQIDNCI  264 (284)
Q Consensus       257 l~~I~~~l  264 (284)
                      ++.++...
T Consensus       225 ~~~l~~~~  232 (632)
T PRK05506        225 LEHLETVE  232 (632)
T ss_pred             HHHHhcCC
Confidence            77776653

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=99.08  E-value=2.2e-09  Score=88.55  Aligned_cols=38  Identities=8%  Similarity=0.093  Sum_probs=34.0

Q ss_pred             EEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           23 CVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        23 ~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +.-|.| +||||++.+++.+++.+|.+|++||+|||.+.
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~~~~~~~~~vd~D~~~~~   42 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAKLGKRVLLLDADLGLAN   42 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHHHCCCcEEEEECCCCCCC
Confidence            345667 99999999999999999999999999998864

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>cd00879 Sar1 Sar1 subfamily

Probab=99.08  E-value=3e-09  Score=90.94  Aligned_cols=122  Identities=14%  Similarity=0.096  Sum_probs=63.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+...       ..+.. .+..   .+.+++++|+....+... ....+..+.... ..+.|+++|.||+|
T Consensus        63 ~~~~l~D~~G~~~~-------~~~~~~~~~~---ad~iilV~D~~~~~s~~~-~~~~~~~i~~~~~~~~~pvivv~NK~D  131 (190)
T cd00879          63 IKFKTFDLGGHEQA-------RRLWKDYFPE---VDGIVFLVDAADPERFQE-SKEELDSLLSDEELANVPFLILGNKID  131 (190)
T ss_pred             EEEEEEECCCCHHH-------HHHHHHHhcc---CCEEEEEEECCcHHHHHH-HHHHHHHHHcCccccCCCEEEEEeCCC
Confidence            36789999996541       11212 2322   367899999864321111 112222111111 24689999999999


Q ss_pred             cccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +....  .++..++.           ...     ....+.....+.. ....+++.||++|+|++++++.+...
T Consensus       132 l~~~~~~~~~~~~~~-----------~~~-----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         132 LPGAVSEEELRQALG-----------LYG-----TTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             CCCCcCHHHHHHHhC-----------ccc-----ccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence            85311  01222111           000     0000000011111 12568999999999999999988764

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.08  E-value=1.6e-09  Score=105.96  Aligned_cols=114  Identities=16%  Similarity=0.261  Sum_probs=67.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-------CHHHHHHHHHHHHHHHHhcCCCE-E
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-------DVTKFISGCMASLSAMVQLELPH-V  185 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-------~~~~~i~~~l~~l~~~~~~~~p~-I  185 (284)
                      ++.+.||||||+..      ....+...+.   ..++++++||+...-       .+...     ..+.....++.|+ |
T Consensus        84 ~~~i~lIDtPGh~~------f~~~~~~g~~---~aD~ailVVda~~G~~e~~~~~~~qT~-----eh~~~~~~~gi~~ii  149 (446)
T PTZ00141         84 KYYFTIIDAPGHRD------FIKNMITGTS---QADVAILVVASTAGEFEAGISKDGQTR-----EHALLAFTLGVKQMI  149 (446)
T ss_pred             CeEEEEEECCChHH------HHHHHHHhhh---hcCEEEEEEEcCCCceecccCCCccHH-----HHHHHHHHcCCCeEE
Confidence            56889999999443      2333433343   357889999997421       11111     0111233578886 5


Q ss_pred             EEecCCcccc---chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHHH---
Q 023298          186 NILSKMDLVT---NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIRY---  255 (284)
Q Consensus       186 lVlNK~Dll~---~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~~---  255 (284)
                      +++||+|...   ++..+.                       .....|.+.+...++    ..|+|+|+.+|+|+.+   
T Consensus       150 v~vNKmD~~~~~~~~~~~~-----------------------~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~~~~  206 (446)
T PTZ00141        150 VCINKMDDKTVNYSQERYD-----------------------EIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIEKSD  206 (446)
T ss_pred             EEEEccccccchhhHHHHH-----------------------HHHHHHHHHHHhcCCCcccceEEEeecccCCCcccCCC
Confidence            8999999521   111121                       222233444454444    6799999999999964   


Q ss_pred             ---------HHHHHHHhc
Q 023298          256 ---------VLSQIDNCI  264 (284)
Q Consensus       256 ---------Ll~~I~~~l  264 (284)
                               |++.++...
T Consensus       207 ~~~Wy~G~tL~~~l~~~~  224 (446)
T PTZ00141        207 NMPWYKGPTLLEALDTLE  224 (446)
T ss_pred             CCcccchHHHHHHHhCCC
Confidence                     888887653

>cd04124 RabL2 RabL2 subfamily

Probab=99.07  E-value=1.7e-09  Score=90.49  Aligned_cols=106  Identities=10%  Similarity=0.175  Sum_probs=63.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++-+.||||+...       ..+.+. +..   .+++++++|+...   ..+  +..++..+... ..+.|+++|.||+
T Consensus        49 ~~~~i~Dt~G~~~~-------~~~~~~~~~~---~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~-~~~~p~ivv~nK~  114 (161)
T cd04124          49 ILVDFWDTAGQERF-------QTMHASYYHK---AHACILVFDVTRK---ITYKNLSKWYEELREY-RPEIPCIVVANKI  114 (161)
T ss_pred             EEEEEEeCCCchhh-------hhhhHHHhCC---CCEEEEEEECCCH---HHHHHHHHHHHHHHHh-CCCCcEEEEEECc
Confidence            35778999997541       112222 222   4689999998633   222  33333322211 1368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+....  ..+.                           .++.+.++ ..++++||++|.|++++++.+.+..
T Consensus       115 Dl~~~~--~~~~---------------------------~~~~~~~~-~~~~~~Sa~~~~gv~~l~~~l~~~~  157 (161)
T cd04124         115 DLDPSV--TQKK---------------------------FNFAEKHN-LPLYYVSAADGTNVVKLFQDAIKLA  157 (161)
T ss_pred             cCchhH--HHHH---------------------------HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            984211  0000                           01112222 5789999999999999999988654

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>PLN03110 Rab GTPase; Provisional

Probab=99.06  E-value=2.5e-09  Score=94.45  Aligned_cols=113  Identities=14%  Similarity=0.087  Sum_probs=66.8

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ++-+.||||+...       ..+......  ..+.+++++|.....+- ..+..++..+......+.|+++|.||+|+..
T Consensus        62 ~l~l~Dt~G~~~~-------~~~~~~~~~--~~~~~ilv~d~~~~~s~-~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~  131 (216)
T PLN03110         62 KAQIWDTAGQERY-------RAITSAYYR--GAVGALLVYDITKRQTF-DNVQRWLRELRDHADSNIVIMMAGNKSDLNH  131 (216)
T ss_pred             EEEEEECCCcHHH-------HHHHHHHhC--CCCEEEEEEECCChHHH-HHHHHHHHHHHHhCCCCCeEEEEEEChhccc
Confidence            5678899997541       112222211  24678899998643221 1133444333333334789999999999854


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .. ......                  ...+    +   ..+ ...++++||++|.|++++++.+.+.+.
T Consensus       132 ~~-~~~~~~------------------~~~l----~---~~~-~~~~~e~SA~~g~~v~~lf~~l~~~i~  174 (216)
T PLN03110        132 LR-SVAEED------------------GQAL----A---EKE-GLSFLETSALEATNVEKAFQTILLEIY  174 (216)
T ss_pred             cc-CCCHHH------------------HHHH----H---HHc-CCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            32 111100                  0011    1   223 368999999999999999999876653

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.06  E-value=1.6e-09  Score=92.28  Aligned_cols=125  Identities=10%  Similarity=0.084  Sum_probs=68.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.+.||||+-....       +.+..  ....+++++++|.....+.......++..+... ..+.|.++|.||+|+.
T Consensus        49 ~~l~i~Dt~G~~~~~~-------~~~~~--~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~  118 (174)
T cd01871          49 VNLGLWDTAGQEDYDR-------LRPLS--YPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLR  118 (174)
T ss_pred             EEEEEEECCCchhhhh-------hhhhh--cCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEeeChhhc
Confidence            3678999999754211       11111  112468899999864322222112233322222 2368999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      ..+...+...+..        ...-.      .....++.++++...++++||++|+|++++++.+.+.
T Consensus       119 ~~~~~~~~~~~~~--------~~~v~------~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         119 DDKDTIEKLKEKK--------LTPIT------YPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             cChhhHHHHhhcc--------CCCCC------HHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            4331222111100        00000      0011233345665689999999999999999988764

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=99.06  E-value=2.1e-09  Score=102.84  Aligned_cols=152  Identities=10%  Similarity=0.180  Sum_probs=85.4

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      ..+|+.++++||+ |||||++..||.++...|++|.+++.||+.-..       +..+.+..+.   .++ |   +..+.
T Consensus       238 ~~~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaA-------vEQLk~yae~---lgi-p---v~v~~  303 (436)
T PRK11889        238 EKEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGT-------VQQLQDYVKT---IGF-E---VIAVR  303 (436)
T ss_pred             ccCCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHH-------HHHHHHHhhh---cCC-c---EEecC
Confidence            3567889999999 999999999999999999999999999986311       1111111111   111 1   11000


Q ss_pred             HhhhhcHHHHHHHHhhccC---CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYL---DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~---~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                           . ..-+.+.++...   ++++|||||||...  ........+.+.+... ..+-+++++++....  .+. ....
T Consensus       304 -----d-~~~L~~aL~~lk~~~~~DvVLIDTaGRs~--kd~~lm~EL~~~lk~~-~PdevlLVLsATtk~--~d~-~~i~  371 (436)
T PRK11889        304 -----D-EAAMTRALTYFKEEARVDYILIDTAGKNY--RASETVEEMIETMGQV-EPDYICLTLSASMKS--KDM-IEII  371 (436)
T ss_pred             -----C-HHHHHHHHHHHHhccCCCEEEEeCccccC--cCHHHHHHHHHHHhhc-CCCeEEEEECCccCh--HHH-HHHH
Confidence                 0 011222332221   46999999999754  2222334444444322 234567778875332  221 1111


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccch
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                         ..+... -..=++++|.|-..+-
T Consensus       372 ---~~F~~~-~idglI~TKLDET~k~  393 (436)
T PRK11889        372 ---TNFKDI-HIDGIVFTKFDETASS  393 (436)
T ss_pred             ---HHhcCC-CCCEEEEEcccCCCCc
Confidence               112223 3456889999986543

>COG2262 HflX GTPases [General function prediction only]

Probab=99.06  E-value=2.6e-09  Score=101.56  Aligned_cols=120  Identities=18%  Similarity=0.211  Sum_probs=84.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.+.++-||=|++...+| .+...|...|++...+++++++||++.. .....+......+.-+--...|+|.|+||+|+
T Consensus       239 g~~vlLtDTVGFI~~LP~-~LV~AFksTLEE~~~aDlllhVVDaSdp-~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~  316 (411)
T COG2262         239 GRKVLLTDTVGFIRDLPH-PLVEAFKSTLEEVKEADLLLHVVDASDP-EILEKLEAVEDVLAEIGADEIPIILVLNKIDL  316 (411)
T ss_pred             CceEEEecCccCcccCCh-HHHHHHHHHHHHhhcCCEEEEEeecCCh-hHHHHHHHHHHHHHHcCCCCCCEEEEEecccc
Confidence            457899999999876653 4456666677766667899999999744 22333444444444443356899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +.+. .....+                              +.... ..++|||++|.|++.|.+.|.+.++..
T Consensus       317 ~~~~-~~~~~~------------------------------~~~~~-~~v~iSA~~~~gl~~L~~~i~~~l~~~  358 (411)
T COG2262         317 LEDE-EILAEL------------------------------ERGSP-NPVFISAKTGEGLDLLRERIIELLSGL  358 (411)
T ss_pred             cCch-hhhhhh------------------------------hhcCC-CeEEEEeccCcCHHHHHHHHHHHhhhc
Confidence            8755 211111                              12222 789999999999999999999998843

>cd04169 RF3 RF3 subfamily

Probab=99.06  E-value=6.4e-09  Score=95.18  Aligned_cols=138  Identities=14%  Similarity=0.090  Sum_probs=77.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+...      .......+..   .+++++++|+...... ...+.      ......++|.++++||+|
T Consensus        70 ~~~i~liDTPG~~df------~~~~~~~l~~---aD~~IlVvda~~g~~~~~~~i~------~~~~~~~~P~iivvNK~D  134 (267)
T cd04169          70 DCVINLLDTPGHEDF------SEDTYRTLTA---VDSAVMVIDAAKGVEPQTRKLF------EVCRLRGIPIITFINKLD  134 (267)
T ss_pred             CEEEEEEECCCchHH------HHHHHHHHHH---CCEEEEEEECCCCccHHHHHHH------HHHHhcCCCEEEEEECCc
Confidence            568999999997541      1223334443   3678999999653222 22222      222346899999999999


Q ss_pred             cccchh-----hhhhhc--------------------------------C---------cc-hHHHHHHhhhc-------
Q 023298          193 LVTNKK-----EIEDYL--------------------------------N---------PE-SQFLLSELNQH-------  218 (284)
Q Consensus       193 ll~~~~-----~l~~~l--------------------------------~---------~~-~~~l~~~l~~~-------  218 (284)
                      +.....     ++.+.+                                .         .. ++.+.+.+.+.       
T Consensus       135 ~~~a~~~~~~~~l~~~l~~~~~~~~~Pi~~~~~~~g~vd~~~~~a~~~~~~~~~~~~~~~~~p~~~~e~~~e~~~~l~e~  214 (267)
T cd04169         135 REGRDPLELLDEIEEELGIDCTPLTWPIGMGKDFKGVYDRRTGEVELYDRGAGGATIAPEETKGLDDPKLDELGGDLAEQ  214 (267)
T ss_pred             cCCCCHHHHHHHHHHHHCCCceeEEecccCCCceEEEEEhhhCEEEEecCCCCCccceeccCCcccHHHHHhcCHHHHHH
Confidence            854321     111100                                0         00 21222222211       


Q ss_pred             ----chhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          219 ----MAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       219 ----~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                          ......++...+.+.+..-.+..++.-||.++.|+..|++.|..++|.
T Consensus       215 ~~e~~~~~~~~~~~~~~~~~~~~~~~Pv~~gsa~~~~Gv~~Lld~i~~~~P~  266 (267)
T cd04169         215 LREELELLEGAGPEFDQEAFLAGELTPVFFGSALNNFGVQELLDALVDLAPA  266 (267)
T ss_pred             HhCCCccchhhhHHHhHHHHHcCCEEEEEecccccCcCHHHHHHHHHHHCCC
Confidence                111111233333444455556777778999999999999999999874

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.06  E-value=7.1e-09  Score=90.99  Aligned_cols=179  Identities=16%  Similarity=0.170  Sum_probs=99.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcC----cccCchhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELG----LGPNGGLIY   92 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~----lgPng~l~~   92 (284)
                      +++.+.++|+. ||||||..++...+. .+.++.++.-|+..+   +    |-..       +++.+    ...+|.+ .
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~~~~-~~~~v~v~~~~~~~~---~----D~~~-------~~~~~~~~~~l~~gci-c   84 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLIDNLK-DEVKIAVIEGDVITK---F----DAER-------LRKYGAPAIQINTGKE-C   84 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHh-cCCeEEEEECCCCCc---c----cHHH-------HHHcCCcEEEEcCCCc-c
Confidence            68889999999 999999999998765 356999999887532   1    1111       11111    1134332 2


Q ss_pred             hhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHH
Q 023298           93 CMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMA  172 (284)
Q Consensus        93 ~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~  172 (284)
                      |+...  ...+.+. .+... +.++|+|+|.|.+..  ...    +  .+..    ...+.++|+.....   .+...  
T Consensus        85 ~~~~~--~~~~~l~-~~~~~-~~d~IiIEt~G~l~~--~~~----~--~~~~----~~~i~Vvd~~~~d~---~~~~~--  143 (207)
T TIGR00073        85 HLDAH--MVAHALE-DLPLD-DIDLLFIENVGNLVC--PAD----F--DLGE----HMRVVLLSVTEGDD---KPLKY--  143 (207)
T ss_pred             cCChH--HHHHHHH-HhccC-CCCEEEEecCCCcCC--Ccc----c--cccc----CeEEEEEecCcccc---hhhhh--
Confidence            32210  0101121 22211 569999999993221  000    0  0111    23345777753321   11110  


Q ss_pred             HHHHHHhcCCCEEEEecCCccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc
Q 023298          173 SLSAMVQLELPHVNILSKMDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES  251 (284)
Q Consensus       173 ~l~~~~~~~~p~IlVlNK~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~  251 (284)
                          ....+.|.++|+||+|+..... ...+..+                       .+.   +......++++||+++.
T Consensus       144 ----~~~~~~a~iiv~NK~Dl~~~~~~~~~~~~~-----------------------~l~---~~~~~~~i~~~Sa~~g~  193 (207)
T TIGR00073       144 ----PGMFKEADLIVINKADLAEAVGFDVEKMKA-----------------------DAK---KINPEAEIILMSLKTGE  193 (207)
T ss_pred             ----HhHHhhCCEEEEEHHHccccchhhHHHHHH-----------------------HHH---HhCCCCCEEEEECCCCC
Confidence                0123578999999999975320 1211110                       011   11234789999999999


Q ss_pred             cHHHHHHHHHHh
Q 023298          252 SIRYVLSQIDNC  263 (284)
Q Consensus       252 ~l~~Ll~~I~~~  263 (284)
                      |++.+++.+.+.
T Consensus       194 gv~~l~~~i~~~  205 (207)
T TIGR00073       194 GLDEWLEFLEGQ  205 (207)
T ss_pred             CHHHHHHHHHHh
Confidence            999999998764

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd04110 Rab35 Rab35 subfamily

Probab=99.06  E-value=6e-09  Score=90.54  Aligned_cols=109  Identities=12%  Similarity=0.170  Sum_probs=64.8

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .+.++||||+...       ..+... +..   .+++++++|+..   +..|  +..++..+... ....|.++|.||+|
T Consensus        56 ~l~l~D~~G~~~~-------~~~~~~~~~~---a~~iilv~D~~~---~~s~~~~~~~~~~i~~~-~~~~piivVgNK~D  121 (199)
T cd04110          56 KLQIWDTAGQERF-------RTITSTYYRG---THGVIVVYDVTN---GESFVNVKRWLQEIEQN-CDDVCKVLVGNKND  121 (199)
T ss_pred             EEEEEeCCCchhH-------HHHHHHHhCC---CcEEEEEEECCC---HHHHHHHHHHHHHHHHh-CCCCCEEEEEECcc
Confidence            5689999997431       112222 222   357899999863   3333  33333322221 23579999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ .....      .            .       .++...++ ..++++||++|.|++++++.|.+.+-
T Consensus       122 l~~~~-~~~~~------~------------~-------~~~~~~~~-~~~~e~Sa~~~~gi~~lf~~l~~~~~  167 (199)
T cd04110         122 DPERK-VVETE------D------------A-------YKFAGQMG-ISLFETSAKENINVEEMFNCITELVL  167 (199)
T ss_pred             ccccc-ccCHH------H------------H-------HHHHHHcC-CEEEEEECCCCcCHHHHHHHHHHHHH
Confidence            86432 11100      0            0       11112233 67999999999999999998877653

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>TIGR00959 ffh signal recognition particle protein

Probab=99.06  E-value=2.6e-09  Score=103.73  Aligned_cols=42  Identities=12%  Similarity=0.118  Sum_probs=38.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH-hcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE-TVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~-~~g~~v~iVdLDPq~~   59 (284)
                      +|.+++++|++ |||||+|.+||.++. +.|++|++|++|+...
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~  141 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRP  141 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccch
Confidence            48899999999 999999999999987 5899999999998664

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.

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=99.06  E-value=2.1e-09  Score=84.78  Aligned_cols=38  Identities=16%  Similarity=0.124  Sum_probs=33.9

Q ss_pred             EEEECC-C-CcHHHHHHHHHHHHHhc-CCceEEEecCcCCC
Q 023298           22 KCVFSP-P-PNQSTYCSSLYRHCETV-RRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~-~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq~~   59 (284)
                      +.|+|. | +||||++.+|+..+++. |++|+++|+|||.+
T Consensus         2 i~~~~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~~~~   42 (106)
T cd03111           2 IAFIGAKGGVGATTLAANLAVALAKEAGRRVLLVDLDLQFG   42 (106)
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCCCCC
Confidence            455665 5 99999999999999998 99999999999975

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=99.06  E-value=1.4e-09  Score=112.52  Aligned_cols=159  Identities=11%  Similarity=0.003  Sum_probs=87.2

Q ss_pred             cCceEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC----CCCCccccccc----cccHHHHh-----hh
Q 023298           17 YALVIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN----FDYPVAMDIRE----LISLEDVM-----EE   81 (284)
Q Consensus        17 ~~~~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~----~~~~~~~dir~----~i~~~~vm-----~~   81 (284)
                      .+++++.|+++.  +||||+|.|||..+++.|+||++||+||+...    +.......+.+    -.++++++     ++
T Consensus       544 ~~~kvi~vts~~~G~GKTt~a~nLA~~lA~~g~rvLlID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~  623 (754)
T TIGR01005       544 AEPEVVETQRPRPVLGKSDIEANAAALIASGGKRALLIDADGRKAALSQILVAREVSGLLDLLAGLRSLLLDLTASGAAS  623 (754)
T ss_pred             CCceEEEeecCCCCCChhHHHHHHHHHHHhCCCeEEEEeCCCCchhHHHHhCCcccCChHHHHcCCccHHHHhccCCCCC
Confidence            355677788774  99999999999999999999999999999642    12111111111    12233322     23


Q ss_pred             cCcccCchhhhh-hHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCC
Q 023298           82 LGLGPNGGLIYC-MEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQF  159 (284)
Q Consensus        82 ~~lgPng~l~~~-~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~  159 (284)
                      ..+.|.|..... .+.+. ..+.+.+. .+.+  +++||||||||......        ...+..  ..+.+++++....
T Consensus       624 l~~l~~g~~~~~~~~ll~~~~~~~~l~-~l~~--~yD~IiID~pp~~~~~d--------~~~l~~--~~D~vl~v~~~~~  690 (754)
T TIGR01005       624 LPMLDSGLFPHGITELLASPAMFSLVI-HARL--YSDCVVVDVGTADPVRD--------MRAAAR--LAIIMLLVTAYDR  690 (754)
T ss_pred             eeEecCCCCCCCHHHHhccHHHHHHHH-HHHh--hCCEEEEcCCCcchhHH--------HHHhhh--hCCeEEEEEEeCc
Confidence            455565543221 22222 22222222 3332  68999999999765211        111221  2345666654322


Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCE-EEEecCCcc
Q 023298          160 ITDVTKFISGCMASLSAMVQLELPH-VNILSKMDL  193 (284)
Q Consensus       160 ~~~~~~~i~~~l~~l~~~~~~~~p~-IlVlNK~Dl  193 (284)
                      .  +..-+..   ++..+.+.+.++ -+|+|++|.
T Consensus       691 ~--~~~~~~~---~~~~l~~~~~~~~GvvlN~~~~  720 (754)
T TIGR01005       691 V--VVECGRA---DAQGISRLNGEVTGVFLNMLDP  720 (754)
T ss_pred             e--eHHHHHH---HHHHHHhcCCceEEEEecCCCh
Confidence            2  2222222   233344455554 588999985

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>cd04177 RSR1 RSR1 subgroup

Probab=99.06  E-value=2.5e-09  Score=89.85  Aligned_cols=111  Identities=15%  Similarity=0.203  Sum_probs=65.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      ..+-++||||+....   .    +.+. +..   .+.+++++|...   +..+  +..+...+.... ..++|.++|.||
T Consensus        49 ~~~~i~Dt~G~~~~~---~----~~~~~~~~---~~~~vlv~~~~~---~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  115 (168)
T cd04177          49 CDLEILDTAGTEQFT---A----MRELYIKS---GQGFLLVYSVTS---EASLNELGELREQVLRIKDSDNVPMVLVGNK  115 (168)
T ss_pred             EEEEEEeCCCcccch---h----hhHHHHhh---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhhCCCCCCEEEEEEC
Confidence            356789999976421   1    2222 222   245677777653   3222  233323222222 347999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+...+ .+..-.                         ...+...++...++++||++|.|++++++.+.+.+
T Consensus       116 ~D~~~~~-~~~~~~-------------------------~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~  163 (168)
T cd04177         116 ADLEDDR-QVSRED-------------------------GVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQI  163 (168)
T ss_pred             hhccccC-ccCHHH-------------------------HHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            9986433 111000                         01112345557899999999999999999987643

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd04148 RGK RGK subfamily

Probab=99.05  E-value=3.9e-09  Score=93.65  Aligned_cols=112  Identities=15%  Similarity=0.067  Sum_probs=66.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      ..++.++||||+.. +        +....... ..+++++++|+..   +..|  +..++..+.... ..+.|+|+|.||
T Consensus        49 ~~~l~i~Dt~G~~~-~--------~~~~~~~~-~ad~iilV~d~td---~~S~~~~~~~~~~l~~~~~~~~~piilV~NK  115 (221)
T cd04148          49 ESTLVVIDHWEQEM-W--------TEDSCMQY-QGDAFVVVYSVTD---RSSFERASELRIQLRRNRQLEDRPIILVGNK  115 (221)
T ss_pred             EEEEEEEeCCCcch-H--------HHhHHhhc-CCCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence            34678999999751 0        11111110 2467888998863   3333  233333222221 146899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+.... .+..-.                  .       .++...++ ..++++||+++.|++++++.|.+.+.
T Consensus       116 ~Dl~~~~-~v~~~~------------------~-------~~~a~~~~-~~~~e~SA~~~~gv~~l~~~l~~~~~  163 (221)
T cd04148         116 SDLARSR-EVSVQE------------------G-------RACAVVFD-CKFIETSAGLQHNVDELLEGIVRQIR  163 (221)
T ss_pred             hhccccc-eecHHH------------------H-------HHHHHHcC-CeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            9986533 211000                  0       01112233 47899999999999999999987764

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=99.05  E-value=1e-09  Score=104.23  Aligned_cols=108  Identities=18%  Similarity=0.233  Sum_probs=68.1

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCcccccc----ccccHHHHhh--hc---Cc
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIR----ELISLEDVME--EL---GL   84 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir----~~i~~~~vm~--~~---~l   84 (284)
                      +.+++-.++|+||- ||||||+.-|++-+.++|++|.+||+||+++....|..+...    -.+...+.-.  .+   ++
T Consensus        69 ~~~~~~~vmvvG~vDSGKSTLt~~LaN~~l~rG~~v~iiDaDvGQ~ei~pPg~ISL~~~~s~~~~L~~l~~~~~~FvG~i  148 (398)
T COG1341          69 SAGKVGVVMVVGPVDSGKSTLTTYLANKLLARGRKVAIIDADVGQSEIGPPGFISLAFPESPVISLSELEPFTLYFVGSI  148 (398)
T ss_pred             hccCCcEEEEECCcCcCHHHHHHHHHHHHhhcCceEEEEeCCCCCcccCCCceEEeecccCCCCCHHHcCccceEEEecc
Confidence            45667779999999 999999999999999999999999999999976443222111    1111211100  01   22


Q ss_pred             ccCchhhhhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccc
Q 023298           85 GPNGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELF  129 (284)
Q Consensus        85 gPng~l~~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~  129 (284)
                      .|.+.....+...     .+|.+..++  ..++++|||||++...
T Consensus       149 sP~~~~~~~i~~v-----~rL~~~a~~--~~~~ilIdT~GWi~G~  186 (398)
T COG1341         149 SPQGFPGRYIAGV-----ARLVDLAKK--EADFILIDTDGWIKGW  186 (398)
T ss_pred             CCCCChHHHHHHH-----HHHHHHhhc--cCCEEEEcCCCceeCc
Confidence            3554432222111     233333333  3589999999999753

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.05  E-value=5.4e-09  Score=101.00  Aligned_cols=114  Identities=15%  Similarity=0.195  Sum_probs=67.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcC-CCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLE-LPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~D  192 (284)
                      ..+.++||||+..      ....+...+..   .+++++++|+.... .+...  ..+.   .+...+ +|.++|+||+|
T Consensus        80 ~~i~liDtPGh~~------f~~~~~~g~~~---aD~aIlVVDa~~g~~~~qt~--e~l~---~l~~~gi~~iIVvvNK~D  145 (406)
T TIGR03680        80 RRVSFVDAPGHET------LMATMLSGAAL---MDGALLVIAANEPCPQPQTK--EHLM---ALEIIGIKNIVIVQNKID  145 (406)
T ss_pred             cEEEEEECCCHHH------HHHHHHHHHHH---CCEEEEEEECCCCccccchH--HHHH---HHHHcCCCeEEEEEEccc
Confidence            4689999999643      12223333322   46899999997432 22111  1111   112333 46899999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +...+ ......+                       .+.+++..+  ....++|+||++|+|++.|++.+.+.++.
T Consensus       146 l~~~~-~~~~~~~-----------------------~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~~  197 (406)
T TIGR03680       146 LVSKE-KALENYE-----------------------EIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIPT  197 (406)
T ss_pred             cCCHH-HHHHHHH-----------------------HHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCCC
Confidence            97533 2211110                       111122221  13579999999999999999999997763

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=99.05  E-value=2.4e-08  Score=90.59  Aligned_cols=39  Identities=13%  Similarity=0.076  Sum_probs=37.0

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+++.|.| +||||.+.++|.++++.|+||++||+||+.+
T Consensus         2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~D~~~s   41 (254)
T cd00550           2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVSTDPAHS   41 (254)
T ss_pred             EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeCCCccc
Confidence            58899999 9999999999999999999999999999875

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>cd04176 Rap2 Rap2 subgroup

Probab=99.05  E-value=4.2e-09  Score=87.53  Aligned_cols=109  Identities=15%  Similarity=0.239  Sum_probs=64.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      .+-+.||||+...   +.    +... +..   ++++++++|...   +..+  +..++..+.... ..++|+++|.||+
T Consensus        50 ~l~i~Dt~G~~~~---~~----~~~~~~~~---ad~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~  116 (163)
T cd04176          50 VLEILDTAGTEQF---AS----MRDLYIKN---GQGFIVVYSLVN---QQTFQDIKPMRDQIVRVKGYEKVPIILVGNKV  116 (163)
T ss_pred             EEEEEECCCcccc---cc----hHHHHHhh---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECc
Confidence            4678999997542   11    2122 222   356888888753   3322  333333322222 2479999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ......                      .   ..+...++ ..++++||++|.|+.+++..+.+.+
T Consensus       117 Dl~~~~-~~~~~~----------------------~---~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         117 DLESER-EVSSAE----------------------G---RALAEEWG-CPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             cchhcC-ccCHHH----------------------H---HHHHHHhC-CEEEEecCCCCCCHHHHHHHHHHhc
Confidence            985422 111000                      0   01112233 4789999999999999999987654

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=99.05  E-value=2.7e-09  Score=95.18  Aligned_cols=147  Identities=14%  Similarity=0.158  Sum_probs=81.0

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      |.+.+.-..| +||||.+..||..|+++|++|.+||.||+.....|..      .      ..+-+-.|++-.++..+ -
T Consensus         2 ~vItf~s~KGGaGKTT~~~~LAs~la~~G~~V~lIDaDpn~pl~~W~~------~------a~~~~~~~~~~~V~~~~-e   68 (231)
T PF07015_consen    2 PVITFASSKGGAGKTTAAMALASELAARGARVALIDADPNQPLAKWAE------N------AQRPGAWPDRIEVYEAD-E   68 (231)
T ss_pred             CeEEEecCCCCCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCcHHHHHH------h------ccccCCCCCCeeEEecc-c
Confidence            3444455558 9999999999999999999999999999998665510      0      00001112211122111 0


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCC-CCHHHHH--HHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFI-TDVTKFI--SGCMAS  173 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~-~~~~~~i--~~~l~~  173 (284)
                      ...+++.+. ..+.. .++||||||+|.-..+         ... +...|  .+   |||...- .+-+.-.  ..++..
T Consensus        69 ~~~l~~~~e-~a~~~-~~d~VlvDleG~as~~---------~~~aia~sD--lV---lIP~~~s~lD~~eA~~t~~~v~~  132 (231)
T PF07015_consen   69 LTILEDAYE-AAEAS-GFDFVLVDLEGGASEL---------NDYAIARSD--LV---LIPMQPSQLDADEAAKTFKWVRR  132 (231)
T ss_pred             hhhHHHHHH-HHHhc-CCCEEEEeCCCCCchh---------HHHHHHHCC--EE---EECCCCChHHHHHHHHHHHHHHH
Confidence            112222222 11211 4699999999965422         222 33333  22   5666432 2222221  222232


Q ss_pred             HHHHHhcCCCEEEEecCCccc
Q 023298          174 LSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       174 l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      +....+...|+-++++++...
T Consensus       133 ~~~~~~~~ip~~Vl~Tr~~~~  153 (231)
T PF07015_consen  133 LEKAERRDIPAAVLFTRVPAA  153 (231)
T ss_pred             HHHhhCCCCCeeEEEecCCcc
Confidence            333345678999999999853

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.05  E-value=3.1e-09  Score=88.75  Aligned_cols=113  Identities=15%  Similarity=0.194  Sum_probs=65.3

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH--hcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV--QLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~--~~~~p~IlVlNK~Dl  193 (284)
                      .+-++||||+...+..     .....+..   .+++++++|+....+-.. +..++..+....  ..+.|.++|.||+|+
T Consensus        48 ~~~i~D~~g~~~~~~~-----~~~~~~~~---~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~piilv~nK~Dl  118 (165)
T cd04146          48 SLEILDTAGQQQADTE-----QLERSIRW---ADGFVLVYSITDRSSFDE-ISQLKQLIREIKKRDREIPVILVGNKADL  118 (165)
T ss_pred             EEEEEECCCCcccccc-----hHHHHHHh---CCEEEEEEECCCHHHHHH-HHHHHHHHHHHhcCCCCCCEEEEEECCch
Confidence            5679999997642111     01122332   367899999864322111 233333333322  237899999999997


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCc-ccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKE-SSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~-~~l~~Ll~~I~~~l  264 (284)
                      ...+ .+..-          +               ..++.+.++ ..++++||++| .|+++++..+.+.+
T Consensus       119 ~~~~-~v~~~----------~---------------~~~~~~~~~-~~~~e~Sa~~~~~~v~~~f~~l~~~~  163 (165)
T cd04146         119 LHYR-QVSTE----------E---------------GEKLASELG-CLFFEVSAAEDYDGVHSVFHELCREV  163 (165)
T ss_pred             HHhC-ccCHH----------H---------------HHHHHHHcC-CEEEEeCCCCCchhHHHHHHHHHHHH
Confidence            5322 11100          0               011113344 57899999999 59999999987654

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>PTZ00369 Ras-like protein; Provisional

Probab=99.05  E-value=5.7e-09  Score=89.80  Aligned_cols=112  Identities=13%  Similarity=0.196  Sum_probs=65.5

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~Dl  193 (284)
                      .+-++||||+.+..   .    +... +..   .+++++++|+....+- +.+..+...+.... ..+.|+++|.||+|+
T Consensus        54 ~l~i~Dt~G~~~~~---~----l~~~~~~~---~d~iilv~D~s~~~s~-~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  122 (189)
T PTZ00369         54 LLDILDTAGQEEYS---A----MRDQYMRT---GQGFLCVYSITSRSSF-EEIASFREQILRVKDKDRVPMILVGNKCDL  122 (189)
T ss_pred             EEEEEeCCCCccch---h----hHHHHhhc---CCEEEEEEECCCHHHH-HHHHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            46689999976521   1    2222 222   4678899998633211 11334433332222 236799999999997


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... .+....                      .   .+....++ ..++++||++|.|+++++..+.+.+.
T Consensus       123 ~~~~-~i~~~~----------------------~---~~~~~~~~-~~~~e~Sak~~~gi~~~~~~l~~~l~  167 (189)
T PTZ00369        123 DSER-QVSTGE----------------------G---QELAKSFG-IPFLETSAKQRVNVDEAFYELVREIR  167 (189)
T ss_pred             cccc-ccCHHH----------------------H---HHHHHHhC-CEEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            5422 111100                      0   01112233 47899999999999999998877654

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=99.05  E-value=3.8e-09  Score=96.33  Aligned_cols=43  Identities=9%  Similarity=-0.005  Sum_probs=37.7

Q ss_pred             CceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           18 ALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        18 ~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +++++.|+++ | +||||++.|||..+++.|+||++||+|++...
T Consensus       102 ~~~vi~vts~~~g~Gktt~a~nLA~~la~~g~~VllID~D~~~~~  146 (274)
T TIGR03029       102 GRKALAVVSAKSGEGCSYIAANLAIVFSQLGEKTLLIDANLRDPV  146 (274)
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHHHhcCCeEEEEeCCCCCcc
Confidence            4566777777 4 99999999999999999999999999998764

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>PLN03126 Elongation factor Tu; Provisional

Probab=99.04  E-value=9.5e-09  Score=101.24  Aligned_cols=113  Identities=19%  Similarity=0.268  Sum_probs=68.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCC-EEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELP-HVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p-~IlVlNK~  191 (284)
                      +.++.+|||||+..      ....+...+..   .+++++++|+.....+.. -..      ......++| .|+++||+
T Consensus       143 ~~~i~liDtPGh~~------f~~~~~~g~~~---aD~ailVVda~~G~~~qt~e~~------~~~~~~gi~~iIvvvNK~  207 (478)
T PLN03126        143 NRHYAHVDCPGHAD------YVKNMITGAAQ---MDGAILVVSGADGPMPQTKEHI------LLAKQVGVPNMVVFLNKQ  207 (478)
T ss_pred             CcEEEEEECCCHHH------HHHHHHHHHhh---CCEEEEEEECCCCCcHHHHHHH------HHHHHcCCCeEEEEEecc
Confidence            55889999999644      22334444433   468899999875433322 121      123356888 56789999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC----CceEEEEeccCccc---------------
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS----MVSFMPLDLRKESS---------------  252 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~----~~~~ipiSa~~~~~---------------  252 (284)
                      |++.++ +..+.+                      ...+.+++...+    ...|+|+|+.+|.+               
T Consensus       208 Dl~~~~-~~~~~i----------------------~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~n~~~~~~~~~~g~~~w  264 (478)
T PLN03126        208 DQVDDE-ELLELV----------------------ELEVRELLSSYEFPGDDIPIISGSALLALEALMENPNIKRGDNKW  264 (478)
T ss_pred             cccCHH-HHHHHH----------------------HHHHHHHHHhcCCCcCcceEEEEEccccccccccccccccCCCch
Confidence            997643 222211                      112234444443    36799999998842               


Q ss_pred             ---HHHHHHHHHHhc
Q 023298          253 ---IRYVLSQIDNCI  264 (284)
Q Consensus       253 ---l~~Ll~~I~~~l  264 (284)
                         +..|++.|++..
T Consensus       265 y~~i~~Ll~~l~~~~  279 (478)
T PLN03126        265 VDKIYELMDAVDSYI  279 (478)
T ss_pred             hhhHHHHHHHHHHhC
Confidence               457888888764

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.04  E-value=5e-09  Score=101.46  Aligned_cols=113  Identities=13%  Similarity=0.163  Sum_probs=68.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHH-HHHHHHHHHHHHhcC-CCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKF-ISGCMASLSAMVQLE-LPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~-i~~~l~~l~~~~~~~-~p~IlVlNK~  191 (284)
                      +++.++||||+..      ....+...+.   ..+++++++|+.... .+... ....      +...+ .|.++|+||+
T Consensus        85 ~~i~liDtPG~~~------f~~~~~~~~~---~~D~~llVVDa~~~~~~~~t~~~l~~------l~~~~i~~iiVVlNK~  149 (411)
T PRK04000         85 RRVSFVDAPGHET------LMATMLSGAA---LMDGAILVIAANEPCPQPQTKEHLMA------LDIIGIKNIVIVQNKI  149 (411)
T ss_pred             cEEEEEECCCHHH------HHHHHHHHHh---hCCEEEEEEECCCCCCChhHHHHHHH------HHHcCCCcEEEEEEee
Confidence            5789999999533      1222322222   246799999997532 22221 1111      12344 4689999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+.+.+ ......+                       .+.+++..+  ....++|+||++|+|++.|++.|.+.++.
T Consensus       150 Dl~~~~-~~~~~~~-----------------------~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        150 DLVSKE-RALENYE-----------------------QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             ccccch-hHHHHHH-----------------------HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCC
Confidence            997643 2211110                       111222221  23679999999999999999999998764

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.04  E-value=7.1e-09  Score=92.92  Aligned_cols=25  Identities=8%  Similarity=0.040  Sum_probs=22.4

Q ss_pred             eEEEEeccCcccHHHHHHHHHHhcC
Q 023298          241 SFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       241 ~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .++++||++|.|+++|++.|.+.+.
T Consensus       202 ~~~~~SA~~g~gi~~l~~~i~~~L~  226 (233)
T cd01896         202 NSVVISAEKGLNLDELKERIWDKLG  226 (233)
T ss_pred             CEEEEcCCCCCCHHHHHHHHHHHhC
Confidence            5889999999999999999988764

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>cd04117 Rab15 Rab15 subfamily

Probab=99.04  E-value=3.8e-09  Score=88.42  Aligned_cols=112  Identities=13%  Similarity=0.161  Sum_probs=65.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+-+.||||+....       .+......  ..+++++++|.....+-.. +..++..+......+.|.++|-||.|+.
T Consensus        49 ~~l~i~D~~g~~~~~-------~~~~~~~~--~~~~~i~v~d~~~~~sf~~-~~~~~~~~~~~~~~~~~iilvgnK~Dl~  118 (161)
T cd04117          49 VRIQIWDTAGQERYQ-------TITKQYYR--RAQGIFLVYDISSERSYQH-IMKWVSDVDEYAPEGVQKILIGNKADEE  118 (161)
T ss_pred             EEEEEEeCCCcHhHH-------hhHHHHhc--CCcEEEEEEECCCHHHHHH-HHHHHHHHHHhCCCCCeEEEEEECcccc
Confidence            356789999975411       12222211  2467888999764322111 3444443333333468999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      ... .+..-.                      .   ..+.+..+ ..++++||++|.|+++++..|.+.
T Consensus       119 ~~~-~v~~~~----------------------~---~~~~~~~~-~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         119 QKR-QVGDEQ----------------------G---NKLAKEYG-MDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             ccc-CCCHHH----------------------H---HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHhh
Confidence            432 111100                      0   01112233 678999999999999999988764

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.03  E-value=5.6e-09  Score=88.69  Aligned_cols=112  Identities=14%  Similarity=0.168  Sum_probs=65.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+.+.       ..+.+. +..   .+++++++|.....+... +..+...+.... ..+.|+++|.||+|
T Consensus        50 ~~l~i~Dt~G~~~~-------~~l~~~~~~~---~d~~ilv~d~~~~~Sf~~-~~~~~~~i~~~~~~~~~piilvgNK~D  118 (172)
T cd04141          50 ALLDILDTAGQAEF-------TAMRDQYMRC---GEGFIICYSVTDRHSFQE-ASEFKKLITRVRLTEDIPLVLVGNKVD  118 (172)
T ss_pred             EEEEEEeCCCchhh-------HHHhHHHhhc---CCEEEEEEECCchhHHHH-HHHHHHHHHHhcCCCCCCEEEEEEChh
Confidence            35788999998542       112222 222   357888888763322222 223333233332 24689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +.... .+..-.                      .   .++...++ ..++++||++|.|++++++.+.+.+
T Consensus       119 l~~~~-~v~~~~----------------------~---~~~a~~~~-~~~~e~Sa~~~~~v~~~f~~l~~~~  163 (172)
T cd04141         119 LESQR-QVTTEE----------------------G---RNLAREFN-CPFFETSAALRHYIDDAFHGLVREI  163 (172)
T ss_pred             hhhcC-ccCHHH----------------------H---HHHHHHhC-CEEEEEecCCCCCHHHHHHHHHHHH
Confidence            85432 111000                      0   01112333 4799999999999999999887654

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>PRK12739 elongation factor G; Reviewed

Probab=99.03  E-value=8.2e-09  Score=106.01  Aligned_cols=67  Identities=16%  Similarity=0.235  Sum_probs=45.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.++||||++.      ......+.+..   .+++++++|+...-.+ +..+..      ...+.++|.|+++||+|
T Consensus        72 ~~~i~liDTPG~~~------f~~e~~~al~~---~D~~ilVvDa~~g~~~qt~~i~~------~~~~~~~p~iv~iNK~D  136 (691)
T PRK12739         72 GHRINIIDTPGHVD------FTIEVERSLRV---LDGAVAVFDAVSGVEPQSETVWR------QADKYGVPRIVFVNKMD  136 (691)
T ss_pred             CEEEEEEcCCCHHH------HHHHHHHHHHH---hCeEEEEEeCCCCCCHHHHHHHH------HHHHcCCCEEEEEECCC
Confidence            56899999999764      12234444544   3689999999754332 332322      23357899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       137 ~~~  139 (691)
T PRK12739        137 RIG  139 (691)
T ss_pred             CCC
Confidence            975

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=99.03  E-value=3.5e-09  Score=102.92  Aligned_cols=151  Identities=14%  Similarity=0.212  Sum_probs=80.3

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH--hcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE--TVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYC   93 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~--~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~   93 (284)
                      .+..+++++||+ |||||++.+||.++.  ..|++|.+|+.||+....       +..+-++.+.   .++ |-- ....
T Consensus       219 ~~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a-------~eqL~~~a~~---~~v-p~~-~~~~  286 (424)
T PRK05703        219 KQGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGA-------VEQLKTYAKI---MGI-PVE-VVYD  286 (424)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHH-------HHHHHHHHHH---hCC-ceE-ccCC
Confidence            345578999999 999999999999998  467899999999986421       0001011111   111 110 0000


Q ss_pred             hHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH
Q 023298           94 MEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS  173 (284)
Q Consensus        94 ~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~  173 (284)
                      .        +-+.+.+.+..++++|+|||||....  .......+...+.......-+.+++++..-  +..+ ....  
T Consensus       287 ~--------~~l~~~l~~~~~~DlVlIDt~G~~~~--d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l-~~~~--  351 (424)
T PRK05703        287 P--------KELAKALEQLRDCDVILIDTAGRSQR--DKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDL-KDIY--  351 (424)
T ss_pred             H--------HhHHHHHHHhCCCCEEEEeCCCCCCC--CHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHH-HHHH--
Confidence            0        11223333333679999999997541  111222333333312223345666777422  2221 1111  


Q ss_pred             HHHHHhcCCCEEEEecCCccccc
Q 023298          174 LSAMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       174 l~~~~~~~~p~IlVlNK~Dll~~  196 (284)
                       ..+...+ +.=++++|+|-...
T Consensus       352 -~~f~~~~-~~~vI~TKlDet~~  372 (424)
T PRK05703        352 -KHFSRLP-LDGLIFTKLDETSS  372 (424)
T ss_pred             -HHhCCCC-CCEEEEeccccccc
Confidence             1222233 34688999997543

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=99.02  E-value=4.7e-09  Score=94.94  Aligned_cols=190  Identities=18%  Similarity=0.250  Sum_probs=95.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh---
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM---   94 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~---   94 (284)
                      -.++=|.||| +|||||+..|...+.+.|++|.++-.||....+.-.   =+-|-+..++.-.    -|| ..+.++   
T Consensus        29 a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGA---lLGDRiRM~~~~~----d~~-vfIRS~atR  100 (266)
T PF03308_consen   29 AHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGA---LLGDRIRMQELSR----DPG-VFIRSMATR  100 (266)
T ss_dssp             SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC------SS--GGGCHHHHT----STT-EEEEEE---
T ss_pred             ceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCc---ccccHHHhcCcCC----CCC-EEEeecCcC
Confidence            3457799999 999999999999999999999999999988643311   1112222221111    111 111110   


Q ss_pred             ---HhhhhcHHHHHHHHhhccCCCCEEEEeCCC--CcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHH
Q 023298           95 ---EHLEDNLDDWLAEELDNYLDDDYLVFDCPG--QIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISG  169 (284)
Q Consensus        95 ---e~~~~~~~~~l~~~l~~~~~~~~viiDtPg--~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~  169 (284)
                         .-+.....+. ...++.+ .+++|||-|-|  |.|.-            +.  +..+.+++++-+... +.-..+..
T Consensus       101 G~lGGls~~t~~~-v~ll~aa-G~D~IiiETVGvGQsE~~------------I~--~~aD~~v~v~~Pg~G-D~iQ~~Ka  163 (266)
T PF03308_consen  101 GSLGGLSRATRDA-VRLLDAA-GFDVIIIETVGVGQSEVD------------IA--DMADTVVLVLVPGLG-DEIQAIKA  163 (266)
T ss_dssp             SSHHHHHHHHHHH-HHHHHHT-T-SEEEEEEESSSTHHHH------------HH--TTSSEEEEEEESSTC-CCCCTB-T
T ss_pred             CCCCCccHhHHHH-HHHHHHc-CCCEEEEeCCCCCccHHH------------HH--HhcCeEEEEecCCCc-cHHHHHhh
Confidence               0011111111 1234444 78999999998  44411            21  223444444433221 11111111


Q ss_pred             HHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc--cCC-ceEEEEe
Q 023298          170 CMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE--YSM-VSFMPLD  246 (284)
Q Consensus       170 ~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~--~~~-~~~ipiS  246 (284)
                      -+        ++..=|+|+||+|.-..+....++.                        .+.++...  .+. ..++..|
T Consensus       164 Gi--------mEiaDi~vVNKaD~~gA~~~~~~l~------------------------~~l~l~~~~~~~W~ppV~~ts  211 (266)
T PF03308_consen  164 GI--------MEIADIFVVNKADRPGADRTVRDLR------------------------SMLHLLREREDGWRPPVLKTS  211 (266)
T ss_dssp             TH--------HHH-SEEEEE--SHHHHHHHHHHHH------------------------HHHHHCSTSCTSB--EEEEEB
T ss_pred             hh--------hhhccEEEEeCCChHHHHHHHHHHH------------------------HHHhhccccccCCCCCEEEEE
Confidence            11        2346799999999533221111110                        11112121  122 5799999


Q ss_pred             ccCcccHHHHHHHHHHhcC
Q 023298          247 LRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       247 a~~~~~l~~Ll~~I~~~l~  265 (284)
                      |.+++|+++|.+.|++...
T Consensus       212 A~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  212 ALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             TTTTBSHHHHHHHHHHHHH
T ss_pred             eCCCCCHHHHHHHHHHHHH
Confidence            9999999999999998643

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.02  E-value=3e-09  Score=99.18  Aligned_cols=174  Identities=14%  Similarity=0.200  Sum_probs=110.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      +=|.|-- |||||++++|+..     -+...+|-.||..+-..+                 ++||-++-.+.+=      
T Consensus        10 ~GiLGHvDSGKTtLarals~~-----~STaAFDk~pqS~eRgiT-----------------LDLGFS~~~v~~p------   61 (522)
T KOG0461|consen   10 LGILGHVDSGKTTLARALSEL-----GSTAAFDKHPQSTERGIT-----------------LDLGFSTMTVLSP------   61 (522)
T ss_pred             eeeEeeccCchHHHHHHHHhh-----ccchhhccCCccccccee-----------------Eeecceeeecccc------
Confidence            4467888 9999999999885     346677888887652221                 2333222111110      


Q ss_pred             HHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh
Q 023298          101 LDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ  179 (284)
Q Consensus       101 ~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~  179 (284)
                            ..|-+-..-|+.+|||||+..          +++.+- .+...++++.+||+.....+..-  .+   +..-..
T Consensus        62 ------arLpq~e~lq~tlvDCPGHas----------LIRtiiggaqiiDlm~lviDv~kG~QtQtA--Ec---Liig~~  120 (522)
T KOG0461|consen   62 ------ARLPQGEQLQFTLVDCPGHAS----------LIRTIIGGAQIIDLMILVIDVQKGKQTQTA--EC---LIIGEL  120 (522)
T ss_pred             ------cccCccccceeEEEeCCCcHH----------HHHHHHhhhheeeeeeEEEehhcccccccc--hh---hhhhhh
Confidence                  011110034899999999654          445443 44566889999999865433221  11   111223


Q ss_pred             cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC---ceEEEEeccCc----cc
Q 023298          180 LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM---VSFMPLDLRKE----SS  252 (284)
Q Consensus       180 ~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~---~~~ipiSa~~~----~~  252 (284)
                      +.+..|+|+||+|.+... +-                   .++..++..++..-++..+|   ..++++||.+|    ++
T Consensus       121 ~c~klvvvinkid~lpE~-qr-------------------~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~  180 (522)
T KOG0461|consen  121 LCKKLVVVINKIDVLPEN-QR-------------------ASKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEM  180 (522)
T ss_pred             hccceEEEEeccccccch-hh-------------------hhHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhH
Confidence            456789999999988643 11                   12344667777788888766   56999999999    88


Q ss_pred             HHHHHHHHHHhc
Q 023298          253 IRYVLSQIDNCI  264 (284)
Q Consensus       253 l~~Ll~~I~~~l  264 (284)
                      +.+|.+.+.+.+
T Consensus       181 i~eL~e~l~s~i  192 (522)
T KOG0461|consen  181 IQELKEALESRI  192 (522)
T ss_pred             HHHHHHHHHHhh
Confidence            888888887664

>cd04118 Rab24 Rab24 subfamily

Probab=99.01  E-value=4.7e-09  Score=90.09  Aligned_cols=115  Identities=9%  Similarity=0.069  Sum_probs=64.7

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      .+-++||||+-..       ..+.+..-  ...+++++++|.....+-.. +..++..+.. ...+.|+++|.||+|+..
T Consensus        51 ~l~i~D~~G~~~~-------~~~~~~~~--~~~d~iilv~d~~~~~s~~~-~~~~~~~i~~-~~~~~piilv~nK~Dl~~  119 (193)
T cd04118          51 TLGIWDTAGSERY-------EAMSRIYY--RGAKAAIVCYDLTDSSSFER-AKFWVKELQN-LEEHCKIYLCGTKSDLIE  119 (193)
T ss_pred             EEEEEECCCchhh-------hhhhHhhc--CCCCEEEEEEECCCHHHHHH-HHHHHHHHHh-cCCCCCEEEEEEcccccc
Confidence            4568899997431       11222221  12468899999864322111 2233332211 123689999999999864


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .. .......  .    +               .+.++...++ ..++++||++|.|++.|++.|.+.+
T Consensus       120 ~~-~~~~~v~--~----~---------------~~~~~~~~~~-~~~~~~Sa~~~~gv~~l~~~i~~~~  165 (193)
T cd04118         120 QD-RSLRQVD--F----H---------------DVQDFADEIK-AQHFETSSKTGQNVDELFQKVAEDF  165 (193)
T ss_pred             cc-cccCccC--H----H---------------HHHHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            32 1111110  0    0               0011112233 5689999999999999999988765

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>cd04111 Rab39 Rab39 subfamily

Probab=99.01  E-value=3.5e-09  Score=93.19  Aligned_cols=110  Identities=13%  Similarity=0.231  Sum_probs=65.7

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK~  191 (284)
                      ++.+.||||+...       ..+... +..   .+++++++|...   +..|  +..++..+..... ...|+++|.||+
T Consensus        53 ~l~i~Dt~G~~~~-------~~~~~~~~~~---~d~iilv~D~~~---~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~  119 (211)
T cd04111          53 KLQLWDTAGQERF-------RSITRSYYRN---SVGVLLVFDITN---RESFEHVHDWLEEARSHIQPHRPVFILVGHKC  119 (211)
T ss_pred             EEEEEeCCcchhH-------HHHHHHHhcC---CcEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcc
Confidence            5789999997431       112222 222   467889999863   3333  3334333222222 346789999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...+ ....-.                  .       .++...++ ..++.+||++|.|++++++.|.+.+.
T Consensus       120 Dl~~~~-~v~~~~------------------~-------~~~~~~~~-~~~~e~Sak~g~~v~e~f~~l~~~~~  166 (211)
T cd04111         120 DLESQR-QVTREE------------------A-------EKLAKDLG-MKYIETSARTGDNVEEAFELLTQEIY  166 (211)
T ss_pred             cccccc-ccCHHH------------------H-------HHHHHHhC-CEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            986532 111000                  0       11113344 68999999999999999999987654

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.01  E-value=5e-09  Score=101.10  Aligned_cols=150  Identities=14%  Similarity=0.129  Sum_probs=83.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHH-HhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHC-ETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l-~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      .++.+++++||+ |||||+|..||.++ ...|++|.+++.|+|.....+       .+-..   .+..++ |-   ....
T Consensus       221 ~~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~e-------QLk~y---Ae~lgv-p~---~~~~  286 (432)
T PRK12724        221 NQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIE-------QLKRY---ADTMGM-PF---YPVK  286 (432)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHH-------HHHHH---HHhcCC-Ce---eehH
Confidence            356779999999 99999999999865 578999999999998874321       00000   011122 11   1110


Q ss_pred             HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhc--CCCeEEEEEecCCCCCCHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSR--NFNVCAVYLLDSQFITDVTKFISGCMA  172 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~--d~~~vil~LiDa~~~~~~~~~i~~~l~  172 (284)
                      +     . .-+.+.+... ++++|+|||||...  ........|.+.+...  ....-+++++|+..-.  .. +...  
T Consensus       287 ~-----~-~~l~~~l~~~-~~D~VLIDTaGr~~--rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~-~~~~--  352 (432)
T PRK12724        287 D-----I-KKFKETLARD-GSELILIDTAGYSH--RNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HH-TLTV--  352 (432)
T ss_pred             H-----H-HHHHHHHHhC-CCCEEEEeCCCCCc--cCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HH-HHHH--
Confidence            1     1 1122233322 67999999999764  2222233343333321  1123467788885332  12 1111  


Q ss_pred             HHHHHHhcCCCEEEEecCCccccc
Q 023298          173 SLSAMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       173 ~l~~~~~~~~p~IlVlNK~Dll~~  196 (284)
                       ....... -+.=+|++|.|-..+
T Consensus       353 -~~~f~~~-~~~glIlTKLDEt~~  374 (432)
T PRK12724        353 -LKAYESL-NYRRILLTKLDEADF  374 (432)
T ss_pred             -HHHhcCC-CCCEEEEEcccCCCC
Confidence             1122223 356788999997653

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.00  E-value=8.8e-09  Score=103.75  Aligned_cols=134  Identities=17%  Similarity=0.225  Sum_probs=70.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.|+||||+-. |.      .+.. ...   ..+++++++|+.....+..+-.     +..+...+.|.++|+||+|+
T Consensus        69 ~~l~~iDTpG~e~-f~------~l~~~~~~---~aD~~IlVvD~~~g~~~qt~e~-----i~~l~~~~vpiIVv~NK~Dl  133 (590)
T TIGR00491        69 PGLLFIDTPGHEA-FT------NLRKRGGA---LADLAILIVDINEGFKPQTQEA-----LNILRMYKTPFVVAANKIDR  133 (590)
T ss_pred             CcEEEEECCCcHh-HH------HHHHHHHh---hCCEEEEEEECCcCCCHhHHHH-----HHHHHHcCCCEEEEEECCCc
Confidence            3589999999642 21      1212 222   2468999999875434444311     12234568999999999998


Q ss_pred             ccchh--hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHH---------HHHhccC-CceEEEEeccCcccHHHHHHHHH
Q 023298          194 VTNKK--EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLI---------ELVDEYS-MVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       194 l~~~~--~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~---------~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      .....  .-..|++. ....-..+..........+...+.         ..+++++ ...++|+||++|+|+++|+..|.
T Consensus       134 ~~~~~~~~~~~f~e~-sak~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~  212 (590)
T TIGR00491       134 IPGWRSHEGRPFMES-FSKQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLA  212 (590)
T ss_pred             cchhhhccCchHHHH-HHhhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHH
Confidence            64110  01112110 000000010000011111111111         1123443 47899999999999999999886


Q ss_pred             Hhc
Q 023298          262 NCI  264 (284)
Q Consensus       262 ~~l  264 (284)
                      ...
T Consensus       213 ~l~  215 (590)
T TIGR00491       213 GLA  215 (590)
T ss_pred             HHH
Confidence            543

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.00  E-value=6.1e-09  Score=101.09  Aligned_cols=114  Identities=19%  Similarity=0.289  Sum_probs=65.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC---CCHHHHHHHHHHHHHHHHhcC-CCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI---TDVTKFISGCMASLSAMVQLE-LPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~---~~~~~~i~~~l~~l~~~~~~~-~p~IlVlN  189 (284)
                      +.++.|+||||+-. |     ...+...+.   ..+++++++|+...   ..+...  ..+   ......+ .|+|+|+|
T Consensus        84 ~~~i~iiDtpGh~~-f-----~~~~~~~~~---~aD~~ilVvDa~~~~~~~~~~t~--~~~---~~~~~~~~~~iIVviN  149 (426)
T TIGR00483        84 KYEVTIVDCPGHRD-F-----IKNMITGAS---QADAAVLVVAVGDGEFEVQPQTR--EHA---FLARTLGINQLIVAIN  149 (426)
T ss_pred             CeEEEEEECCCHHH-H-----HHHHHhhhh---hCCEEEEEEECCCCCcccCCchH--HHH---HHHHHcCCCeEEEEEE
Confidence            56789999999532 1     222333232   24789999999754   111111  000   0111233 46888999


Q ss_pred             CCccccc-hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHHH---------
Q 023298          190 KMDLVTN-KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIRY---------  255 (284)
Q Consensus       190 K~Dll~~-~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~~---------  255 (284)
                      |+|+... +..+...                       ...+.+++...++    ..|+|+||++|+|+.+         
T Consensus       150 K~Dl~~~~~~~~~~~-----------------------~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~~~~w~~  206 (426)
T TIGR00483       150 KMDSVNYDEEEFEAI-----------------------KKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSENTPWYK  206 (426)
T ss_pred             ChhccCccHHHHHHH-----------------------HHHHHHHHHHcCCCcccceEEEeeccccccccccccCCcccc
Confidence            9999742 2111111                       1122333444443    6799999999999985         


Q ss_pred             ---HHHHHHHhc
Q 023298          256 ---VLSQIDNCI  264 (284)
Q Consensus       256 ---Ll~~I~~~l  264 (284)
                         |++.|+...
T Consensus       207 g~~l~~~l~~~~  218 (426)
T TIGR00483       207 GKTLLEALDALE  218 (426)
T ss_pred             chHHHHHHhcCC
Confidence               888887643

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>cd04134 Rho3 Rho3 subfamily

Probab=99.00  E-value=2.9e-09  Score=91.67  Aligned_cols=123  Identities=9%  Similarity=0.137  Sum_probs=67.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HH-HHHHHHHHHHhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--IS-GCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~-~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ..+.+.||||+-+..   .    +.+ .+..   .+++++++|..   ++..|  +. .++..+... ..+.|+++|.||
T Consensus        48 ~~l~i~Dt~G~~~~~---~----l~~~~~~~---a~~~ilv~dv~---~~~sf~~~~~~~~~~i~~~-~~~~piilvgNK  113 (189)
T cd04134          48 IELSLWDTAGQEEFD---R----LRSLSYAD---TDVIMLCFSVD---SPDSLENVESKWLGEIREH-CPGVKLVLVALK  113 (189)
T ss_pred             EEEEEEECCCChhcc---c----cccccccC---CCEEEEEEECC---CHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEC
Confidence            467899999975421   1    111 1212   35667666664   33333  21 233322221 237899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+.... .......        ........     .....+....++...++++||++|.|+++++..+.+.+-
T Consensus       114 ~Dl~~~~-~~~~~~~--------~~~~~~v~-----~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~  174 (189)
T cd04134         114 CDLREAR-NERDDLQ--------RYGKHTIS-----YEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVAL  174 (189)
T ss_pred             hhhccCh-hhHHHHh--------hccCCCCC-----HHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHh
Confidence            9996543 2211110        00000000     000012234455578999999999999999999887654

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.00  E-value=4.3e-09  Score=100.32  Aligned_cols=44  Identities=16%  Similarity=0.077  Sum_probs=40.6

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ..++.+++++||. |||||++..||.++...|++|.+|+.||+..
T Consensus       203 ~~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~  247 (407)
T PRK12726        203 LSNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRS  247 (407)
T ss_pred             ecCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCc
Confidence            4567889999999 9999999999999988999999999999975

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.00  E-value=4.8e-09  Score=105.14  Aligned_cols=118  Identities=12%  Similarity=0.151  Sum_probs=80.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ++++-++|.||....-.+ +..+++.+.+-..+..|+++.++|+.+..+. -+      -..++..++.|+|+++|++|.
T Consensus        49 ~~~i~ivDLPG~YSL~~~-S~DE~Var~~ll~~~~D~ivnVvDAtnLeRn-Ly------ltlQLlE~g~p~ilaLNm~D~  120 (653)
T COG0370          49 GHEIEIVDLPGTYSLTAY-SEDEKVARDFLLEGKPDLIVNVVDATNLERN-LY------LTLQLLELGIPMILALNMIDE  120 (653)
T ss_pred             CceEEEEeCCCcCCCCCC-CchHHHHHHHHhcCCCCEEEEEcccchHHHH-HH------HHHHHHHcCCCeEEEeccHhh
Confidence            567999999998775544 3356665554222446899999999755332 11      123456899999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      .+++ .+.  +  |.+.                       +++.--..++|.||++|.|+++++.+|.+..+..
T Consensus       121 A~~~-Gi~--I--D~~~-----------------------L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~~~~~  166 (653)
T COG0370         121 AKKR-GIR--I--DIEK-----------------------LSKLLGVPVVPTVAKRGEGLEELKRAIIELAESK  166 (653)
T ss_pred             HHhc-CCc--c--cHHH-----------------------HHHHhCCCEEEEEeecCCCHHHHHHHHHHhcccc
Confidence            7543 221  1  1111                       1222238999999999999999999998765443

>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

Probab=98.99  E-value=4.3e-08  Score=89.50  Aligned_cols=153  Identities=16%  Similarity=0.221  Sum_probs=81.8

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH-HhcCCceEEEecCcCCCCCC----CCc-cccccc----cccHHHHhhhc-----Ccc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC-ETVRRTMHIVNLDPAAENFD----YPV-AMDIRE----LISLEDVMEEL-----GLG   85 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l-~~~g~~v~iVdLDPq~~~~~----~~~-~~dir~----~i~~~~vm~~~-----~lg   85 (284)
                      -++-|.| +||||.+.||+..+ +..|++|++||+|++...+.    ..+ ...+.+    .-+++|++.+.     .+.
T Consensus         6 av~SgKGGvGKTtitanlga~~~~~~~k~V~~iDaD~g~~nL~~~~g~~~~~~~l~dvL~~~~~~~Di~~~~~~~gl~vi   85 (262)
T COG0455           6 AVVSGKGGVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESKPTTLHDVLAGEASIEDIIYETPQDGLYVL   85 (262)
T ss_pred             EEEecCCCccHHHHHHhHHHHHHhhCCCeEEEEecCCCCCcHHHHhCCCCCcccHHHHHhCCCCHhHeeeecCcCCEEEe
Confidence            3455999 99999999995555 55777789999999998542    211 111332    22344544332     233


Q ss_pred             cCchhhhhhHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH
Q 023298           86 PNGGLIYCMEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT  164 (284)
Q Consensus        86 Png~l~~~~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~  164 (284)
                      |.+.-...+-.+. +.. ..+.++++.  .++|+++|||+.++.-        .+..+...+   .++.+...    ++.
T Consensus        86 pg~~~~~~~~~~~~~~~-~~~~~~l~~--~~D~iliD~~aGl~~~--------~~~~~~~sd---~~viVt~p----e~~  147 (262)
T COG0455          86 PGGSGLEDLAKLDPEDL-EDVIKELEE--LYDYILIDTGAGLSRD--------TLSFILSSD---ELVIVTTP----EPT  147 (262)
T ss_pred             eCCCChHHHhhcCHHHH-HHHHHHHHh--cCCEEEEeCCCCccHH--------HHHHHHhcC---cEEEEeCC----Ccc
Confidence            4443333222121 122 223345554  4599999999977511        223332323   23333322    122


Q ss_pred             HHHHHHHHHHHHHHhcCCCE---EEEecCCcc
Q 023298          165 KFISGCMASLSAMVQLELPH---VNILSKMDL  193 (284)
Q Consensus       165 ~~i~~~l~~l~~~~~~~~p~---IlVlNK~Dl  193 (284)
                      . +......+.+..+.+.+.   .+|+|+++.
T Consensus       148 s-i~~A~~~i~~~~~~~~~~~~~~vV~N~v~~  178 (262)
T COG0455         148 S-ITDAYKTIKILSKLGLDLLGRRVVLNRVRS  178 (262)
T ss_pred             h-HHHHHHHHHHHHHcCCccccceEEEEeccc
Confidence            2 223334445555655553   389999974

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=98.99  E-value=4.3e-09  Score=88.63  Aligned_cols=114  Identities=13%  Similarity=0.225  Sum_probs=65.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~Dl  193 (284)
                      ..+.++||||+.+..      ..+......  ..+++++++|+....+... +..++..+.... ..+.|.++|.||+|+
T Consensus        51 ~~~~i~Dt~G~~~~~------~~~~~~~~~--~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~p~iiv~nK~Dl  121 (170)
T cd04115          51 IKVQLWDTAGQERFR------KSMVQHYYR--NVHAVVFVYDVTNMASFHS-LPSWIEECEQHSLPNEVPRILVGNKCDL  121 (170)
T ss_pred             EEEEEEeCCChHHHH------HhhHHHhhc--CCCEEEEEEECCCHHHHHh-HHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            467899999975311      112232211  2367899999864322222 333333222221 246899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccC---cccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRK---ESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~---~~~l~~Ll~~I~~~l  264 (284)
                      .... ++..-.                      .   .++.+.++ ..++++||++   ++++++++..+.+.+
T Consensus       122 ~~~~-~~~~~~----------------------~---~~~~~~~~-~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         122 REQI-QVPTDL----------------------A---QRFADAHS-MPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             hhhc-CCCHHH----------------------H---HHHHHHcC-CcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            6432 111000                      0   01112232 6789999999   889999988876544

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd01874 Cdc42 Cdc42 subfamily

Probab=98.99  E-value=3e-09  Score=90.70  Aligned_cols=121  Identities=10%  Similarity=0.126  Sum_probs=68.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HH-HHHHHHHHHHhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--IS-GCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~-~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      .++.+.||||+-....       +.. .+..   .+++++++|...   +..|  +. .++..+... ..+.|.|+|.||
T Consensus        49 ~~l~i~Dt~G~~~~~~-------~~~~~~~~---a~~~ilv~d~~~---~~s~~~~~~~w~~~i~~~-~~~~piilvgnK  114 (175)
T cd01874          49 YTLGLFDTAGQEDYDR-------LRPLSYPQ---TDVFLVCFSVVS---PSSFENVKEKWVPEITHH-CPKTPFLLVGTQ  114 (175)
T ss_pred             EEEEEEECCCccchhh-------hhhhhccc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHHh-CCCCCEEEEEEC
Confidence            4678999999854211       111 1222   467889999863   3333  22 233222221 236899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +|+...+ ++.+.+...       -+..-.      .....++..+++...++++||++|.|++++++.+.+.
T Consensus       115 ~Dl~~~~-~~~~~l~~~-------~~~~v~------~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~  173 (175)
T cd01874         115 IDLRDDP-STIEKLAKN-------KQKPIT------PETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILA  173 (175)
T ss_pred             HhhhhCh-hhHHHhhhc-------cCCCcC------HHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHH
Confidence            9986543 222111100       000000      0011222344566789999999999999999988764

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=98.99  E-value=2.9e-09  Score=84.43  Aligned_cols=71  Identities=14%  Similarity=0.192  Sum_probs=40.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||..+........+.+.+.++.....++++|++|+....  .+....++..   + +.++|.++|+||
T Consensus        46 ~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~~~~~~--~~~~~~~~~~---l-~~~~~~i~v~NK  116 (116)
T PF01926_consen   46 NKKFILVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIYVVDASNPI--TEDDKNILRE---L-KNKKPIILVLNK  116 (116)
T ss_dssp             TEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEEEEETTSHS--HHHHHHHHHH---H-HTTSEEEEEEES
T ss_pred             eeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEEEEECCCCC--CHHHHHHHHH---H-hcCCCEEEEEcC
Confidence            447799999998764322221121222233224457899999976521  1222222222   2 478999999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>cd01882 BMS1 Bms1

Probab=98.99  E-value=2.6e-08  Score=88.81  Aligned_cols=114  Identities=18%  Similarity=0.227  Sum_probs=66.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEE-EEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHV-NILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~I-lVlNK~  191 (284)
                      ..++.++||||..         ..+++.++.   .+++++++|+...... +..+..      .+...+.|.+ .|+||+
T Consensus        82 ~~~i~~vDtPg~~---------~~~l~~ak~---aDvVllviDa~~~~~~~~~~i~~------~l~~~g~p~vi~VvnK~  143 (225)
T cd01882          82 KRRLTFIECPNDI---------NAMIDIAKV---ADLVLLLIDASFGFEMETFEFLN------ILQVHGFPRVMGVLTHL  143 (225)
T ss_pred             CceEEEEeCCchH---------HHHHHHHHh---cCEEEEEEecCcCCCHHHHHHHH------HHHHcCCCeEEEEEecc
Confidence            4578999999843         234444443   4689999999754332 222322      2334678865 499999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHH-HH-hccCCceEEEEeccCc-----ccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIE-LV-DEYSMVSFMPLDLRKE-----SSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~-~l-~~~~~~~~ipiSa~~~-----~~l~~Ll~~I~~~l  264 (284)
                      |++.+...+.+..        .               .|.+ +. +.+.+.+++++||++.     ....+++..|+..-
T Consensus       144 D~~~~~~~~~~~~--------~---------------~l~~~~~~~~~~~~ki~~iSa~~~~~~~~~e~~~~~r~i~~~~  200 (225)
T cd01882         144 DLFKKNKTLRKTK--------K---------------RLKHRFWTEVYQGAKLFYLSGIVHGRYPKTEIHNLARFISVMK  200 (225)
T ss_pred             ccCCcHHHHHHHH--------H---------------HHHHHHHHhhCCCCcEEEEeeccCCCCCHHHHHHHHHHHHhCC
Confidence            9975331222221        1               1111 11 1235689999998876     33466677777665


Q ss_pred             CCCC
Q 023298          265 QWGE  268 (284)
Q Consensus       265 ~~g~  268 (284)
                      +.+-
T Consensus       201 ~~~~  204 (225)
T cd01882         201 FRPL  204 (225)
T ss_pred             CCCC
Confidence            5443

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.98  E-value=7e-09  Score=101.47  Aligned_cols=116  Identities=20%  Similarity=0.329  Sum_probs=66.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC--C-----CHHHHHHHHHHHHHHHHhcCCCE-E
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--T-----DVTKFISGCMASLSAMVQLELPH-V  185 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~-----~~~~~i~~~l~~l~~~~~~~~p~-I  185 (284)
                      ++.+.+|||||+..      ....+...+..   .+.+++++|+...  .     .+.. .    ..+......+.|. |
T Consensus        84 ~~~i~liDtPGh~d------f~~~~~~g~~~---aD~aIlVVda~~G~~e~g~~~~~qT-~----eh~~~~~~~gi~~iI  149 (447)
T PLN00043         84 KYYCTVIDAPGHRD------FIKNMITGTSQ---ADCAVLIIDSTTGGFEAGISKDGQT-R----EHALLAFTLGVKQMI  149 (447)
T ss_pred             CEEEEEEECCCHHH------HHHHHHhhhhh---ccEEEEEEEcccCceecccCCCchH-H----HHHHHHHHcCCCcEE
Confidence            55789999999644      22333333432   4678889999742  1     0111 0    1111223567865 7


Q ss_pred             EEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHH-------
Q 023298          186 NILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIR-------  254 (284)
Q Consensus       186 lVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~-------  254 (284)
                      +++||+|+....     +.+               ..+.+....+.+++...++    ..|+|+||.+|+|+.       
T Consensus       150 V~vNKmD~~~~~-----~~~---------------~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~~~~~~~  209 (447)
T PLN00043        150 CCCNKMDATTPK-----YSK---------------ARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIERSTNLD  209 (447)
T ss_pred             EEEEcccCCchh-----hhH---------------HHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccccccCCc
Confidence            789999975211     100               0111222334455565554    569999999999985       


Q ss_pred             -----HHHHHHHHh
Q 023298          255 -----YVLSQIDNC  263 (284)
Q Consensus       255 -----~Ll~~I~~~  263 (284)
                           .|++.++..
T Consensus       210 Wy~g~tLl~~l~~i  223 (447)
T PLN00043        210 WYKGPTLLEALDQI  223 (447)
T ss_pred             ccchHHHHHHHhhc
Confidence                 377777764

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.98  E-value=1.3e-08  Score=102.88  Aligned_cols=113  Identities=16%  Similarity=0.196  Sum_probs=70.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ++.+.++||||+...      ...+.+.+..   .+.+++++|+...-+.... ..+    ......++|.|+|+||+|+
T Consensus        73 ~~~lnLiDTPGh~dF------~~~v~~sl~~---aD~aILVVDas~gv~~qt~-~~~----~~~~~~~lpiIvViNKiDl  138 (600)
T PRK05433         73 TYILNLIDTPGHVDF------SYEVSRSLAA---CEGALLVVDASQGVEAQTL-ANV----YLALENDLEIIPVLNKIDL  138 (600)
T ss_pred             cEEEEEEECCCcHHH------HHHHHHHHHH---CCEEEEEEECCCCCCHHHH-HHH----HHHHHCCCCEEEEEECCCC
Confidence            457899999998762      1223344544   3578999999754333322 111    1123468899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ....  .....        +++               .+.+ ......++++||++|.|+++|++.|.+.+|.
T Consensus       139 ~~a~--~~~v~--------~ei---------------~~~l-g~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        139 PAAD--PERVK--------QEI---------------EDVI-GIDASDAVLVSAKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             Cccc--HHHHH--------HHH---------------HHHh-CCCcceEEEEecCCCCCHHHHHHHHHHhCcc
Confidence            5321  11111        001               1111 1112358999999999999999999998875

>cd04128 Spg1 Spg1p

Probab=98.98  E-value=7.8e-09  Score=88.87  Aligned_cols=117  Identities=14%  Similarity=0.180  Sum_probs=66.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++-+.||+|+-...       .+....  ....+++++++|.....+... +..++..+........| |+|.||+|+.
T Consensus        49 ~~l~iwDt~G~~~~~-------~~~~~~--~~~a~~iilv~D~t~~~s~~~-i~~~~~~~~~~~~~~~p-ilVgnK~Dl~  117 (182)
T cd04128          49 ITFSIWDLGGQREFI-------NMLPLV--CNDAVAILFMFDLTRKSTLNS-IKEWYRQARGFNKTAIP-ILVGTKYDLF  117 (182)
T ss_pred             EEEEEEeCCCchhHH-------HhhHHH--CcCCCEEEEEEECcCHHHHHH-HHHHHHHHHHhCCCCCE-EEEEEchhcc
Confidence            367899999975421       122221  122468999999864322211 23343322222223455 7899999986


Q ss_pred             cchh--hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          195 TNKK--EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       195 ~~~~--~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ....  +.....                       ....++.+.++ ..++++||++|.|++++++.+.+.+.+
T Consensus       118 ~~~~~~~~~~~~-----------------------~~~~~~a~~~~-~~~~e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128         118 ADLPPEEQEEIT-----------------------KQARKYAKAMK-APLIFCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             ccccchhhhhhH-----------------------HHHHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            3110  000000                       01112223344 579999999999999999999887754

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.97  E-value=2.7e-08  Score=102.25  Aligned_cols=67  Identities=19%  Similarity=0.251  Sum_probs=44.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+....      ....+.+..   .+++++++|+...-.+ ...+..      ...+.++|+++|+||+|
T Consensus        74 ~~~i~liDTPG~~~~~------~~~~~~l~~---~D~~ilVvda~~g~~~~~~~~~~------~~~~~~~p~ivviNK~D  138 (689)
T TIGR00484        74 GHRINIIDTPGHVDFT------VEVERSLRV---LDGAVAVLDAVGGVQPQSETVWR------QANRYEVPRIAFVNKMD  138 (689)
T ss_pred             CeEEEEEECCCCcchh------HHHHHHHHH---hCEEEEEEeCCCCCChhHHHHHH------HHHHcCCCEEEEEECCC
Confidence            5689999999987521      123344544   3689999999754222 222322      23456899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       139 ~~~  141 (689)
T TIGR00484       139 KTG  141 (689)
T ss_pred             CCC
Confidence            874

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>PRK10218 GTP-binding protein; Provisional

Probab=98.97  E-value=3.5e-08  Score=99.77  Aligned_cols=120  Identities=13%  Similarity=0.112  Sum_probs=71.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+...      ...+...+..   .+.+++++|+... .....+++.      .....++|.++|+||+|
T Consensus        67 ~~~inliDTPG~~df------~~~v~~~l~~---aDg~ILVVDa~~G~~~qt~~~l~------~a~~~gip~IVviNKiD  131 (607)
T PRK10218         67 DYRINIVDTPGHADF------GGEVERVMSM---VDSVLLVVDAFDGPMPQTRFVTK------KAFAYGLKPIVVINKVD  131 (607)
T ss_pred             CEEEEEEECCCcchh------HHHHHHHHHh---CCEEEEEEecccCccHHHHHHHH------HHHHcCCCEEEEEECcC
Confidence            557899999997652      1122333433   3678999999643 222333322      23457899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc----------cHHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES----------SIRYVLSQIDN  262 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~----------~l~~Ll~~I~~  262 (284)
                      +....  ....+        +++.+        +...+ ...++..-..++++||.+|.          ++..|++.|.+
T Consensus       132 ~~~a~--~~~vl--------~ei~~--------l~~~l-~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~  192 (607)
T PRK10218        132 RPGAR--PDWVV--------DQVFD--------LFVNL-DATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVD  192 (607)
T ss_pred             CCCCc--hhHHH--------HHHHH--------HHhcc-CccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHH
Confidence            85322  11111        11110        00000 00111112569999999998          68999999999


Q ss_pred             hcCCC
Q 023298          263 CIQWG  267 (284)
Q Consensus       263 ~l~~g  267 (284)
                      .+|.-
T Consensus       193 ~iP~P  197 (607)
T PRK10218        193 HVPAP  197 (607)
T ss_pred             hCCCC
Confidence            98754

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.97  E-value=6.4e-09  Score=105.03  Aligned_cols=112  Identities=15%  Similarity=0.202  Sum_probs=69.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      +++.|+||||+...      ...+.+.+..   .+.+++++|+....+.... ..+.    ...+.++|.|+|+||+|+.
T Consensus        70 ~~l~liDTPG~~dF------~~~v~~~l~~---aD~aILVvDat~g~~~qt~-~~~~----~~~~~~ipiIiViNKiDl~  135 (595)
T TIGR01393        70 YVLNLIDTPGHVDF------SYEVSRSLAA---CEGALLLVDAAQGIEAQTL-ANVY----LALENDLEIIPVINKIDLP  135 (595)
T ss_pred             EEEEEEECCCcHHH------HHHHHHHHHh---CCEEEEEecCCCCCCHhHH-HHHH----HHHHcCCCEEEEEECcCCC
Confidence            57899999998652      1223344544   3578999999754333322 1111    1224578999999999985


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ...  .....        ++               +.+.+ ...+..++++||++|.|+++|++.|.+.+|.
T Consensus       136 ~~~--~~~~~--------~e---------------l~~~l-g~~~~~vi~vSAktG~GI~~Lle~I~~~lp~  181 (595)
T TIGR01393       136 SAD--PERVK--------KE---------------IEEVI-GLDASEAILASAKTGIGIEEILEAIVKRVPP  181 (595)
T ss_pred             ccC--HHHHH--------HH---------------HHHHh-CCCcceEEEeeccCCCCHHHHHHHHHHhCCC
Confidence            321  11111        01               11111 1122468999999999999999999998875

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.97  E-value=1.1e-08  Score=101.17  Aligned_cols=151  Identities=14%  Similarity=0.159  Sum_probs=82.5

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHHHhc--CCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchh
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHCETV--RRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGL   90 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~--g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l   90 (284)
                      .|+.+..++.++||. +||||++.+|+.++...  +++|.+|+.|++.....+              ....++-..+ ..
T Consensus       345 ~~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~E--------------QLk~ya~iLg-v~  409 (559)
T PRK12727        345 DPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGRE--------------QLHSYGRQLG-IA  409 (559)
T ss_pred             ccccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHH--------------HHHHhhcccC-ce
Confidence            577777889999999 99999999999998765  579999999997642100              0011100000 00


Q ss_pred             hhhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHH
Q 023298           91 IYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGC  170 (284)
Q Consensus        91 ~~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~  170 (284)
                      +...    ..- .-+.+.++++.++++|||||||....  .......+ ..+.... ....++++++...  ..++ ...
T Consensus       410 v~~a----~d~-~~L~~aL~~l~~~DLVLIDTaG~s~~--D~~l~eeL-~~L~aa~-~~a~lLVLpAtss--~~Dl-~ei  477 (559)
T PRK12727        410 VHEA----DSA-ESLLDLLERLRDYKLVLIDTAGMGQR--DRALAAQL-NWLRAAR-QVTSLLVLPANAH--FSDL-DEV  477 (559)
T ss_pred             eEec----CcH-HHHHHHHHHhccCCEEEecCCCcchh--hHHHHHHH-HHHHHhh-cCCcEEEEECCCC--hhHH-HHH
Confidence            0000    000 11223343333679999999997641  11112222 2232211 1235567777532  2221 111


Q ss_pred             HHHHHHHHhcCCCEEEEecCCcccc
Q 023298          171 MASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       171 l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      +   ..+... .+.-+|+||+|...
T Consensus       478 i---~~f~~~-~~~gvILTKlDEt~  498 (559)
T PRK12727        478 V---RRFAHA-KPQGVVLTKLDETG  498 (559)
T ss_pred             H---HHHHhh-CCeEEEEecCcCcc
Confidence            1   122222 57889999999754

>cd04167 Snu114p Snu114p subfamily

Probab=98.96  E-value=2.4e-08  Score=87.84  Aligned_cols=135  Identities=13%  Similarity=0.193  Sum_probs=70.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .++|+|.. +||||++.+|.......+++     .+++.....|.   |-++    .+.-++..+..+.     ..    
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~-----~~~~~~~~~~~---d~~~----~e~~~giti~~~~-----~~----   60 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPS-----GKDGWKPLRYT---DIRK----DEQERGISIKSSP-----IS----   60 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCccc-----ccccCCceeEC---CCCH----HHHHcCccccccc-----ee----
Confidence            47899999 99999999998865443332     34444433221   1110    0000000110000     00    


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ  179 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~  179 (284)
                       + .|  ...+.. ...+.++||||+.+..      ......+..   .+++++++|+........  ..++   .....
T Consensus        61 -~-~~--~~~~~~-~~~i~iiDtpG~~~f~------~~~~~~~~~---aD~~llVvD~~~~~~~~~--~~~~---~~~~~  121 (213)
T cd04167          61 -L-VL--PDSKGK-SYLFNIIDTPGHVNFM------DEVAAALRL---SDGVVLVVDVVEGVTSNT--ERLI---RHAIL  121 (213)
T ss_pred             -E-EE--EcCCCC-EEEEEEEECCCCcchH------HHHHHHHHh---CCEEEEEEECCCCCCHHH--HHHH---HHHHH
Confidence             0 00  000111 3578999999986521      112233433   367899999875433221  1111   11223


Q ss_pred             cCCCEEEEecCCcccc
Q 023298          180 LELPHVNILSKMDLVT  195 (284)
Q Consensus       180 ~~~p~IlVlNK~Dll~  195 (284)
                      .++|.++|+||+|++.
T Consensus       122 ~~~p~iiviNK~D~~~  137 (213)
T cd04167         122 EGLPIVLVINKIDRLI  137 (213)
T ss_pred             cCCCEEEEEECcccCc
Confidence            5689999999999863

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>cd01892 Miro2 Miro2 subfamily

Probab=98.96  E-value=1.1e-08  Score=86.54  Aligned_cols=108  Identities=14%  Similarity=0.142  Sum_probs=65.2

Q ss_pred             CEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK~  191 (284)
                      .+.+.||+|+.+...       +.. .+..   .+++++++|+.   ++..+  +..++.   .+ ...+.|+++|.||+
T Consensus        55 ~l~~~d~~g~~~~~~-------~~~~~~~~---~d~~llv~d~~---~~~s~~~~~~~~~---~~~~~~~~p~iiv~NK~  118 (169)
T cd01892          55 YLILREVGEDEVAIL-------LNDAELAA---CDVACLVYDSS---DPKSFSYCAEVYK---KYFMLGEIPCLFVAAKA  118 (169)
T ss_pred             EEEEEecCCcccccc-------cchhhhhc---CCEEEEEEeCC---CHHHHHHHHHHHH---HhccCCCCeEEEEEEcc
Confidence            567789999765211       111 1222   46899999985   33333  222222   11 12368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+.... ...  .. ..                      .++.+.++...++++||++|.|++++++.+.+.+.
T Consensus       119 Dl~~~~-~~~--~~-~~----------------------~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         119 DLDEQQ-QRY--EV-QP----------------------DEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             cccccc-ccc--cc-CH----------------------HHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            986432 110  00 00                      11113345556789999999999999999988754

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>PLN03108 Rab family protein; Provisional

Probab=98.95  E-value=1.5e-08  Score=88.95  Aligned_cols=111  Identities=12%  Similarity=0.157  Sum_probs=63.0

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .+-++||||+....       .+.+. +..   .+++++++|+....+-. .+..++..+........|+++|.||+|+.
T Consensus        56 ~l~l~Dt~G~~~~~-------~~~~~~~~~---ad~~vlv~D~~~~~s~~-~l~~~~~~~~~~~~~~~piiiv~nK~Dl~  124 (210)
T PLN03108         56 KLQIWDTAGQESFR-------SITRSYYRG---AAGALLVYDITRRETFN-HLASWLEDARQHANANMTIMLIGNKCDLA  124 (210)
T ss_pred             EEEEEeCCCcHHHH-------HHHHHHhcc---CCEEEEEEECCcHHHHH-HHHHHHHHHHHhcCCCCcEEEEEECccCc
Confidence            46789999975311       12121 222   35788899986432111 12233332222223468999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .++ .+..-.                         ..++...++ ..++++||+++.|+++++..+.+.+
T Consensus       125 ~~~-~~~~~~-------------------------~~~~~~~~~-~~~~e~Sa~~~~~v~e~f~~l~~~~  167 (210)
T PLN03108        125 HRR-AVSTEE-------------------------GEQFAKEHG-LIFMEASAKTAQNVEEAFIKTAAKI  167 (210)
T ss_pred             ccc-CCCHHH-------------------------HHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            432 111000                         011123343 4799999999999999886665444

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.95  E-value=3.4e-08  Score=86.14  Aligned_cols=122  Identities=18%  Similarity=0.191  Sum_probs=75.4

Q ss_pred             CCCEEEEeCCCCc--cc--ccccchHHHHHHHHHh-cCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEE
Q 023298          114 DDDYLVFDCPGQI--EL--FTHVPVLRNFVDHLKS-RNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNI  187 (284)
Q Consensus       114 ~~~~viiDtPg~~--e~--~~~~~~~~~l~~~l~~-~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlV  187 (284)
                      ...+.++|-||.=  ..  -........+.+.|+. .+ -..++.|+|+...... +..+..      .+...+.|+++|
T Consensus        69 ~~~~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~-L~~vvlliD~r~~~~~~D~em~~------~l~~~~i~~~vv  141 (200)
T COG0218          69 DDELRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRAN-LKGVVLLIDARHPPKDLDREMIE------FLLELGIPVIVV  141 (200)
T ss_pred             cCcEEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchh-heEEEEEEECCCCCcHHHHHHHH------HHHHcCCCeEEE
Confidence            3357899999941  10  0111223334555653 34 3468889999876444 443433      345789999999


Q ss_pred             ecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCc--eEEEEeccCcccHHHHHHHHHHhcC
Q 023298          188 LSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMV--SFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       188 lNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~--~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +||+|.+++. +..+.+.                       .+++.+......  .++..|+.++.|+++|.+.|.+.+.
T Consensus       142 ~tK~DKi~~~-~~~k~l~-----------------------~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~  197 (200)
T COG0218         142 LTKADKLKKS-ERNKQLN-----------------------KVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLK  197 (200)
T ss_pred             EEccccCChh-HHHHHHH-----------------------HHHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhh
Confidence            9999999754 2222110                       112222222222  2899999999999999999998775


Q ss_pred             C
Q 023298          266 W  266 (284)
Q Consensus       266 ~  266 (284)
                      +
T Consensus       198 ~  198 (200)
T COG0218         198 E  198 (200)
T ss_pred             c
Confidence            4

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=98.95  E-value=7.7e-09  Score=87.23  Aligned_cols=115  Identities=20%  Similarity=0.165  Sum_probs=63.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH-HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF-VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l-~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~  191 (284)
                      +..+.++||||+.+.       ..+ ...+..   +++++|++|++...+... +..++..+... ...++|+++|.||+
T Consensus        42 ~~~~~i~D~~G~~~~-------~~~~~~~~~~---a~~ii~V~D~s~~~s~~~-~~~~l~~l~~~~~~~~~piliv~NK~  110 (167)
T cd04161          42 KYEVCIFDLGGGANF-------RGIWVNYYAE---AHGLVFVVDSSDDDRVQE-VKEILRELLQHPRVSGKPILVLANKQ  110 (167)
T ss_pred             CEEEEEEECCCcHHH-------HHHHHHHHcC---CCEEEEEEECCchhHHHH-HHHHHHHHHcCccccCCcEEEEEeCC
Confidence            346789999997541       112 223333   468999999874432211 22232222111 11478999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC-ceEEEEeccCc------ccHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM-VSFMPLDLRKE------SSIRYVLSQID  261 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~-~~~ipiSa~~~------~~l~~Ll~~I~  261 (284)
                      |+.... ...+..+        .+.             +.++.++.+. ..+++.||++|      +|+.+-++-+.
T Consensus       111 Dl~~~~-~~~~i~~--------~~~-------------l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~  165 (167)
T cd04161         111 DKKNAL-LGADVIE--------YLS-------------LEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLL  165 (167)
T ss_pred             CCcCCC-CHHHHHH--------hcC-------------cccccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHh
Confidence            985432 1222111        000             0111122333 57999999998      88988777654

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04143 Rhes_like Rhes_like subfamily

Probab=98.95  E-value=3.2e-08  Score=89.55  Aligned_cols=112  Identities=11%  Similarity=0.147  Sum_probs=65.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH---------HhcCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM---------VQLEL  182 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~---------~~~~~  182 (284)
                      +++-|.||||+....       .+.+. +..   .+++++++|...   +..|  +..++..+...         ...++
T Consensus        48 ~~l~I~Dt~G~~~~~-------~~~~~~~~~---ad~iIlVfdv~~---~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~  114 (247)
T cd04143          48 YQLDILDTSGNHPFP-------AMRRLSILT---GDVFILVFSLDN---RESFEEVCRLREQILETKSCLKNKTKENVKI  114 (247)
T ss_pred             EEEEEEECCCChhhh-------HHHHHHhcc---CCEEEEEEeCCC---HHHHHHHHHHHHHHHHhhcccccccccCCCC
Confidence            466799999975311       11111 212   367888888763   3333  22332222111         11368


Q ss_pred             CEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          183 PHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       183 p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |+|+|.||+|+.... ++..      +                   .+.+.+.......++++||++|.|++++++.|.+
T Consensus       115 piIivgNK~Dl~~~~-~v~~------~-------------------ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~  168 (247)
T cd04143         115 PMVICGNKADRDFPR-EVQR------D-------------------EVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFS  168 (247)
T ss_pred             cEEEEEECccchhcc-ccCH------H-------------------HHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            999999999986422 1100      0                   0111122222357999999999999999999988


Q ss_pred             hcC
Q 023298          263 CIQ  265 (284)
Q Consensus       263 ~l~  265 (284)
                      ...
T Consensus       169 ~~~  171 (247)
T cd04143         169 LAK  171 (247)
T ss_pred             Hhc
Confidence            653

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.95  E-value=1.2e-08  Score=97.95  Aligned_cols=152  Identities=15%  Similarity=0.163  Sum_probs=85.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHh----cCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCET----VRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLI   91 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~----~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~   91 (284)
                      .+|..++++||. |||||++..||.++..    .|++|.+|+.|++.....+       .+-++.+   ..++ |    +
T Consensus       172 ~~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~e-------QL~~~a~---~lgv-p----v  236 (388)
T PRK12723        172 LKKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKK-------QIQTYGD---IMGI-P----V  236 (388)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHH-------HHHHHhh---cCCc-c----e
Confidence            467889999999 9999999999999874    5789999999997543211       1111111   1122 2    0


Q ss_pred             hhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           92 YCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        92 ~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                      .+..    .. +-+.+.+.+..++++|+|||||....  ......++.+.+.......-+++++|+..-  +.. +...+
T Consensus       237 ~~~~----~~-~~l~~~L~~~~~~DlVLIDTaGr~~~--~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~-~~~~~  306 (388)
T PRK12723        237 KAIE----SF-KDLKEEITQSKDFDLVLVDTIGKSPK--DFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSD-VKEIF  306 (388)
T ss_pred             EeeC----cH-HHHHHHHHHhCCCCEEEEcCCCCCcc--CHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHH-HHHHH
Confidence            1000    11 11223333333789999999997641  111123344444433222246778888533  222 22221


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccch
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      .   ..... -+.=++++|.|-..+-
T Consensus       307 ~---~~~~~-~~~~~I~TKlDet~~~  328 (388)
T PRK12723        307 H---QFSPF-SYKTVIFTKLDETTCV  328 (388)
T ss_pred             H---HhcCC-CCCEEEEEeccCCCcc
Confidence            1   12122 2567899999976543

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.93  E-value=1.7e-08  Score=101.92  Aligned_cols=120  Identities=18%  Similarity=0.179  Sum_probs=71.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.++||||+..      ....+.+.+..   .+.+++++|+...-.+ ..++      +......++|.|+|+||+|
T Consensus        63 ~~kinlIDTPGh~D------F~~ev~~~l~~---aD~alLVVDa~~G~~~qT~~~------l~~a~~~~ip~IVviNKiD  127 (594)
T TIGR01394        63 GTKINIVDTPGHAD------FGGEVERVLGM---VDGVLLLVDASEGPMPQTRFV------LKKALELGLKPIVVINKID  127 (594)
T ss_pred             CEEEEEEECCCHHH------HHHHHHHHHHh---CCEEEEEEeCCCCCcHHHHHH------HHHHHHCCCCEEEEEECCC
Confidence            56889999999654      12223344443   3678999999753222 2222      2233467899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc----------cHHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES----------SIRYVLSQIDN  262 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~----------~l~~Ll~~I~~  262 (284)
                      +....  ..+..+ ....++..+.                .-++.-...++++||++|.          |+..|++.|.+
T Consensus       128 ~~~a~--~~~v~~-ei~~l~~~~g----------------~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~  188 (594)
T TIGR01394       128 RPSAR--PDEVVD-EVFDLFAELG----------------ADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVR  188 (594)
T ss_pred             CCCcC--HHHHHH-HHHHHHHhhc----------------cccccccCcEEechhhcCcccccCcccccCHHHHHHHHHH
Confidence            85422  111111 0000000000                0011112468999999995          89999999999


Q ss_pred             hcCCC
Q 023298          263 CIQWG  267 (284)
Q Consensus       263 ~l~~g  267 (284)
                      .+|.-
T Consensus       189 ~lP~P  193 (594)
T TIGR01394       189 HVPAP  193 (594)
T ss_pred             hCCCC
Confidence            98754

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.93  E-value=2e-08  Score=101.17  Aligned_cols=110  Identities=13%  Similarity=0.196  Sum_probs=65.0

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ++.|+||||+....       .+..  ......+++++++|+.....+...-     .+......+.|+|+++||+|+..
T Consensus       136 ~i~~iDTPGhe~F~-------~~r~--rga~~aDiaILVVda~dgv~~qT~e-----~i~~~~~~~vPiIVviNKiDl~~  201 (587)
T TIGR00487       136 MITFLDTPGHEAFT-------SMRA--RGAKVTDIVVLVVAADDGVMPQTIE-----AISHAKAANVPIIVAINKIDKPE  201 (587)
T ss_pred             EEEEEECCCCcchh-------hHHH--hhhccCCEEEEEEECCCCCCHhHHH-----HHHHHHHcCCCEEEEEECccccc
Confidence            78999999975421       1111  1123356788899987543333321     12223456899999999999853


Q ss_pred             ch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHH
Q 023298          196 NK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       196 ~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      .. ..+...           +..     ++       -..+.++ ...++|+||++|+|+++|++.|..
T Consensus       202 ~~~e~v~~~-----------L~~-----~g-------~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       202 ANPDRVKQE-----------LSE-----YG-------LVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             CCHHHHHHH-----------HHH-----hh-------hhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            21 011111           110     00       0012233 357999999999999999998864

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>cd04126 Rab20 Rab20 subfamily

Probab=98.91  E-value=2.6e-08  Score=88.71  Aligned_cols=70  Identities=10%  Similarity=0.180  Sum_probs=41.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+...   +.    +... +..   .+++++++|.....+-.. +..++..+......+.|+|+|.||+|+
T Consensus        44 ~~l~iwDt~G~e~~---~~----l~~~~~~~---ad~~IlV~Dvt~~~Sf~~-l~~~~~~l~~~~~~~~piIlVgNK~DL  112 (220)
T cd04126          44 YNISIWDTAGREQF---HG----LGSMYCRG---AAAVILTYDVSNVQSLEE-LEDRFLGLTDTANEDCLFAVVGNKLDL  112 (220)
T ss_pred             EEEEEEeCCCcccc---hh----hHHHHhcc---CCEEEEEEECCCHHHHHH-HHHHHHHHHHhcCCCCcEEEEEECccc
Confidence            46789999997541   11    2221 222   467899999864322222 333333222222346899999999998


Q ss_pred             cc
Q 023298          194 VT  195 (284)
Q Consensus       194 l~  195 (284)
                      ..
T Consensus       113 ~~  114 (220)
T cd04126         113 TE  114 (220)
T ss_pred             cc
Confidence            64

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.91  E-value=6.4e-08  Score=89.00  Aligned_cols=195  Identities=14%  Similarity=0.175  Sum_probs=108.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCc----ccCchhhhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGL----GPNGGLIYC   93 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~l----gPng~l~~~   93 (284)
                      +-.+=|.|+| +||||+.-.|...|...|+||.++-.||....+.-.   =+-|-+..++.-...+.    .|+.+-.-.
T Consensus        51 a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGs---iLGDRiRM~~~~~~~~vFiRs~~srG~lGG  127 (323)
T COG1703          51 AHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGS---ILGDRIRMQRLAVDPGVFIRSSPSRGTLGG  127 (323)
T ss_pred             CcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcc---ccccHhhHHhhccCCCeEEeecCCCccchh
Confidence            3347799999 999999999999999999999999999988644321   11122222211111000    133222222


Q ss_pred             hHhhhhcHHHHHHHHhhccCCCCEEEEeCCC--CcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           94 MEHLEDNLDDWLAEELDNYLDDDYLVFDCPG--QIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        94 ~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg--~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                      +..   ..-+ ....++.. .+++|||-|=|  |.|.-            +..  ..++++++.-+. ..+...-+..-+
T Consensus       128 lS~---at~~-~i~~ldAa-G~DvIIVETVGvGQsev~------------I~~--~aDt~~~v~~pg-~GD~~Q~iK~Gi  187 (323)
T COG1703         128 LSR---ATRE-AIKLLDAA-GYDVIIVETVGVGQSEVD------------IAN--MADTFLVVMIPG-AGDDLQGIKAGI  187 (323)
T ss_pred             hhH---HHHH-HHHHHHhc-CCCEEEEEecCCCcchhH------------Hhh--hcceEEEEecCC-CCcHHHHHHhhh
Confidence            111   1101 11234444 88999999988  44311            111  123444443221 233333332221


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHH---HhccCC-ceEEEEec
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIEL---VDEYSM-VSFMPLDL  247 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~---l~~~~~-~~~ipiSa  247 (284)
                              ++.-=|+|+||.|.-..+   ..+                    +.|..++-..   -.+.+. -.++..||
T Consensus       188 --------mEiaDi~vINKaD~~~A~---~a~--------------------r~l~~al~~~~~~~~~~~W~ppv~~t~A  236 (323)
T COG1703         188 --------MEIADIIVINKADRKGAE---KAA--------------------RELRSALDLLREVWRENGWRPPVVTTSA  236 (323)
T ss_pred             --------hhhhheeeEeccChhhHH---HHH--------------------HHHHHHHHhhcccccccCCCCceeEeee
Confidence                    245669999999953222   111                    1111111111   122334 47999999


Q ss_pred             cCcccHHHHHHHHHHhcCCC
Q 023298          248 RKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       248 ~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      .+|+|+++|+.+|.+...+-
T Consensus       237 ~~g~Gi~~L~~ai~~h~~~~  256 (323)
T COG1703         237 LEGEGIDELWDAIEDHRKFL  256 (323)
T ss_pred             ccCCCHHHHHHHHHHHHHHH
Confidence            99999999999999887663

>PRK00007 elongation factor G; Reviewed

Probab=98.90  E-value=3.9e-08  Score=101.07  Aligned_cols=67  Identities=18%  Similarity=0.251  Sum_probs=45.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.+|||||+..      ....+...+..   .+++++++|+...-. .+..+..      ...+.++|.|+++||+|
T Consensus        74 ~~~~~liDTPG~~~------f~~ev~~al~~---~D~~vlVvda~~g~~~qt~~~~~------~~~~~~~p~iv~vNK~D  138 (693)
T PRK00007         74 DHRINIIDTPGHVD------FTIEVERSLRV---LDGAVAVFDAVGGVEPQSETVWR------QADKYKVPRIAFVNKMD  138 (693)
T ss_pred             CeEEEEEeCCCcHH------HHHHHHHHHHH---cCEEEEEEECCCCcchhhHHHHH------HHHHcCCCEEEEEECCC
Confidence            56899999999754      12234455544   368999999875533 3333332      23467899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       139 ~~~  141 (693)
T PRK00007        139 RTG  141 (693)
T ss_pred             CCC
Confidence            874

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.90  E-value=1.6e-08  Score=98.85  Aligned_cols=73  Identities=18%  Similarity=0.216  Sum_probs=43.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHH--HHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRN--FVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~--l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +..+.++||||+-+..   ...++  +.+........+++++++|+....+....   ++.   .....++|.|+|+||+
T Consensus       250 g~~v~l~DTaG~~~~~---~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~---~l~---~~~~~~~piIlV~NK~  320 (442)
T TIGR00450       250 GILIKLLDTAGIREHA---DFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF---LII---DLNKSKKPFILVLNKI  320 (442)
T ss_pred             CEEEEEeeCCCcccch---hHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH---HHH---HHhhCCCCEEEEEECc
Confidence            3467899999986522   11111  11222222235789999999755443332   211   2233578999999999


Q ss_pred             cccc
Q 023298          192 DLVT  195 (284)
Q Consensus       192 Dll~  195 (284)
                      |+..
T Consensus       321 Dl~~  324 (442)
T TIGR00450       321 DLKI  324 (442)
T ss_pred             cCCC
Confidence            9853

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring

Probab=98.89  E-value=3.5e-08  Score=92.86  Aligned_cols=45  Identities=11%  Similarity=0.135  Sum_probs=41.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .+.+++.|.|.| +||||++.|||.+|++.|+||++||+||+...+
T Consensus        29 ~~~~ii~v~gkgG~GKSt~a~nLa~~la~~g~rVllid~D~~~~~~   74 (329)
T cd02033          29 KKTQIIAIYGKGGIGKSFTLANLSYMMAQQGKRVLLIGCDPKSDTT   74 (329)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeeeccccc
Confidence            466778899999 999999999999999999999999999998643

This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=98.88  E-value=4e-08  Score=87.02  Aligned_cols=111  Identities=11%  Similarity=0.158  Sum_probs=66.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+-+.||||+-...       .+.+. +..   .+++++++|.....+.. .+..++..+... ..+.|+++|.||+|+
T Consensus        62 ~~l~i~Dt~G~~~~~-------~~~~~~~~~---~~~~ilvfD~~~~~s~~-~i~~w~~~i~~~-~~~~piilvgNK~Dl  129 (219)
T PLN03071         62 IRFYCWDTAGQEKFG-------GLRDGYYIH---GQCAIIMFDVTARLTYK-NVPTWHRDLCRV-CENIPIVLCGNKVDV  129 (219)
T ss_pred             EEEEEEECCCchhhh-------hhhHHHccc---ccEEEEEEeCCCHHHHH-HHHHHHHHHHHh-CCCCcEEEEEEchhh
Confidence            367899999975411       12222 222   35788889986432211 134444433332 246899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ....  ...      +.+                    +..... ...++.+||++|.|+.+++..|.+.+..
T Consensus       130 ~~~~--v~~------~~~--------------------~~~~~~-~~~~~e~SAk~~~~i~~~f~~l~~~~~~  173 (219)
T PLN03071        130 KNRQ--VKA------KQV--------------------TFHRKK-NLQYYEISAKSNYNFEKPFLYLARKLAG  173 (219)
T ss_pred             hhcc--CCH------HHH--------------------HHHHhc-CCEEEEcCCCCCCCHHHHHHHHHHHHHc
Confidence            4321  100      000                    111122 3578999999999999999988877643

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=98.88  E-value=3.3e-08  Score=76.85  Aligned_cols=36  Identities=17%  Similarity=0.218  Sum_probs=32.9

Q ss_pred             EEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           22 KCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        22 ~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +.|.|+ | +||||+|.+|+.+++++|++|+++|+|||
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~   39 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQ   39 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCC
Confidence            456665 6 99999999999999999999999999999

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>cd04121 Rab40 Rab40 subfamily

Probab=98.88  E-value=3.8e-08  Score=85.47  Aligned_cols=112  Identities=9%  Similarity=0.156  Sum_probs=67.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+-+.||||+-. +      ..+.+..-.  ..+++++++|.....+-.. +..++..+... ..+.|.|+|-||+|+.
T Consensus        55 ~~l~iwDt~G~~~-~------~~l~~~~~~--~ad~illVfD~t~~~Sf~~-~~~w~~~i~~~-~~~~piilVGNK~DL~  123 (189)
T cd04121          55 VKLQLWDTSGQGR-F------CTIFRSYSR--GAQGIILVYDITNRWSFDG-IDRWIKEIDEH-APGVPKILVGNRLHLA  123 (189)
T ss_pred             EEEEEEeCCCcHH-H------HHHHHHHhc--CCCEEEEEEECcCHHHHHH-HHHHHHHHHHh-CCCCCEEEEEECccch
Confidence            4678899999743 1      123222211  2468899999864322222 34444433222 2478999999999985


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ... .+.   .       ++               ..++....+ ..++.+||++|.|+++++..+.+.+
T Consensus       124 ~~~-~v~---~-------~~---------------~~~~a~~~~-~~~~e~SAk~g~~V~~~F~~l~~~i  166 (189)
T cd04121         124 FKR-QVA---T-------EQ---------------AQAYAERNG-MTFFEVSPLCNFNITESFTELARIV  166 (189)
T ss_pred             hcc-CCC---H-------HH---------------HHHHHHHcC-CEEEEecCCCCCCHHHHHHHHHHHH
Confidence            422 110   0       00               011113344 5799999999999999999888654

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=98.88  E-value=2.4e-08  Score=82.71  Aligned_cols=111  Identities=14%  Similarity=0.290  Sum_probs=69.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ...+-+.||||+....       .+.+. +..   .+.++++.|..   ++..|  +..++..+......+.|.++|-||
T Consensus        47 ~~~l~i~D~~g~~~~~-------~~~~~~~~~---~~~~ii~fd~~---~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K  113 (162)
T PF00071_consen   47 PVNLEIWDTSGQERFD-------SLRDIFYRN---SDAIIIVFDVT---DEESFENLKKWLEEIQKYKPEDIPIIVVGNK  113 (162)
T ss_dssp             EEEEEEEEETTSGGGH-------HHHHHHHTT---ESEEEEEEETT---BHHHHHTHHHHHHHHHHHSTTTSEEEEEEET
T ss_pred             cccccccccccccccc-------ccccccccc---ccccccccccc---ccccccccccccccccccccccccceeeecc
Confidence            3467899999975421       12222 223   35677778865   44444  445555444444445899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .|+...+ .+..-                         ...++..+++ ..++.+||+++.|+.+++..+.+.+
T Consensus       114 ~D~~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~e~Sa~~~~~v~~~f~~~i~~i  160 (162)
T PF00071_consen  114 SDLSDER-EVSVE-------------------------EAQEFAKELG-VPYFEVSAKNGENVKEIFQELIRKI  160 (162)
T ss_dssp             TTGGGGS-SSCHH-------------------------HHHHHHHHTT-SEEEEEBTTTTTTHHHHHHHHHHHH
T ss_pred             ccccccc-cchhh-------------------------HHHHHHHHhC-CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            9986422 12100                         0122335566 8999999999999999998887654

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=98.88  E-value=1.9e-08  Score=85.31  Aligned_cols=114  Identities=11%  Similarity=0.112  Sum_probs=65.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK  190 (284)
                      .++.+.||||+....       .+... +..   .+++++++|+..   +..+  +..++..+... .....|.++|.||
T Consensus        49 ~~l~i~Dt~G~~~~~-------~~~~~~~~~---ad~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK  115 (170)
T cd04108          49 FSLQLWDTAGQERFK-------CIASTYYRG---AQAIIIVFDLTD---VASLEHTRQWLEDALKENDPSSVLLFLVGTK  115 (170)
T ss_pred             EEEEEEeCCChHHHH-------hhHHHHhcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCeEEEEEEC
Confidence            467899999975421       12222 222   467899999853   2222  33443322111 1123568999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +|+.++. +.. ..+.       +               .......++ ..++.+||++|.|++++++.|.+...+
T Consensus       116 ~Dl~~~~-~~~-~~~~-------~---------------~~~~~~~~~-~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         116 KDLSSPA-QYA-LMEQ-------D---------------AIKLAAEMQ-AEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             hhcCccc-ccc-ccHH-------H---------------HHHHHHHcC-CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            9985432 211 0000       0               001112233 478999999999999999998877643

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.87  E-value=3e-08  Score=101.92  Aligned_cols=115  Identities=12%  Similarity=0.226  Sum_probs=68.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +..+.|+||||+-. |     .....+.+..   .+++++++|+.....+..+     ..+..+...+.|+|+|+||+|+
T Consensus       294 ~~kItfiDTPGhe~-F-----~~mr~rg~~~---aDiaILVVDA~dGv~~QT~-----E~I~~~k~~~iPiIVViNKiDl  359 (742)
T CHL00189        294 NQKIVFLDTPGHEA-F-----SSMRSRGANV---TDIAILIIAADDGVKPQTI-----EAINYIQAANVPIIVAINKIDK  359 (742)
T ss_pred             ceEEEEEECCcHHH-H-----HHHHHHHHHH---CCEEEEEEECcCCCChhhH-----HHHHHHHhcCceEEEEEECCCc
Confidence            45789999999633 1     1111222333   4688999998754334332     1122234568999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ....  .....        .++..     ++       .+.+.+ +...++|+||++|.|+++|++.|....
T Consensus       360 ~~~~--~e~v~--------~eL~~-----~~-------ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        360 ANAN--TERIK--------QQLAK-----YN-------LIPEKWGGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             cccC--HHHHH--------HHHHH-----hc-------cchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence            6422  11111        11110     00       001222 246899999999999999999987763

>PRK12740 elongation factor G; Reviewed

Probab=98.85  E-value=6.1e-08  Score=99.19  Aligned_cols=68  Identities=15%  Similarity=0.159  Sum_probs=43.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ++++.+|||||+.+.      .......+..   .+++++++|+.........  ..   +......++|.++|+||+|+
T Consensus        59 ~~~i~liDtPG~~~~------~~~~~~~l~~---aD~vllvvd~~~~~~~~~~--~~---~~~~~~~~~p~iiv~NK~D~  124 (668)
T PRK12740         59 GHKINLIDTPGHVDF------TGEVERALRV---LDGAVVVVCAVGGVEPQTE--TV---WRQAEKYGVPRIIFVNKMDR  124 (668)
T ss_pred             CEEEEEEECCCcHHH------HHHHHHHHHH---hCeEEEEEeCCCCcCHHHH--HH---HHHHHHcCCCEEEEEECCCC
Confidence            568999999997541      1223334443   4678999998754322211  11   12233568999999999998


Q ss_pred             cc
Q 023298          194 VT  195 (284)
Q Consensus       194 l~  195 (284)
                      ..
T Consensus       125 ~~  126 (668)
T PRK12740        125 AG  126 (668)
T ss_pred             CC
Confidence            64

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.85  E-value=4.9e-08  Score=90.17  Aligned_cols=174  Identities=13%  Similarity=0.161  Sum_probs=98.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCc----ccCchhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGL----GPNGGLIY   92 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~l----gPng~l~~   92 (284)
                      +-.++-|+|++ ||||||...+...|... +++.+|.-|.+...       |.+-       +...|.    .++|. +.
T Consensus       103 ~~~~v~l~G~pGsGKTTLl~~l~~~l~~~-~~~~VI~gD~~t~~-------Da~r-------I~~~g~pvvqi~tG~-~C  166 (290)
T PRK10463        103 KQLVLNLVSSPGSGKTTLLTETLMRLKDS-VPCAVIEGDQQTVN-------DAAR-------IRATGTPAIQVNTGK-GC  166 (290)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccC-CCEEEECCCcCcHH-------HHHH-------HHhcCCcEEEecCCC-CC
Confidence            45668899999 99999999999987654 58899988875431       2111       111121    12332 22


Q ss_pred             hhH--hhhhcHHHHHHHHhhccCCCCEEEEeCCCCc-ccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHH
Q 023298           93 CME--HLEDNLDDWLAEELDNYLDDDYLVFDCPGQI-ELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFIS  168 (284)
Q Consensus        93 ~~e--~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~-e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~  168 (284)
                      +.+  .+...+ .    .|... +.+++||++-|.. ....+         .+.. ....   .+++..... .|.++= 
T Consensus       167 hl~a~mv~~Al-~----~L~~~-~~d~liIEnvGnLvcPa~f---------dlge-~~~v---~vlsV~eg~dkplKyp-  226 (290)
T PRK10463        167 HLDAQMIADAA-P----RLPLD-DNGILFIENVGNLVCPASF---------DLGE-KHKV---AVLSVTEGEDKPLKYP-  226 (290)
T ss_pred             cCcHHHHHHHH-H----HHhhc-CCcEEEEECCCCccCCCcc---------chhh-ceeE---EEEECccccccchhcc-
Confidence            222  122222 1    22221 5689999999963 21110         1211 1122   234433221 233220 


Q ss_pred             HHHHHHHHHHhcCCCEEEEecCCccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEec
Q 023298          169 GCMASLSAMVQLELPHVNILSKMDLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDL  247 (284)
Q Consensus       169 ~~l~~l~~~~~~~~p~IlVlNK~Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa  247 (284)
                               ..+..+-++|+||+|++... ++++.++                          ..+-....+..++++||
T Consensus       227 ---------~~f~~ADIVVLNKiDLl~~~~~dle~~~--------------------------~~lr~lnp~a~I~~vSA  271 (290)
T PRK10463        227 ---------HMFAAASLMLLNKVDLLPYLNFDVEKCI--------------------------ACAREVNPEIEIILISA  271 (290)
T ss_pred             ---------chhhcCcEEEEEhHHcCcccHHHHHHHH--------------------------HHHHhhCCCCcEEEEEC
Confidence                     01346889999999997521 1233222                          11112335689999999


Q ss_pred             cCcccHHHHHHHHHH
Q 023298          248 RKESSIRYVLSQIDN  262 (284)
Q Consensus       248 ~~~~~l~~Ll~~I~~  262 (284)
                      ++|+|++.|++.|.+
T Consensus       272 ~tGeGld~L~~~L~~  286 (290)
T PRK10463        272 TSGEGMDQWLNWLET  286 (290)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            999999999999876

>TIGR00101 ureG urease accessory protein UreG

Probab=98.85  E-value=7.6e-08  Score=84.36  Aligned_cols=187  Identities=12%  Similarity=0.144  Sum_probs=98.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCcccc-cccc--ccHHHHhhhcCcccCchhhhhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMD-IREL--ISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~d-ir~~--i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      |+.+.|+||. |||||++.++...+... .++.++..|.....     +.. +++.  +.-+.++   .+..||.. .|-
T Consensus         1 ~~~i~i~G~~GsGKTTll~~l~~~l~~~-~~~~~~~~d~~~~~-----~~~~~~~~~~~~~~~~~---~~~~~g~~-~~~   70 (199)
T TIGR00101         1 PLKIGVAGPVGSGKTALIEALTRALRQK-YQLAVITNDIYTQE-----DAEFLVKNSALPPERIL---GVETGGCP-HTA   70 (199)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhhCcC-CcEEEEeCCcCChh-----HHHHHHHcCCCCcCcee---hhhcCCCc-cce
Confidence            5678999999 99999999999987654 46788887765421     000 0000  0000010   11112211 110


Q ss_pred             H--hhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHH
Q 023298           95 E--HLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMA  172 (284)
Q Consensus        95 e--~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~  172 (284)
                      .  .+.... ..|.+-+....+.++++|.|.|..-....       ...+ +    +.++.++|+....+.....     
T Consensus        71 ~~~~~~~~~-~~L~~l~~~~~~~D~iiIEt~G~~l~~~~-------~~~l-~----~~~i~vvD~~~~~~~~~~~-----  132 (199)
T TIGR00101        71 IREDASMNL-EAVAEMEARFPPLEMVFIESGGDNLSATF-------SPEL-A----DLTIFVIDVAAGDKIPRKG-----  132 (199)
T ss_pred             eccCHHHHH-HHHHHHHhcCCCCCEEEEECCCCCccccc-------chhh-h----CcEEEEEEcchhhhhhhhh-----
Confidence            0  011111 11222222222568999999993211111       1112 1    3467788986543211100     


Q ss_pred             HHHHHHhcCCCEEEEecCCccccc-hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc-cCCceEEEEeccCc
Q 023298          173 SLSAMVQLELPHVNILSKMDLVTN-KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE-YSMVSFMPLDLRKE  250 (284)
Q Consensus       173 ~l~~~~~~~~p~IlVlNK~Dll~~-~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~-~~~~~~ipiSa~~~  250 (284)
                          ..+....-++++||+|+... ..++..+.                           +.+.. ....+++++||++|
T Consensus       133 ----~~qi~~ad~~~~~k~d~~~~~~~~~~~~~---------------------------~~~~~~~~~~~i~~~Sa~~g  181 (199)
T TIGR00101       133 ----GPGITRSDLLVINKIDLAPMVGADLGVME---------------------------RDAKKMRGEKPFIFTNLKTK  181 (199)
T ss_pred             ----HhHhhhccEEEEEhhhccccccccHHHHH---------------------------HHHHHhCCCCCEEEEECCCC
Confidence                01222344899999999742 11222111                           11122 23478999999999


Q ss_pred             ccHHHHHHHHHHhc
Q 023298          251 SSIRYVLSQIDNCI  264 (284)
Q Consensus       251 ~~l~~Ll~~I~~~l  264 (284)
                      +|++++++.|.+.+
T Consensus       182 ~gi~el~~~i~~~~  195 (199)
T TIGR00101       182 EGLDTVIDWIEHYA  195 (199)
T ss_pred             CCHHHHHHHHHhhc
Confidence            99999999998764

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>cd04129 Rho2 Rho2 subfamily

Probab=98.85  E-value=3.4e-08  Score=84.79  Aligned_cols=123  Identities=11%  Similarity=0.092  Sum_probs=64.3

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ++.++||||+......+.    +  .+..   .++++++.|.....+....-..++..+.. ..-+.|+|+|.||+|+..
T Consensus        50 ~l~i~Dt~g~~~~~~~~~----~--~~~~---a~~~llv~~i~~~~s~~~~~~~~~~~i~~-~~~~~piilvgnK~Dl~~  119 (187)
T cd04129          50 QLALWDTAGQEEYERLRP----L--SYSK---AHVILIGFAVDTPDSLENVRTKWIEEVRR-YCPNVPVILVGLKKDLRQ  119 (187)
T ss_pred             EEEEEECCCChhccccch----h--hcCC---CCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEeeChhhhh
Confidence            578899999864321111    0  1222   24566666654322222211123332222 123689999999999854


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ...............         .       .....+...++...++.+||++|.|++++++.+.+..
T Consensus       120 ~~~~~~~~~~~~~~~---------~-------~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~  172 (187)
T cd04129         120 DAVAKEEYRTQRFVP---------I-------QQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAA  172 (187)
T ss_pred             CcccccccccCCcCC---------H-------HHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHH
Confidence            221111100000000         0       0001222445667899999999999999999988654

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>cd01875 RhoG RhoG subfamily

Probab=98.84  E-value=3.7e-08  Score=85.10  Aligned_cols=124  Identities=10%  Similarity=0.127  Sum_probs=69.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HH-HHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--IS-GCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~-~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+-+.||||+-...       .+.+..-.  ..+++++++|..   ++..|  +. .+...+... ..+.|+++|.||+
T Consensus        51 ~~l~i~Dt~G~e~~~-------~l~~~~~~--~a~~~ilvydit---~~~Sf~~~~~~w~~~i~~~-~~~~piilvgNK~  117 (191)
T cd01875          51 VSLNLWDTAGQEEYD-------RLRTLSYP--QTNVFIICFSIA---SPSSYENVRHKWHPEVCHH-CPNVPILLVGTKK  117 (191)
T ss_pred             EEEEEEECCCchhhh-------hhhhhhcc--CCCEEEEEEECC---CHHHHHHHHHHHHHHHHhh-CCCCCEEEEEeCh
Confidence            467899999985411       12221111  135788888875   34444  22 233222221 2468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...........+..       ... ...      ....++...++...++.+||++|+|++++++.+.+.+-
T Consensus       118 DL~~~~~~~~~~~~~~-------~~~-v~~------~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~  177 (191)
T cd01875         118 DLRNDADTLKKLKEQG-------QAP-ITP------QQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVL  177 (191)
T ss_pred             hhhcChhhHHHHhhcc-------CCC-CCH------HHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHh
Confidence            9854321111111000       000 000      00122234456678999999999999999999987663

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.84  E-value=1.8e-07  Score=93.32  Aligned_cols=67  Identities=15%  Similarity=0.193  Sum_probs=43.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.++||||+...      .....+.+..   .+.+++++|+...-.+. ..+      +......++|.++++||+|
T Consensus        78 ~~~inliDTPG~~df------~~~~~~~l~~---aD~aIlVvDa~~gv~~~t~~l------~~~~~~~~iPiiv~iNK~D  142 (526)
T PRK00741         78 DCLINLLDTPGHEDF------SEDTYRTLTA---VDSALMVIDAAKGVEPQTRKL------MEVCRLRDTPIFTFINKLD  142 (526)
T ss_pred             CEEEEEEECCCchhh------HHHHHHHHHH---CCEEEEEEecCCCCCHHHHHH------HHHHHhcCCCEEEEEECCc
Confidence            567899999997541      1223344544   36789999997532221 222      1223356899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       143 ~~~  145 (526)
T PRK00741        143 RDG  145 (526)
T ss_pred             ccc
Confidence            864

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.83  E-value=1.7e-07  Score=81.52  Aligned_cols=130  Identities=8%  Similarity=0.049  Sum_probs=72.8

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ++.++||||+-+...  . ...+++.+. ....++++++.+. .+...+..+...      +.+.+.|+++|+||+|+..
T Consensus        53 ~l~l~DtpG~~~~~~--~-~~~~l~~~~-~~~~d~~l~v~~~-~~~~~d~~~~~~------l~~~~~~~ilV~nK~D~~~  121 (197)
T cd04104          53 NVTLWDLPGIGSTAF--P-PDDYLEEMK-FSEYDFFIIISST-RFSSNDVKLAKA------IQCMGKKFYFVRTKVDRDL  121 (197)
T ss_pred             CceEEeCCCCCcccC--C-HHHHHHHhC-ccCcCEEEEEeCC-CCCHHHHHHHHH------HHHhCCCEEEEEecccchh
Confidence            678999999865321  1 223333332 1123556666554 344333333222      2345789999999999964


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--CceEEEEecc--CcccHHHHHHHHHHhcCCC
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--MVSFMPLDLR--KESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~~~~ipiSa~--~~~~l~~Ll~~I~~~l~~g  267 (284)
                      .......-.....+.++.           .+...+.+.+...+  .-.++++|+.  .+.++..|.+.|...||..
T Consensus       122 ~~~~~~~~~~~~~~~~l~-----------~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         122 SNEQRSKPRSFNREQVLQ-----------EIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             hhhhccccccccHHHHHH-----------HHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHH
Confidence            321111000000111112           23334445555433  3579999998  5789999999999988863

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.83  E-value=1.3e-08  Score=93.85  Aligned_cols=45  Identities=11%  Similarity=0.061  Sum_probs=39.9

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhc-C-CceEEEecCcCCC
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETV-R-RTMHIVNLDPAAE   59 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g-~~v~iVdLDPq~~   59 (284)
                      |..++.+++++||. |||||++..|+.++... | ++|.+|+.||+..
T Consensus       190 ~~~~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~  237 (282)
T TIGR03499       190 ILEQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRI  237 (282)
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccch
Confidence            45678889999999 99999999999999876 5 8999999999764

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.82  E-value=7.7e-08  Score=80.93  Aligned_cols=113  Identities=18%  Similarity=0.199  Sum_probs=62.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHH-HHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFV-DHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~-~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.+.||||+....       .+. ..+..   .++++|++|+....+... ...++..+.. ...+.|+++|.||+|
T Consensus        43 ~~~l~i~Dt~G~~~~~-------~~~~~~~~~---ad~ii~V~D~t~~~s~~~-~~~~l~~~~~-~~~~~piilv~NK~D  110 (164)
T cd04162          43 DAIMELLEIGGSQNLR-------KYWKRYLSG---SQGLIFVVDSADSERLPL-ARQELHQLLQ-HPPDLPLVVLANKQD  110 (164)
T ss_pred             CeEEEEEECCCCcchh-------HHHHHHHhh---CCEEEEEEECCCHHHHHH-HHHHHHHHHh-CCCCCcEEEEEeCcC
Confidence            4468999999975421       121 22333   367899999864321111 1222221111 125799999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccC------cccHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRK------ESSIRYVLSQID  261 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~------~~~l~~Ll~~I~  261 (284)
                      +.... ....+.        ..+.             +.++..+. ...+++.||++      ++|+++++..+.
T Consensus       111 l~~~~-~~~~i~--------~~~~-------------~~~~~~~~-~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~  162 (164)
T cd04162         111 LPAAR-SVQEIH--------KELE-------------LEPIARGR-RWILQGTSLDDDGSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             CcCCC-CHHHHH--------HHhC-------------ChhhcCCC-ceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence            85432 222111        0000             01111222 25688999999      999999888764

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd04131 Rnd Rnd subfamily

Probab=98.79  E-value=6.3e-08  Score=82.99  Aligned_cols=124  Identities=8%  Similarity=0.035  Sum_probs=67.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+-+.||||+-...       .+....  ....+++++++|.....+-...+..++..+.... -+.|+|+|-||+|+.
T Consensus        49 ~~l~iwDt~G~~~~~-------~~~~~~--~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~  118 (178)
T cd04131          49 IELSLWDTSGSPYYD-------NVRPLC--YPDSDAVLICFDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLR  118 (178)
T ss_pred             EEEEEEECCCchhhh-------hcchhh--cCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhh
Confidence            357889999974311       111111  1123578889998644332222234444333322 368999999999985


Q ss_pred             cchhhhhhhcCcchHHHHHHhhh-cchhHHHHHHHHHHHHHhccCCceEEEEeccCccc-HHHHHHHHHHh
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQ-HMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESS-IRYVLSQIDNC  263 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~-~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~-l~~Ll~~I~~~  263 (284)
                      .......+.-.         ... .-.      .....++.+.++...++.+||++|++ +++++..+.++
T Consensus       119 ~~~~~~~~~~~---------~~~~~v~------~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~  174 (178)
T cd04131         119 TDLSTLMELSH---------QRQAPVS------YEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMA  174 (178)
T ss_pred             cChhHHHHHHh---------cCCCCCC------HHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHH
Confidence            42111110000         000 000      00112333556656899999999995 99999988763

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.78  E-value=9.3e-08  Score=99.05  Aligned_cols=113  Identities=15%  Similarity=0.217  Sum_probs=66.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +..+.|+||||+.. |.      .+..+  .....+++++++|+.....+...-     .+......+.|.|+|+||+|+
T Consensus       336 ~~~ItfiDTPGhe~-F~------~m~~r--ga~~aDiaILVVdAddGv~~qT~e-----~i~~a~~~~vPiIVviNKiDl  401 (787)
T PRK05306        336 GGKITFLDTPGHEA-FT------AMRAR--GAQVTDIVVLVVAADDGVMPQTIE-----AINHAKAAGVPIIVAINKIDK  401 (787)
T ss_pred             CEEEEEEECCCCcc-ch------hHHHh--hhhhCCEEEEEEECCCCCCHhHHH-----HHHHHHhcCCcEEEEEECccc
Confidence            34689999999643 21      12221  112346788999986543333321     112233578999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHH
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      ....  .....        .++..     ++       .+.++++ ...++|+||++|.|++.|++.|..
T Consensus       402 ~~a~--~e~V~--------~eL~~-----~~-------~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~  449 (787)
T PRK05306        402 PGAN--PDRVK--------QELSE-----YG-------LVPEEWGGDTIFVPVSAKTGEGIDELLEAILL  449 (787)
T ss_pred             cccC--HHHHH--------HHHHH-----hc-------ccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence            5321  11111        11110     00       0012233 368999999999999999998875

>cd04133 Rop_like Rop subfamily

Probab=98.78  E-value=6.5e-08  Score=83.00  Aligned_cols=123  Identities=11%  Similarity=0.128  Sum_probs=68.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++-|.||+|+-+....   ...   .+..   .+.++++.|.....+-......++..+.... .+.|.++|-||+|+.
T Consensus        49 v~l~i~Dt~G~~~~~~~---~~~---~~~~---a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~  118 (176)
T cd04133          49 VNLGLWDTAGQEDYNRL---RPL---SYRG---ADVFVLAFSLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLR  118 (176)
T ss_pred             EEEEEEECCCCcccccc---chh---hcCC---CcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhc
Confidence            46789999998542211   110   1222   3578888888643322221223444333222 368999999999996


Q ss_pred             cchhhh-hhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEI-EDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l-~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..+... ...-...       +.          .....++...++...++.+||++|.|++++++.+.+.+
T Consensus       119 ~~~~~~~~~~~~~~-------v~----------~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~  172 (176)
T cd04133         119 DDKQYLADHPGASP-------IT----------TAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVV  172 (176)
T ss_pred             cChhhhhhccCCCC-------CC----------HHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHH
Confidence            432110 0000000       00          00011222445545799999999999999999998864

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=98.77  E-value=1.4e-07  Score=90.70  Aligned_cols=117  Identities=14%  Similarity=0.208  Sum_probs=72.8

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhh-----cCcccCchh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE-----LGLGPNGGL   90 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~-----~~lgPng~l   90 (284)
                      ..|..|+++|-- |||||+|.-||.||.++|++|++|-+|.....-     ++  .+   ..+-++     |+.+++-..
T Consensus        98 ~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA-----~e--QL---~~La~q~~v~~f~~~~~~~P  167 (451)
T COG0541          98 KPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAA-----IE--QL---KQLAEQVGVPFFGSGTEKDP  167 (451)
T ss_pred             CCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHH-----HH--HH---HHHHHHcCCceecCCCCCCH
Confidence            358999999998 999999999999999999999999999876421     10  11   000011     121111111


Q ss_pred             hhhhHhhhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHH---hcCCCeEEEEEecCCCC
Q 023298           91 IYCMEHLEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLK---SRNFNVCAVYLLDSQFI  160 (284)
Q Consensus        91 ~~~~e~~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~---~~d~~~vil~LiDa~~~  160 (284)
                      +           ++.++.++..+  .++++||||.|.+..      -+.|+..+.   +.-.++=+++++|+...
T Consensus       168 v-----------~Iak~al~~ak~~~~DvvIvDTAGRl~i------de~Lm~El~~Ik~~~~P~E~llVvDam~G  225 (451)
T COG0541         168 V-----------EIAKAALEKAKEEGYDVVIVDTAGRLHI------DEELMDELKEIKEVINPDETLLVVDAMIG  225 (451)
T ss_pred             H-----------HHHHHHHHHHHHcCCCEEEEeCCCcccc------cHHHHHHHHHHHhhcCCCeEEEEEecccc
Confidence            1           11222333222  579999999998763      233544442   22225668999999643

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.77  E-value=2e-07  Score=94.08  Aligned_cols=129  Identities=20%  Similarity=0.299  Sum_probs=66.2

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      .+.|+||||+.. |.      .+...  .....+++++++|+...-.+..+-.     +..+...+.|.++|+||+|+..
T Consensus        72 ~i~~iDTPG~e~-f~------~~~~~--~~~~aD~~IlVvDa~~g~~~qt~e~-----i~~~~~~~vpiIvviNK~D~~~  137 (586)
T PRK04004         72 GLLFIDTPGHEA-FT------NLRKR--GGALADIAILVVDINEGFQPQTIEA-----INILKRRKTPFVVAANKIDRIP  137 (586)
T ss_pred             CEEEEECCChHH-HH------HHHHH--hHhhCCEEEEEEECCCCCCHhHHHH-----HHHHHHcCCCEEEEEECcCCch
Confidence            479999999753 21      11111  1122468999999975433444321     1223356899999999999852


Q ss_pred             chh-hh-hhhcCc---chHHHHHHhhhcchhHHHHHHHHHH---------HHHhcc-CCceEEEEeccCcccHHHHHHHH
Q 023298          196 NKK-EI-EDYLNP---ESQFLLSELNQHMAPQFAKLNKSLI---------ELVDEY-SMVSFMPLDLRKESSIRYVLSQI  260 (284)
Q Consensus       196 ~~~-~l-~~~l~~---~~~~l~~~l~~~~~~~~~~l~~~i~---------~~l~~~-~~~~~ipiSa~~~~~l~~Ll~~I  260 (284)
                      ... .. ..+.+.   ........+    .....++...+.         .-+.++ +...++|+||.+|+|+++|++.+
T Consensus       138 ~~~~~~~~~~~e~~~~~~~~v~~~f----~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i  213 (586)
T PRK04004        138 GWKSTEDAPFLESIEKQSQRVQQEL----EEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVL  213 (586)
T ss_pred             hhhhhcCchHHHHHhhhhHHHHHHH----HHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHH
Confidence            110 00 011100   000000000    000111111111         001222 34789999999999999999887


Q ss_pred             HH
Q 023298          261 DN  262 (284)
Q Consensus       261 ~~  262 (284)
                      ..
T Consensus       214 ~~  215 (586)
T PRK04004        214 AG  215 (586)
T ss_pred             HH
Confidence            64

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=98.76  E-value=1e-07  Score=85.57  Aligned_cols=125  Identities=12%  Similarity=0.088  Sum_probs=67.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.|.||+|+.. |  .    .+... +..   .+++++++|.....+-...+..|+..+.... -+.|+|+|.||+|+
T Consensus        61 v~l~iwDTaG~e~-~--~----~~~~~~~~~---ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL  129 (232)
T cd04174          61 VELSLWDTSGSPY-Y--D----NVRPLCYSD---SDAVLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDL  129 (232)
T ss_pred             EEEEEEeCCCchh-h--H----HHHHHHcCC---CcEEEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccc
Confidence            3678999999743 1  1    12121 222   4678889998633222221223433332222 36799999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc-cHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~-~l~~Ll~~I~~~l  264 (284)
                      ......+.+......    ..+.          .....++.+.++...|+..||++|+ |+++++..+.+..
T Consensus       130 ~~~~~~~~~l~~~~~----~~Vs----------~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~  187 (232)
T cd04174         130 RTDLSTLMELSNQKQ----APIS----------YEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLC  187 (232)
T ss_pred             ccccchhhhhccccC----CcCC----------HHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHH
Confidence            532111111000000    0000          0011233355665679999999998 8999999886653

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.76  E-value=1.2e-07  Score=90.52  Aligned_cols=105  Identities=19%  Similarity=0.321  Sum_probs=61.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-------CCHHHHHHHHHHHHHHHHhcCC-CEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-------TDVTKFISGCMASLSAMVQLEL-PHV  185 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-------~~~~~~i~~~l~~l~~~~~~~~-p~I  185 (284)
                      .+.+.|+|||| |.     ...+.|+.-..   ..++.+++||+...       ..+...-..+|.   .  -+++ ..|
T Consensus        84 k~~~tIiDaPG-Hr-----dFvknmItGas---qAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La---~--tlGi~~lI  149 (428)
T COG5256          84 KYNFTIIDAPG-HR-----DFVKNMITGAS---QADVAVLVVDARDGEFEAGFGVGGQTREHAFLA---R--TLGIKQLI  149 (428)
T ss_pred             CceEEEeeCCc-hH-----HHHHHhhcchh---hccEEEEEEECCCCccccccccCCchhHHHHHH---H--hcCCceEE
Confidence            45689999999 43     22333433332   24689999999754       122222222211   1  1333 457


Q ss_pred             EEecCCcccc-chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHHH
Q 023298          186 NILSKMDLVT-NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIRY  255 (284)
Q Consensus       186 lVlNK~Dll~-~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~~  255 (284)
                      +++||+|.++ ++.                       +|.+.-..+..+++.+++    ..|+|+|+..|+|+..
T Consensus       150 VavNKMD~v~wde~-----------------------rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         150 VAVNKMDLVSWDEE-----------------------RFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             EEEEcccccccCHH-----------------------HHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccc
Confidence            7899999985 221                       222223333445566655    4699999999999875

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.76  E-value=1.9e-07  Score=89.26  Aligned_cols=45  Identities=11%  Similarity=0.177  Sum_probs=38.7

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHHHh-cC-CceEEEecCcCC
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHCET-VR-RTMHIVNLDPAA   58 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~-~g-~~v~iVdLDPq~   58 (284)
                      .|+.+...++++||. |||||++..|+.++.. .| ++|.+|..|+..
T Consensus       132 ~~~~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R  179 (374)
T PRK14722        132 ALMERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYR  179 (374)
T ss_pred             ccccCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEeccccc
Confidence            467777889999999 9999999999998764 46 699999999974

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=98.75  E-value=1.1e-07  Score=81.87  Aligned_cols=124  Identities=8%  Similarity=0.074  Sum_probs=67.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+-+.||+|+-+..       .+... +..   .+++++++|.....+-......++..+.... -+.|.|+|.||+|+
T Consensus        53 ~~l~iwDtaG~e~~~-------~~~~~~~~~---ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL  121 (182)
T cd04172          53 IELSLWDTSGSPYYD-------NVRPLSYPD---SDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDL  121 (182)
T ss_pred             EEEEEEECCCchhhH-------hhhhhhcCC---CCEEEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhh
Confidence            357889999974311       12111 222   3678889997633222222234443332222 36899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCccc-HHHHHHHHHHh
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESS-IRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~-l~~Ll~~I~~~  263 (284)
                      ......+......        -...-.      .....++...++...|+.+||++|.| +++++..+.++
T Consensus       122 ~~~~~~~~~~~~~--------~~~~v~------~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~  178 (182)
T cd04172         122 RTDLTTLVELSNH--------RQTPVS------YDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLA  178 (182)
T ss_pred             hcChhhHHHHHhc--------CCCCCC------HHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHH
Confidence            5321111100000        000000      00112333556666899999999998 99999887763

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>PRK13351 elongation factor G; Reviewed

Probab=98.75  E-value=3e-07  Score=94.50  Aligned_cols=67  Identities=19%  Similarity=0.258  Sum_probs=42.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+.+.      .......+..   .+.+++++|+....... ..+.      ......++|+++|+||+|
T Consensus        72 ~~~i~liDtPG~~df------~~~~~~~l~~---aD~~ilVvd~~~~~~~~~~~~~------~~~~~~~~p~iiviNK~D  136 (687)
T PRK13351         72 NHRINLIDTPGHIDF------TGEVERSLRV---LDGAVVVFDAVTGVQPQTETVW------RQADRYGIPRLIFINKMD  136 (687)
T ss_pred             CEEEEEEECCCcHHH------HHHHHHHHHh---CCEEEEEEeCCCCCCHHHHHHH------HHHHhcCCCEEEEEECCC
Confidence            558899999997651      1122333433   36788899987543222 2122      223356899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       137 ~~~  139 (687)
T PRK13351        137 RVG  139 (687)
T ss_pred             CCC
Confidence            875

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=98.74  E-value=1.2e-08  Score=89.08  Aligned_cols=122  Identities=22%  Similarity=0.227  Sum_probs=93.0

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC-----CccccccccccHHHHhhhcCcccCchhhhh
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY-----PVAMDIRELISLEDVMEELGLGPNGGLIYC   93 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~-----~~~~dir~~i~~~~vm~~~~lgPng~l~~~   93 (284)
                      ..++|+|++ |||||++..|..+....++.+.+++.+|+....++     ....|+++......+|..|..|++|.++..
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~   85 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVY   85 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEE
Confidence            569999999 99999999999999888899999999999987666     234588888888889999999999988654


Q ss_pred             hHh----hhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHH
Q 023298           94 MEH----LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHL  142 (284)
Q Consensus        94 ~e~----~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l  142 (284)
                      ...    .....+.|... +......++.++++|+.++.+.+......+.+.+
T Consensus        86 d~~~~~~~~~~~~~~~~~-l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~  137 (219)
T COG1100          86 DSTLRESSDELTEEWLEE-LRELAPDDVPILLVGNKIDLFDEQSSSEEILNQL  137 (219)
T ss_pred             ecccchhhhHHHHHHHHH-HHHhCCCCceEEEEecccccccchhHHHHHHhhh
Confidence            332    23334345543 3332134789999999999887766665555544

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.74  E-value=2.4e-07  Score=84.99  Aligned_cols=151  Identities=10%  Similarity=0.157  Sum_probs=82.0

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhh
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLE   98 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~   98 (284)
                      ..++++|+. +||||++..++.++...+++|.+|+.|++.-..       +..+....   +..++ |-- ....-+.+.
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~-------~~ql~~~~---~~~~~-~~~-~~~~~~~l~  143 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGT-------VQQLQDYV---KTIGF-EVI-AVRDEAAMT  143 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHH-------HHHHHHHh---hhcCc-eEE-ecCCHHHHH
Confidence            569999999 999999999999998889999999999885210       00000000   11111 100 000001111


Q ss_pred             hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH
Q 023298           99 DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV  178 (284)
Q Consensus        99 ~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~  178 (284)
                          +.++ .+.+..++++|+|||||...  ........+.+.+.... .+-+++++++....  .+.. ..+.   .+.
T Consensus       144 ----~~l~-~l~~~~~~D~ViIDt~Gr~~--~~~~~l~el~~~~~~~~-~~~~~LVl~a~~~~--~d~~-~~~~---~f~  209 (270)
T PRK06731        144 ----RALT-YFKEEARVDYILIDTAGKNY--RASETVEEMIETMGQVE-PDYICLTLSASMKS--KDMI-EIIT---NFK  209 (270)
T ss_pred             ----HHHH-HHHhcCCCCEEEEECCCCCc--CCHHHHHHHHHHHhhhC-CCeEEEEEcCccCH--HHHH-HHHH---HhC
Confidence                1111 22222257999999999864  22233444444443222 34567788875332  2211 1111   122


Q ss_pred             hcCCCEEEEecCCccccch
Q 023298          179 QLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       179 ~~~~p~IlVlNK~Dll~~~  197 (284)
                      .. .+.=++++|.|-..+.
T Consensus       210 ~~-~~~~~I~TKlDet~~~  227 (270)
T PRK06731        210 DI-HIDGIVFTKFDETASS  227 (270)
T ss_pred             CC-CCCEEEEEeecCCCCc
Confidence            22 3567889999976543

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=98.74  E-value=4.8e-08  Score=83.46  Aligned_cols=115  Identities=15%  Similarity=0.157  Sum_probs=65.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH-HHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL-SAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l-~~~~~~~~p~IlVlNK~D  192 (284)
                      +..+.+.|.+|+........      ..+..   .+.++|+||+....+-.+. ...+..+ ......++|+++++||.|
T Consensus        57 ~~~~~~~d~gG~~~~~~~w~------~y~~~---~~~iIfVvDssd~~~l~e~-~~~L~~ll~~~~~~~~piLIl~NK~D  126 (175)
T PF00025_consen   57 GYSLTIWDLGGQESFRPLWK------SYFQN---ADGIIFVVDSSDPERLQEA-KEELKELLNDPELKDIPILILANKQD  126 (175)
T ss_dssp             TEEEEEEEESSSGGGGGGGG------GGHTT---ESEEEEEEETTGGGGHHHH-HHHHHHHHTSGGGTTSEEEEEEESTT
T ss_pred             cEEEEEEeccccccccccce------eeccc---cceeEEEEecccceeeccc-ccchhhhcchhhcccceEEEEecccc
Confidence            45789999999865321100      11222   4689999999754322221 1111111 111224789999999999


Q ss_pred             cccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +....  .++...+.         +.                -+..-....+++.||.+|+|+.+.++-|.+.
T Consensus       127 ~~~~~~~~~i~~~l~---------l~----------------~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~  174 (175)
T PF00025_consen  127 LPDAMSEEEIKEYLG---------LE----------------KLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQ  174 (175)
T ss_dssp             STTSSTHHHHHHHTT---------GG----------------GTTSSSCEEEEEEBTTTTBTHHHHHHHHHHH
T ss_pred             ccCcchhhHHHhhhh---------hh----------------hcccCCceEEEeeeccCCcCHHHHHHHHHhc
Confidence            85422  12222221         00                0111224679999999999999999887654

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>COG5623 CLP1 Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]

Probab=98.72  E-value=3.7e-08  Score=90.57  Aligned_cols=119  Identities=18%  Similarity=0.247  Sum_probs=74.8

Q ss_pred             hccccccc-CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccc---cccccccHHHHhhhcCc
Q 023298           10 KGYMSWLY-ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAM---DIRELISLEDVMEELGL   84 (284)
Q Consensus        10 ~~~~~~~~-~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~---dir~~i~~~~vm~~~~l   84 (284)
                      |--|+-+. ||. ++|+|+. .||||+|..|..|.-+.+++++.+||||++..+-+|+.+   .+.++++.++-.++..+
T Consensus        90 k~rm~n~e~gp~-v~vvGgsq~Gkts~~~tL~syalk~~~~pl~~nlDP~Qp~~~~PG~iSa~h~~~ilD~q~~~wGqSl  168 (424)
T COG5623          90 KRRMFNYEKGPT-VMVVGGSQNGKTSFCFTLISYALKLGKKPLFTNLDPSQPGNIFPGAISAIHVDAILDCQEGLWGQSL  168 (424)
T ss_pred             hhcccccccCCE-EEEECCCcCCceeHHHHHHHHHHHhcCCceEEecCCCCcccccCccccccchhhhhhhhcccccccc
Confidence            33466666 555 9999999 999999999999999999999999999998866565433   33444444443332222


Q ss_pred             --ccCc-----hhh--hhhHhhhhcHHHH------HHHHhh----cc--CCCCEEEEeCCCCcccc
Q 023298           85 --GPNG-----GLI--YCMEHLEDNLDDW------LAEELD----NY--LDDDYLVFDCPGQIELF  129 (284)
Q Consensus        85 --gPng-----~l~--~~~e~~~~~~~~~------l~~~l~----~~--~~~~~viiDtPg~~e~~  129 (284)
                        ||..     .++  ++++...+|.+-+      |.+.+.    ..  .+...+++|||.+.+..
T Consensus       169 tsGaTll~~K~Plv~nfGl~~i~eN~~LY~l~~s~L~~aV~~r~hl~~d~r~sgC~vdTpSIsqld  234 (424)
T COG5623         169 TSGATLLRLKNPLVFNFGLTEITENMELYDLQTSKLQEAVKARNHLVEDLRLSGCPVDTPSISQLD  234 (424)
T ss_pred             cccchhhhccCceEEecccCccccCHHHHHHHHHHHHHHHHhhhccCccceeecCccCCcchhhhh
Confidence              2210     011  2344455555321      222221    11  14578999999977644

>TIGR00503 prfC peptide chain release factor 3

Probab=98.72  E-value=9.5e-07  Score=88.19  Aligned_cols=67  Identities=16%  Similarity=0.187  Sum_probs=42.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+.. |     .....+.+..   .+++++++|+...-. ....+..      .....++|.++++||+|
T Consensus        79 ~~~inliDTPG~~d-f-----~~~~~~~l~~---aD~aIlVvDa~~gv~~~t~~l~~------~~~~~~~PiivviNKiD  143 (527)
T TIGR00503        79 DCLVNLLDTPGHED-F-----SEDTYRTLTA---VDNCLMVIDAAKGVETRTRKLME------VTRLRDTPIFTFMNKLD  143 (527)
T ss_pred             CeEEEEEECCChhh-H-----HHHHHHHHHh---CCEEEEEEECCCCCCHHHHHHHH------HHHhcCCCEEEEEECcc
Confidence            56889999999742 1     1223334443   468899999975322 2222222      22346789999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       144 ~~~  146 (527)
T TIGR00503       144 RDI  146 (527)
T ss_pred             ccC
Confidence            853

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>PTZ00258 GTP-binding protein; Provisional

Probab=98.71  E-value=7.4e-07  Score=85.64  Aligned_cols=42  Identities=10%  Similarity=0.080  Sum_probs=30.6

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                      ..++.++||||.++... ....+++++.+++.   .++++|+||+.
T Consensus        84 ~aqi~lvDtpGLv~ga~~g~gLg~~fL~~Ir~---aD~il~VVd~f  126 (390)
T PTZ00258         84 PAQLDITDIAGLVKGASEGEGLGNAFLSHIRA---VDGIYHVVRAF  126 (390)
T ss_pred             CCCeEEEECCCcCcCCcchhHHHHHHHHHHHH---CCEEEEEEeCC
Confidence            56899999999886432 22455667777765   46899999984

>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=98.71  E-value=2.8e-07  Score=84.28  Aligned_cols=157  Identities=15%  Similarity=0.182  Sum_probs=82.6

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCcccc----cccccc---HHHH-----hhhcCcccC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMD----IRELIS---LEDV-----MEELGLGPN   87 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~d----ir~~i~---~~~v-----m~~~~lgPn   87 (284)
                      +.+.-|.| +||||.+.|||..+++.|+||.+||+|=-....+.-...+    +.+...   +.++     ++...++|-
T Consensus        60 I~V~S~kgGvGKStva~nLA~alA~~G~rVlliDaD~~gps~~~~l~~~~~~g~~~~~~g~~~~~~~~~~~~~~lsi~~~  139 (265)
T COG0489          60 IAVTSGKGGVGKSTVAVNLAAALAQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLAGEALEPVIQHDGIKVLSILPL  139 (265)
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHhcCCcEEEEeCcCCCCchHHHhCCCCCCCcccccCCCccccceecCccceEEEEec
Confidence            34455667 9999999999999999999999999997766432110000    111100   1121     122333333


Q ss_pred             ch--hhhhhHh-hhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH
Q 023298           88 GG--LIYCMEH-LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT  164 (284)
Q Consensus        88 g~--l~~~~e~-~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~  164 (284)
                      +.  ... -+. ....+.+++.+....  +++|+||||||.....     .-.+   ++.  ..+-+++++-....   .
T Consensus       140 ~~~p~~~-r~~l~s~~~~qll~~~~~~--~~D~vIID~PP~~g~~-----d~~i---~~~--~~~g~viVt~p~~~---~  203 (265)
T COG0489         140 GPVPVIP-RGLLGSKAMLQLLEDVLWG--EYDYVIIDTPPGTGDA-----DATV---LQR--IPDGVVIVTTPGKT---A  203 (265)
T ss_pred             CCCCCCC-hHhhhhHHHHHHHHHHhcc--CCCEEEEeCCCCchHH-----HHHH---Hhc--cCCeEEEEeCCccc---h
Confidence            22  111 111 122333444433332  4899999999965421     1111   222  23345555433211   1


Q ss_pred             HHHHHHHHHHHHHHhcCCCEEE-EecCCcccc
Q 023298          165 KFISGCMASLSAMVQLELPHVN-ILSKMDLVT  195 (284)
Q Consensus       165 ~~i~~~l~~l~~~~~~~~p~Il-VlNK~Dll~  195 (284)
                        .....+++..+.+.+.|++- |.|+.+...
T Consensus       204 --~~~v~ka~~~~~~~~~~vlGvv~Nm~~~~~  233 (265)
T COG0489         204 --LEDVKKAIDMLEKAGIPVLGVVENMSYFIC  233 (265)
T ss_pred             --HHHHHHHHHHHHhcCCceEEEEecCccCcc
Confidence              22233445666778888864 578777654

>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

Probab=98.71  E-value=1e-07  Score=84.23  Aligned_cols=106  Identities=18%  Similarity=0.238  Sum_probs=64.3

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC----Cc--cccccc----cccHHHHhhhcCcccCc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY----PV--AMDIRE----LISLEDVMEELGLGPNG   88 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~----~~--~~dir~----~i~~~~vm~~~~lgPng   88 (284)
                      .+++--|.| |||||++.|++..|++.|+||.+||.|-+--++..    +.  -+|+=+    -.++.+.+-+..-.+|-
T Consensus         4 iIVvTSGKGGVGKTTttAnig~aLA~~GkKv~liD~DiGLRNLDlimGlE~RiVYd~vdVi~g~~~l~QALIkDKr~~nL   83 (272)
T COG2894           4 IIVVTSGKGGVGKTTTTANIGTALAQLGKKVVLIDFDIGLRNLDLIMGLENRIVYDLVDVIEGEATLNQALIKDKRLENL   83 (272)
T ss_pred             EEEEecCCCCcCccchhHHHHHHHHHcCCeEEEEecCcCchhhhhhhcccceeeeeehhhhcCccchhhHhhccccCCce
Confidence            344555778 99999999999999999999999999999876431    10  011111    11222222122223444


Q ss_pred             hhhhhhHh-----hhh-cHHHHHHHHhhccCCCCEEEEeCCCCcc
Q 023298           89 GLIYCMEH-----LED-NLDDWLAEELDNYLDDDYLVFDCPGQIE  127 (284)
Q Consensus        89 ~l~~~~e~-----~~~-~~~~~l~~~l~~~~~~~~viiDtPg~~e  127 (284)
                      -++.+.+.     +.. .+ +++-++|.+. +++||++|+|..+|
T Consensus        84 ~lLPAsQtrdKdalt~E~v-~~vv~eL~~~-~fDyIi~DsPAGIE  126 (272)
T COG2894          84 FLLPASQTRDKDALTPEGV-KKVVNELKAM-DFDYIIIDSPAGIE  126 (272)
T ss_pred             EecccccccCcccCCHHHH-HHHHHHHHhc-CCCEEEecCcchHH
Confidence            44443221     111 11 2344555542 78999999999888

>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments

Probab=98.71  E-value=1.8e-08  Score=90.72  Aligned_cols=39  Identities=15%  Similarity=0.147  Sum_probs=29.3

Q ss_pred             EEEECC--C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           22 KCVFSP--P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        22 ~~viG~--~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ++|+|+  | |||||.+.|+|..|+..|++|-++|+|..+..
T Consensus         2 iIvV~sgKGGvGKSTva~~lA~aLa~~G~kVg~lD~Di~q~S   43 (261)
T PF09140_consen    2 IIVVGSGKGGVGKSTVAVNLAVALARMGKKVGLLDLDIRQPS   43 (261)
T ss_dssp             EEEEE-SSTTTTHHHHHHHHHHHHHCTT--EEEEE--TTT-H
T ss_pred             EEEEecCCCCCcHHHHHHHHHHHHHHCCCeEEEEecCCCCCC
Confidence            556655  6 99999999999999999999999999997654

Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=98.70  E-value=3.1e-07  Score=77.12  Aligned_cols=106  Identities=12%  Similarity=0.134  Sum_probs=62.5

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK~D  192 (284)
                      .+-+.||+|+-.        .   .....   .+++++++|...   +..|  +..++..+..... .+.|.++|.||.|
T Consensus        48 ~l~i~D~~g~~~--------~---~~~~~---~~~~ilv~d~~~---~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~D  110 (158)
T cd04103          48 LLLIRDEGGAPD--------A---QFASW---VDAVIFVFSLEN---EASFQTVYNLYHQLSSYRNISEIPLILVGTQDA  110 (158)
T ss_pred             EEEEEECCCCCc--------h---hHHhc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHH
Confidence            467889999843        0   11222   357888898863   3333  2334333333222 3579999999999


Q ss_pred             cccc-hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTN-KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~-~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +... ...+...                      ..   .++.+..+...|+.+||++|.|+++++..+.+.
T Consensus       111 l~~~~~~~v~~~----------------------~~---~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         111 ISESNPRVIDDA----------------------RA---RQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             hhhcCCcccCHH----------------------HH---HHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            7421 1011100                      00   111123334689999999999999999988753

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.70  E-value=1.3e-07  Score=87.67  Aligned_cols=52  Identities=17%  Similarity=0.273  Sum_probs=39.8

Q ss_pred             cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHH
Q 023298          180 LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQ  259 (284)
Q Consensus       180 ~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~  259 (284)
                      .-+|.+.|+||+|+.+.+ ++....                              +   ..+.+|+||..+.|+++|.+.
T Consensus       238 vY~p~l~v~NKiD~~~~e-~~~~l~------------------------------~---~~~~v~isa~~~~nld~L~e~  283 (365)
T COG1163         238 VYKPALYVVNKIDLPGLE-ELERLA------------------------------R---KPNSVPISAKKGINLDELKER  283 (365)
T ss_pred             eeeeeEEEEecccccCHH-HHHHHH------------------------------h---ccceEEEecccCCCHHHHHHH
Confidence            358999999999987643 333222                              1   128899999999999999999


Q ss_pred             HHHhcC
Q 023298          260 IDNCIQ  265 (284)
Q Consensus       260 I~~~l~  265 (284)
                      |-+.+.
T Consensus       284 i~~~L~  289 (365)
T COG1163         284 IWDVLG  289 (365)
T ss_pred             HHHhhC
Confidence            998875

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=98.69  E-value=3.9e-08  Score=79.09  Aligned_cols=35  Identities=14%  Similarity=0.178  Sum_probs=34.0

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +++.|.| +||||++.+++.++++.|++|++||.||
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~   37 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP   37 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc
Confidence            7899999 9999999999999999999999999999

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=98.69  E-value=4.7e-07  Score=79.30  Aligned_cols=74  Identities=22%  Similarity=0.354  Sum_probs=43.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH-HH--HHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL-SA--MVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l-~~--~~~~~~p~IlVlNK  190 (284)
                      +..+.++||||+...      ...+...+...  ...++|++|+....+.-.....++..+ ..  ....+.|+++|.||
T Consensus        47 ~~~~~l~D~pG~~~~------~~~~~~~~~~~--~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK  118 (203)
T cd04105          47 GKKFRLVDVPGHPKL------RDKLLETLKNS--AKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNK  118 (203)
T ss_pred             CceEEEEECCCCHHH------HHHHHHHHhcc--CCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecc
Confidence            456899999997642      12233334331  257999999976521111122332221 11  12247999999999


Q ss_pred             Ccccc
Q 023298          191 MDLVT  195 (284)
Q Consensus       191 ~Dll~  195 (284)
                      +|+..
T Consensus       119 ~Dl~~  123 (203)
T cd04105         119 QDLFT  123 (203)
T ss_pred             hhhcc
Confidence            99865

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.69  E-value=7.6e-07  Score=76.47  Aligned_cols=169  Identities=19%  Similarity=0.185  Sum_probs=100.0

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhh
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLE   98 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~   98 (284)
                      ..|+|+||= +||||+..++++      +....++.|-......-     -|....      -.++|++           
T Consensus        11 ~KIvv~G~~~agKtTfv~~~s~------k~~v~t~~~~~~~s~k~-----kr~tTv------a~D~g~~-----------   62 (187)
T COG2229          11 TKIVVIGPVGAGKTTFVRALSD------KPLVITEADASSVSGKG-----KRPTTV------AMDFGSI-----------   62 (187)
T ss_pred             eeEEEEcccccchhhHHHHhhc------cccceeecccccccccc-----ccceeE------eecccce-----------
Confidence            348999999 999999999998      45555555533322111     111100      0122221           


Q ss_pred             hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHH
Q 023298           99 DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAM  177 (284)
Q Consensus        99 ~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~  177 (284)
                                 +-+.+...=++|||||..       .+.|..-+.+ + +.-+++++|++...+ ....+-..+.     
T Consensus        63 -----------~~~~~~~v~LfgtPGq~R-------F~fm~~~l~~-g-a~gaivlVDss~~~~~~a~~ii~f~~-----  117 (187)
T COG2229          63 -----------ELDEDTGVHLFGTPGQER-------FKFMWEILSR-G-AVGAIVLVDSSRPITFHAEEIIDFLT-----  117 (187)
T ss_pred             -----------EEcCcceEEEecCCCcHH-------HHHHHHHHhC-C-cceEEEEEecCCCcchHHHHHHHHHh-----
Confidence                       111135678999999865       2334444422 2 356788999975522 2232333322     


Q ss_pred             HhcC-CCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccHHH
Q 023298          178 VQLE-LPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSIRY  255 (284)
Q Consensus       178 ~~~~-~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~  255 (284)
                       ..+ .|.++++||.|+.... .-+++                           .++++.. --+.+++.+|.++++..+
T Consensus       118 -~~~~ip~vVa~NK~DL~~a~-ppe~i---------------------------~e~l~~~~~~~~vi~~~a~e~~~~~~  168 (187)
T COG2229         118 -SRNPIPVVVAINKQDLFDAL-PPEKI---------------------------REALKLELLSVPVIEIDATEGEGARD  168 (187)
T ss_pred             -hccCCCEEEEeeccccCCCC-CHHHH---------------------------HHHHHhccCCCceeeeecccchhHHH
Confidence             233 8999999999996532 11111                           1222322 247899999999999999


Q ss_pred             HHHHHHHhcCCCCCC
Q 023298          256 VLSQIDNCIQWGEDA  270 (284)
Q Consensus       256 Ll~~I~~~l~~g~d~  270 (284)
                      .+..+.....++...
T Consensus       169 ~L~~ll~~~~~~~~~  183 (187)
T COG2229         169 QLDVLLLKDLLGSAN  183 (187)
T ss_pred             HHHHHHhhcccCccc
Confidence            999998885555443

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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=98.69  E-value=1.2e-07  Score=81.95  Aligned_cols=72  Identities=21%  Similarity=0.351  Sum_probs=40.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH---HHhcCCCeEEEEEecCCCCC----CHHHHHHHHHHHHHHHHhcCCCEEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH---LKSRNFNVCAVYLLDSQFIT----DVTKFISGCMASLSAMVQLELPHVN  186 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~---l~~~d~~~vil~LiDa~~~~----~~~~~i~~~l~~l~~~~~~~~p~Il  186 (284)
                      ...+-+||+||+-..  +    .++.+.   +..   .-.|||+||+....    +..+++..+|..... .+.+.|+++
T Consensus        48 ~~~~~lvD~PGH~rl--r----~~~~~~~~~~~~---~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~-~~~~~piLI  117 (181)
T PF09439_consen   48 GKKLRLVDIPGHPRL--R----SKLLDELKYLSN---AKGIIFVVDSSTDQKELRDVAEYLYDILSDTEV-QKNKPPILI  117 (181)
T ss_dssp             GTCECEEEETT-HCC--C----HHHHHHHHHHGG---EEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHC-CTT--EEEE
T ss_pred             CCEEEEEECCCcHHH--H----HHHHHhhhchhh---CCEEEEEEeCccchhhHHHHHHHHHHHHHhhhh-ccCCCCEEE
Confidence            457899999997552  1    234444   323   35799999997432    223333333322111 235789999


Q ss_pred             EecCCcccc
Q 023298          187 ILSKMDLVT  195 (284)
Q Consensus       187 VlNK~Dll~  195 (284)
                      +.||.|+..
T Consensus       118 acNK~Dl~~  126 (181)
T PF09439_consen  118 ACNKQDLFT  126 (181)
T ss_dssp             EEE-TTSTT
T ss_pred             EEeCccccc
Confidence            999999975

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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.67  E-value=2.1e-07  Score=91.38  Aligned_cols=114  Identities=18%  Similarity=0.282  Sum_probs=69.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHH--HHHHHHHHHHHHHHhcCC-CEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVT--KFISGCMASLSAMVQLEL-PHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~--~~i~~~l~~l~~~~~~~~-p~IlVlN  189 (284)
                      .+++.||||||+.      ...+.|...+.   ..+.++++||+... -.+.  +.+.       ....++. |.|+|+|
T Consensus       116 ~~~i~~IDtPGH~------~fi~~m~~g~~---~~D~alLVVda~~g~~~~qT~ehl~-------i~~~lgi~~iIVvlN  179 (460)
T PTZ00327        116 KRHVSFVDCPGHD------ILMATMLNGAA---VMDAALLLIAANESCPQPQTSEHLA-------AVEIMKLKHIIILQN  179 (460)
T ss_pred             cceEeeeeCCCHH------HHHHHHHHHHh---hCCEEEEEEECCCCccchhhHHHHH-------HHHHcCCCcEEEEEe
Confidence            3578999999942      22333333333   34678999999753 2221  2211       1123444 5789999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc--cCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE--YSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~--~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+|+...+ .+++.++        +               +.+++..  .....++|+||.+|+|++.|++.|++.+|.-
T Consensus       180 KiDlv~~~-~~~~~~~--------e---------------i~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp~~  235 (460)
T PTZ00327        180 KIDLVKEA-QAQDQYE--------E---------------IRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIPIP  235 (460)
T ss_pred             cccccCHH-HHHHHHH--------H---------------HHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCCCC
Confidence            99997543 3332221        1               1111211  2346899999999999999999999877653

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.66  E-value=5.8e-07  Score=92.50  Aligned_cols=153  Identities=16%  Similarity=0.130  Sum_probs=83.1

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHH-hcC-CceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhh
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCE-TVR-RTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIY   92 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~-~~g-~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~   92 (284)
                      +.++.++.++||. |||||++..|+.++. ..| ++|.+|+.|++.-..       +..+-.+.+   .+++ |.- .+.
T Consensus       182 ~~~g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA-------~eQL~~~a~---~~gv-pv~-~~~  249 (767)
T PRK14723        182 LAQGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGA-------LEQLRIYGR---ILGV-PVH-AVK  249 (767)
T ss_pred             cCCCeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHH-------HHHHHHHHH---hCCC-Ccc-ccC
Confidence            3456789999999 999999999999885 566 599999999765211       011111111   1121 210 000


Q ss_pred             hhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHH
Q 023298           93 CMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMA  172 (284)
Q Consensus        93 ~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~  172 (284)
                             +- +-+.+.+++..++++|||||||...  ........ +..+.......-+++++|+...  ... +..+..
T Consensus       250 -------~~-~~l~~al~~~~~~D~VLIDTAGRs~--~d~~l~ee-l~~l~~~~~p~e~~LVLsAt~~--~~~-l~~i~~  315 (767)
T PRK14723        250 -------DA-ADLRFALAALGDKHLVLIDTVGMSQ--RDRNVSEQ-IAMLCGVGRPVRRLLLLNAASH--GDT-LNEVVH  315 (767)
T ss_pred             -------CH-HHHHHHHHHhcCCCEEEEeCCCCCc--cCHHHHHH-HHHHhccCCCCeEEEEECCCCc--HHH-HHHHHH
Confidence                   11 1233445444467999999999765  22222222 2222222224457788888632  222 222211


Q ss_pred             HHHHHHhc-C-CCEEEEecCCccccch
Q 023298          173 SLSAMVQL-E-LPHVNILSKMDLVTNK  197 (284)
Q Consensus       173 ~l~~~~~~-~-~p~IlVlNK~Dll~~~  197 (284)
                         .+... . -+.=+|++|.|-..+-
T Consensus       316 ---~f~~~~~~~i~glIlTKLDEt~~~  339 (767)
T PRK14723        316 ---AYRHGAGEDVDGCIITKLDEATHL  339 (767)
T ss_pred             ---HHhhcccCCCCEEEEeccCCCCCc
Confidence               11111 0 2456889999976543

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=98.65  E-value=7.8e-08  Score=89.70  Aligned_cols=41  Identities=17%  Similarity=0.122  Sum_probs=37.4

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++.+++.|.| |||||.+..+|.+++++|+||++|..||+.+
T Consensus         1 ~r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~~   42 (305)
T PF02374_consen    1 MRILFFGGKGGVGKTTVAAALALALARRGKRTLLVSTDPAHS   42 (305)
T ss_dssp             -SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTTH
T ss_pred             CeEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCcc
Confidence            3579999999 9999999999999999999999999999987

...

>PRK13886 conjugal transfer protein TraL; Provisional

Probab=98.65  E-value=4.1e-07  Score=82.04  Aligned_cols=146  Identities=16%  Similarity=0.201  Sum_probs=76.9

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC-CCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF-DYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~-~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .++-|.| |||||.+.+||.+++..|++|++||.|||...+ .|. ..+.+.+    ++|+...+            -..
T Consensus         6 ~i~~~KGGvGKSt~a~~la~~l~~~g~~vl~iD~D~~n~~~~~~~-~l~~~~~----~i~~~~~i------------~~r   68 (241)
T PRK13886          6 MVLQGKGGVGKSFIAATIAQYKASKGQKPLCIDTDPVNATFEGYK-ALNVRRL----NIMDGDEI------------NTR   68 (241)
T ss_pred             EEecCCCCCcHHHHHHHHHHHHHhCCCCEEEEECCCCCchhhhHH-hcCCcce----ecccCCcc------------chh
Confidence            4444778 999999999999999999999999999998743 221 0111110    11110000            011


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCccc-ccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIEL-FTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV  178 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~-~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~  178 (284)
                      .+++ +.+.+... +.+ +|||+++..-. +...-..+.+...+.+.+...++.+++....- . .+.+..+...+..+.
T Consensus        69 ~fD~-Lve~i~~~-~~d-vIIDngAs~~~~l~~yl~~n~l~~ll~e~g~~lvvh~vi~gg~~-~-~dtl~~~~~l~~~~~  143 (241)
T PRK13886         69 NFDA-LVEMIAST-EGD-VIIDNGASSFVPLSHYLISNQVPALLQDMGHELVVHTVVTGGQA-L-LDTVSGFAQLASQFP  143 (241)
T ss_pred             hHHH-HHHHHhcc-CCC-EEEECCCcchHHHHHHHHhCcHHHHHHHCCceEEEEEEECCCcc-c-HHHHHHHHHHHHHcC
Confidence            2212 22233221 334 78899874321 11111122334555666766666667765422 1 122322222222222


Q ss_pred             hcCCCEEEEecC
Q 023298          179 QLELPHVNILSK  190 (284)
Q Consensus       179 ~~~~p~IlVlNK  190 (284)
                       .+.++|+++|-
T Consensus       144 -~~~~~Vvw~N~  154 (241)
T PRK13886        144 -AECLFVVWLNP  154 (241)
T ss_pred             -CCceEEEEecC
Confidence             25899999993

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.63  E-value=1.8e-07  Score=78.97  Aligned_cols=151  Identities=19%  Similarity=0.239  Sum_probs=76.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhh-h-Hhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYC-M-EHL   97 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~-~-e~~   97 (284)
                      .++++|+. |||||+..++....  .|.++.++--|-+.......   .++..  -.++   ..+ .|| =+.| + +.+
T Consensus         2 ~~~l~G~~GsGKTtl~~~l~~~~--~~~~~~~i~~~~G~~~~d~~---~~~~~--~~~v---~~l-~~G-CiCC~~~~~l   69 (158)
T cd03112           2 VTVLTGFLGAGKTTLLNHILTEQ--HGRKIAVIENEFGEVGIDNQ---LVVDT--DEEI---IEM-NNG-CICCTVRGDL   69 (158)
T ss_pred             EEEEEECCCCCHHHHHHHHHhcc--cCCcEEEEecCCCccchhHH---HHhCC--CceE---EEe-CCC-EeEeeCchhH
Confidence            37899999 99999999988753  47788887766554332110   01000  0000   111 232 2222 1 123


Q ss_pred             hhcHHHHHHHHhh-ccCCCCEEEEeCCCCcccccccchHHHH-HH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELD-NYLDDDYLVFDCPGQIELFTHVPVLRNF-VD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        98 ~~~~~~~l~~~l~-~~~~~~~viiDtPg~~e~~~~~~~~~~l-~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                      ...+.+.+.+.+. .. +.++|+|||||.++..   ...+.+ .+ .+.+.-..+.+++++|+..+...-... ..   +
T Consensus        70 ~~~l~~l~~~~~~~~~-~~d~I~IEt~G~~~p~---~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~-~~---~  141 (158)
T cd03112          70 IRALLDLLERLDAGKI-AFDRIVIETTGLADPG---PVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQ-TE---A  141 (158)
T ss_pred             HHHHHHHHHHHHhccC-CCCEEEEECCCcCCHH---HHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhcc-HH---H
Confidence            3333222222222 22 6799999999987632   122222 11 222222235789999987553211111 11   1


Q ss_pred             HHHHhcCCCEEEEecCCcc
Q 023298          175 SAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..  +..---++|+||+|+
T Consensus       142 ~~--Qi~~ad~ivlnk~dl  158 (158)
T cd03112         142 QS--QIAFADRILLNKTDL  158 (158)
T ss_pred             HH--HHHHCCEEEEecccC
Confidence            11  222345779999995

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=98.63  E-value=2.8e-07  Score=89.43  Aligned_cols=167  Identities=14%  Similarity=0.144  Sum_probs=101.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      +--+.|+|+| |||||+...|++      ..+.+|-==|+.+          ||.+..       .+-            
T Consensus       268 gl~iaIvGrPNvGKSSLlNaL~~------~drsIVSpv~GTT----------RDaiea-------~v~------------  312 (531)
T KOG1191|consen  268 GLQIAIVGRPNVGKSSLLNALSR------EDRSIVSPVPGTT----------RDAIEA-------QVT------------  312 (531)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhc------CCceEeCCCCCcc----------hhhhee-------Eee------------
Confidence            3448999999 999999999987      4555554333322          221100       000            


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASL  174 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l  174 (284)
                                 +.   +..+.++||.|+-|  ......+++  .++-+++..++++++++|+... .+.+.-++..+...
T Consensus       313 -----------~~---G~~v~L~DTAGiRe--~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~  376 (531)
T KOG1191|consen  313 -----------VN---GVPVRLSDTAGIRE--ESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKIARILETE  376 (531)
T ss_pred             -----------cC---CeEEEEEecccccc--ccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHh
Confidence                       11   55889999999887  333333333  3333344446899999999533 33333355555554


Q ss_pred             HHHHhcC------CCEEEEecCCccccchhhhhh----hcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEE-
Q 023298          175 SAMVQLE------LPHVNILSKMDLVTNKKEIED----YLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFM-  243 (284)
Q Consensus       175 ~~~~~~~------~p~IlVlNK~Dll~~~~~l~~----~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~i-  243 (284)
                      .......      .|.|+|.||+|++.+-.++..    +.+                           . +-.+-..++ 
T Consensus       377 ~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~---------------------------~-~~~~~~~i~~  428 (531)
T KOG1191|consen  377 GVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPS---------------------------A-EGRSVFPIVV  428 (531)
T ss_pred             ccceEEEeccccccceEEEechhhccCccccccCCceeccc---------------------------c-ccCcccceEE
Confidence            4444433      899999999999875212222    110                           0 112223444 


Q ss_pred             EEeccCcccHHHHHHHHHHhc
Q 023298          244 PLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       244 piSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .+|+++++|++.|...+.+.+
T Consensus       429 ~vs~~tkeg~~~L~~all~~~  449 (531)
T KOG1191|consen  429 EVSCTTKEGCERLSTALLNIV  449 (531)
T ss_pred             EeeechhhhHHHHHHHHHHHH
Confidence            499999999999999887764

>smart00053 DYNc Dynamin, GTPase

Probab=98.62  E-value=6.6e-07  Score=80.78  Aligned_cols=78  Identities=10%  Similarity=0.144  Sum_probs=45.0

Q ss_pred             CCCEEEEeCCCCccccccc--chHHHHHHH-HH-hc-CCCeEEEEEecCCCC-CCHHH-HHHHHHHHHHHHHhcCCCEEE
Q 023298          114 DDDYLVFDCPGQIELFTHV--PVLRNFVDH-LK-SR-NFNVCAVYLLDSQFI-TDVTK-FISGCMASLSAMVQLELPHVN  186 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~--~~~~~l~~~-l~-~~-d~~~vil~LiDa~~~-~~~~~-~i~~~l~~l~~~~~~~~p~Il  186 (284)
                      ..++.+|||||........  ......++. .. .+ +.+.++++++|+..- ...+. -+.      ..+...+.|++.
T Consensus       124 ~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia------~~ld~~~~rti~  197 (240)
T smart00053      124 VLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLA------KEVDPQGERTIG  197 (240)
T ss_pred             CCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHH------HHHHHcCCcEEE
Confidence            3689999999986421111  111112222 11 11 234589999998643 22221 122      233457899999


Q ss_pred             EecCCccccch
Q 023298          187 ILSKMDLVTNK  197 (284)
Q Consensus       187 VlNK~Dll~~~  197 (284)
                      |+||+|.+++.
T Consensus       198 ViTK~D~~~~~  208 (240)
T smart00053      198 VITKLDLMDEG  208 (240)
T ss_pred             EEECCCCCCcc
Confidence            99999998654

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=98.60  E-value=5.3e-07  Score=80.39  Aligned_cols=125  Identities=11%  Similarity=0.054  Sum_probs=67.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.|.||+|+.+..       .+....  ....+++++++|.....+-......+...+ ....-+.|+|+|.||+|+.
T Consensus        49 v~L~iwDt~G~e~~~-------~l~~~~--~~~~d~illvfdis~~~Sf~~i~~~w~~~~-~~~~~~~piiLVgnK~DL~  118 (222)
T cd04173          49 IELNMWDTSGSSYYD-------NVRPLA--YPDSDAVLICFDISRPETLDSVLKKWQGET-QEFCPNAKVVLVGCKLDMR  118 (222)
T ss_pred             EEEEEEeCCCcHHHH-------HHhHHh--ccCCCEEEEEEECCCHHHHHHHHHHHHHHH-HhhCCCCCEEEEEECcccc
Confidence            357889999985421       121111  122468999999863322222122232211 1122468999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCccc-HHHHHHHHHHh
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESS-IRYVLSQIDNC  263 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~-l~~Ll~~I~~~  263 (284)
                      .....+....+....    -+.          ...-.++.++.+...++..||+++++ +++++.....+
T Consensus       119 ~~~~~~~~~~~~~~~----pIs----------~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~  174 (222)
T cd04173         119 TDLATLRELSKQRLI----PVT----------HEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVA  174 (222)
T ss_pred             cchhhhhhhhhccCC----ccC----------HHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHH
Confidence            432111111000000    000          00112333556667899999999885 99999877764

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=98.59  E-value=3e-07  Score=86.28  Aligned_cols=42  Identities=14%  Similarity=0.092  Sum_probs=39.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      .+++++.|.| |||||++.++|.++++.|++|++|-.||+.+.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvStDPAhsL   44 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVSTDPAHSL   44 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEEeCCCCch
Confidence            4679999999 99999999999999999999999999999983

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.59  E-value=1.9e-07  Score=75.68  Aligned_cols=104  Identities=13%  Similarity=0.188  Sum_probs=62.7

Q ss_pred             EEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccch
Q 023298          118 LVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       118 viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      -.|||||  |.+.|...-..++..++.+   ++++++--+.   ++...+...+..     -..+|+|-|++|+|+.++.
T Consensus        40 ~~IDTPG--Ey~~~~~~Y~aL~tt~~da---dvi~~v~~an---d~~s~f~p~f~~-----~~~k~vIgvVTK~DLaed~  106 (148)
T COG4917          40 GDIDTPG--EYFEHPRWYHALITTLQDA---DVIIYVHAAN---DPESRFPPGFLD-----IGVKKVIGVVTKADLAEDA  106 (148)
T ss_pred             cccCCch--hhhhhhHHHHHHHHHhhcc---ceeeeeeccc---CccccCCccccc-----ccccceEEEEecccccchH
Confidence            4679999  4445555444454444432   4555544332   221111111110     2357899999999997544


Q ss_pred             hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          198 KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       198 ~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                       ++...                           .+.+.+-|-..++.+|+.+..|+++|++.+..
T Consensus       107 -dI~~~---------------------------~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917         107 -DISLV---------------------------KRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             -hHHHH---------------------------HHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence             33221                           23345566678999999999999999987754

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=98.58  E-value=3.3e-06  Score=75.31  Aligned_cols=66  Identities=15%  Similarity=0.196  Sum_probs=42.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.++||||+.+.      .......+..   .+.+++++|+.....+. ..+.      ......++|.|+|+||+|
T Consensus        72 ~~~i~iiDTPG~~~f------~~~~~~~l~~---aD~~ilVvD~~~g~~~~t~~~l------~~~~~~~~p~ilviNKiD  136 (222)
T cd01885          72 EYLINLIDSPGHVDF------SSEVTAALRL---CDGALVVVDAVEGVCVQTETVL------RQALKERVKPVLVINKID  136 (222)
T ss_pred             ceEEEEECCCCcccc------HHHHHHHHHh---cCeeEEEEECCCCCCHHHHHHH------HHHHHcCCCEEEEEECCC
Confidence            457889999998752      2223344543   36788899997543332 2221      122345789999999999


Q ss_pred             cc
Q 023298          193 LV  194 (284)
Q Consensus       193 ll  194 (284)
                      +.
T Consensus       137 ~~  138 (222)
T cd01885         137 RL  138 (222)
T ss_pred             cc
Confidence            86

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=98.58  E-value=1.7e-07  Score=77.73  Aligned_cols=41  Identities=15%  Similarity=0.230  Sum_probs=33.5

Q ss_pred             eEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           20 VIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        20 ~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +.+.|+||.  +||||++.+||..+++.|++|++||+|+....
T Consensus         1 k~i~v~s~~~g~G~t~~a~~lA~~la~~~~~Vllid~~~~~~~   43 (157)
T PF13614_consen    1 KVIAVWSPKGGVGKTTLALNLAAALARKGKKVLLIDFDFFSPS   43 (157)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTT-EEEEE--SSS-H
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHhcCCCeEEEECCCCCCC
Confidence            357899974  99999999999999999999999999998873

>PTZ00099 rab6; Provisional

Probab=98.55  E-value=7.8e-07  Score=76.30  Aligned_cols=117  Identities=11%  Similarity=0.127  Sum_probs=70.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..++.|.||||+.....       +.. .+..   ++++++++|.....+-.. +..++..+......+.|+++|.||+|
T Consensus        28 ~v~l~iwDt~G~e~~~~-------~~~~~~~~---ad~~ilv~D~t~~~sf~~-~~~w~~~i~~~~~~~~piilVgNK~D   96 (176)
T PTZ00099         28 PVRLQLWDTAGQERFRS-------LIPSYIRD---SAAAIVVYDITNRQSFEN-TTKWIQDILNERGKDVIIALVGNKTD   96 (176)
T ss_pred             EEEEEEEECCChHHhhh-------ccHHHhCC---CcEEEEEEECCCHHHHHH-HHHHHHHHHHhcCCCCeEEEEEECcc
Confidence            35789999999865221       212 2322   468999999864321111 22333322222224678899999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      +...+ .+..-      .                   .......++ ..++++||++|.|+.++++.|.+.+++-+
T Consensus        97 L~~~~-~v~~~------e-------------------~~~~~~~~~-~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099         97 LGDLR-KVTYE------E-------------------GMQKAQEYN-TMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             ccccc-CCCHH------H-------------------HHHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            85422 11100      0                   011123343 36899999999999999999999987744

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=98.55  E-value=2.5e-06  Score=74.82  Aligned_cols=116  Identities=11%  Similarity=0.155  Sum_probs=67.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.+.||||+...       ..+....-. + .+++++++|.....+.. .+..++..+... .-+.|+++|.||+|+.
T Consensus        58 i~i~~~Dt~g~~~~-------~~~~~~~~~-~-~~~~i~v~d~~~~~s~~-~~~~~~~~i~~~-~~~~~i~lv~nK~Dl~  126 (215)
T PTZ00132         58 ICFNVWDTAGQEKF-------GGLRDGYYI-K-GQCAIIMFDVTSRITYK-NVPNWHRDIVRV-CENIPIVLVGNKVDVK  126 (215)
T ss_pred             EEEEEEECCCchhh-------hhhhHHHhc-c-CCEEEEEEECcCHHHHH-HHHHHHHHHHHh-CCCCCEEEEEECccCc
Confidence            36788999997431       112122211 1 35678888875322111 122333322222 2368999999999985


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDA  270 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~  270 (284)
                      ... ...+.                           .++....+ ..++++||++|.|++..+..|.+.+-..++.
T Consensus       127 ~~~-~~~~~---------------------------~~~~~~~~-~~~~e~Sa~~~~~v~~~f~~ia~~l~~~p~~  173 (215)
T PTZ00132        127 DRQ-VKARQ---------------------------ITFHRKKN-LQYYDISAKSNYNFEKPFLWLARRLTNDPNL  173 (215)
T ss_pred             ccc-CCHHH---------------------------HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHhhcccc
Confidence            322 10000                           01112233 5789999999999999999998888766654

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.54  E-value=1.5e-06  Score=87.80  Aligned_cols=128  Identities=19%  Similarity=0.246  Sum_probs=71.8

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      -+.+||||| +|.|+.      +..+  ....+++++++||......|...=     ++..+...+.|+|++|||+|.+.
T Consensus       541 g~lvIdtpg-hEsFtn------lRsr--gsslC~~aIlvvdImhGlepqtiE-----Si~lLR~rktpFivALNKiDRLY  606 (1064)
T KOG1144|consen  541 GLLVIDTPG-HESFTN------LRSR--GSSLCDLAILVVDIMHGLEPQTIE-----SINLLRMRKTPFIVALNKIDRLY  606 (1064)
T ss_pred             eeEEecCCC-chhhhh------hhhc--cccccceEEEEeehhccCCcchhH-----HHHHHHhcCCCeEEeehhhhhhc
Confidence            578999999 554432      1111  123356788899998776665531     23344567899999999999863


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHH----HHHHHHHHHHh-------------ccCCceEEEEeccCcccHHHHHH
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFA----KLNKSLIELVD-------------EYSMVSFMPLDLRKESSIRYVLS  258 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~----~l~~~i~~~l~-------------~~~~~~~ipiSa~~~~~l~~Ll~  258 (284)
                            .|..+....+.+.+.........    +|+.-+.++-+             .-.++.++|-||..|+|+.+|+.
T Consensus       607 ------gwk~~p~~~i~~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~  680 (1064)
T KOG1144|consen  607 ------GWKSCPNAPIVEALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLL  680 (1064)
T ss_pred             ------ccccCCCchHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHH
Confidence                  11111111111111111111111    11111111111             11357899999999999999998


Q ss_pred             HHHHh
Q 023298          259 QIDNC  263 (284)
Q Consensus       259 ~I~~~  263 (284)
                      .|...
T Consensus       681 llv~l  685 (1064)
T KOG1144|consen  681 LLVQL  685 (1064)
T ss_pred             HHHHH
Confidence            87654

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.54  E-value=4.4e-07  Score=88.90  Aligned_cols=111  Identities=17%  Similarity=0.218  Sum_probs=72.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHH--hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLK--SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~--~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.|+||||+.. |+          .|.  ..+..++++++|++...-.|...     -++.-....+.|+|+++||+|
T Consensus        55 ~~itFiDTPGHeA-Ft----------~mRaRGa~vtDIaILVVa~dDGv~pQTi-----EAI~hak~a~vP~iVAiNKiD  118 (509)
T COG0532          55 PGITFIDTPGHEA-FT----------AMRARGASVTDIAILVVAADDGVMPQTI-----EAINHAKAAGVPIVVAINKID  118 (509)
T ss_pred             ceEEEEcCCcHHH-HH----------HHHhcCCccccEEEEEEEccCCcchhHH-----HHHHHHHHCCCCEEEEEeccc
Confidence            4789999999543 22          133  24667899999999866555553     123344578999999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      ....+  .....        .++.+..            -.-+.|+ -..|+|+||++|+|+++|+..|.-.
T Consensus       119 k~~~n--p~~v~--------~el~~~g------------l~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~  168 (509)
T COG0532         119 KPEAN--PDKVK--------QELQEYG------------LVPEEWGGDVIFVPVSAKTGEGIDELLELILLL  168 (509)
T ss_pred             CCCCC--HHHHH--------HHHHHcC------------CCHhhcCCceEEEEeeccCCCCHHHHHHHHHHH
Confidence            87432  11111        1111100            0013343 3789999999999999999988644

>cd01873 RhoBTB RhoBTB subfamily

Probab=98.51  E-value=1.5e-06  Score=75.66  Aligned_cols=127  Identities=9%  Similarity=0.088  Sum_probs=65.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHH-HHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFIS-GCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~-~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ...+.+.||+|+.+...          .+ .....++++++.|.....+-.. +. .++..+.... .+.|.|+|.||+|
T Consensus        65 ~v~l~iwDTaG~~~~~~----------~~-~~~~ad~iilv~d~t~~~Sf~~-~~~~w~~~i~~~~-~~~piilvgNK~D  131 (195)
T cd01873          65 SVSLRLWDTFGDHDKDR----------RF-AYGRSDVVLLCFSIASPNSLRN-VKTMWYPEIRHFC-PRVPVILVGCKLD  131 (195)
T ss_pred             EEEEEEEeCCCChhhhh----------cc-cCCCCCEEEEEEECCChhHHHH-HHHHHHHHHHHhC-CCCCEEEEEEchh
Confidence            34678999999864111          11 1112467888898753322111 22 2333222221 3689999999999


Q ss_pred             cccchh-hhhhhcCcchHHHHHHhhhcchhHHHHH-HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKL-NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l-~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +..... .......    .+......     .+.. .....++...++. .++..||++|.|++++++.+.+.
T Consensus       132 L~~~~~~~~~~~~~----~~~~~~~~-----~~~V~~~e~~~~a~~~~~-~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         132 LRYADLDEVNRARR----PLARPIKN-----ADILPPETGRAVAKELGI-PYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             ccccccchhhhccc----cccccccc-----CCccCHHHHHHHHHHhCC-EEEEcCCCCCCCHHHHHHHHHHh
Confidence            853210 0000000    00000000     0000 0001122244554 89999999999999999988753

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.47  E-value=2.2e-06  Score=84.45  Aligned_cols=43  Identities=14%  Similarity=0.177  Sum_probs=36.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHH-hcC-CceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCE-TVR-RTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~-~~g-~~v~iVdLDPq~   58 (284)
                      ..++.++.++||. |||||++..|+.++. +.| ++|.+|+.|++.
T Consensus       253 ~~~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~R  298 (484)
T PRK06995        253 LDRGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYR  298 (484)
T ss_pred             ccCCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccc
Confidence            4566789999999 999999999999985 455 589999999964

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.47  E-value=8e-07  Score=84.22  Aligned_cols=127  Identities=13%  Similarity=0.154  Sum_probs=75.6

Q ss_pred             cccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCccc-Cc
Q 023298           11 GYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGP-NG   88 (284)
Q Consensus        11 ~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgP-ng   88 (284)
                      .|.--..+|..|+++|-- |||||+|.-||.|+.++|++|.+|=.|.=...     ++|-=..     --.+.++ | .|
T Consensus        93 ~~~~~K~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRag-----AfDQLkq-----nA~k~~i-P~yg  161 (483)
T KOG0780|consen   93 ALQPKKGKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAG-----AFDQLKQ-----NATKARV-PFYG  161 (483)
T ss_pred             ccccccCCCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccc-----hHHHHHH-----HhHhhCC-eeEe
Confidence            344556789999999999 99999999999999999999999988853321     0110000     0000010 1 00


Q ss_pred             h--hhhhhHhhhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCC
Q 023298           89 G--LIYCMEHLEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQF  159 (284)
Q Consensus        89 ~--l~~~~e~~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~  159 (284)
                      +  -...+        .+..+.+++++  +.+.||+||.|.|.  ....+...|.+--++.. ++.++|++|++-
T Consensus       162 syte~dpv--------~ia~egv~~fKke~fdvIIvDTSGRh~--qe~sLfeEM~~v~~ai~-Pd~vi~VmDasi  225 (483)
T KOG0780|consen  162 SYTEADPV--------KIASEGVDRFKKENFDVIIVDTSGRHK--QEASLFEEMKQVSKAIK-PDEIIFVMDASI  225 (483)
T ss_pred             cccccchH--------HHHHHHHHHHHhcCCcEEEEeCCCchh--hhHHHHHHHHHHHhhcC-CCeEEEEEeccc
Confidence            0  00001        11122222222  67999999999776  33333444443333333 677999999963

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=98.46  E-value=8.3e-07  Score=77.79  Aligned_cols=111  Identities=14%  Similarity=0.198  Sum_probs=66.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+-|.||||+-..       ..+... +..   .+++++++|.....+... +..++..+.... -+.|+++|.||+|+
T Consensus        44 ~~l~iwDt~G~e~~-------~~l~~~~~~~---ad~~ilV~D~t~~~S~~~-i~~w~~~i~~~~-~~~piilvgNK~Dl  111 (200)
T smart00176       44 IRFNVWDTAGQEKF-------GGLRDGYYIQ---GQCAIIMFDVTARVTYKN-VPNWHRDLVRVC-ENIPIVLCGNKVDV  111 (200)
T ss_pred             EEEEEEECCCchhh-------hhhhHHHhcC---CCEEEEEEECCChHHHHH-HHHHHHHHHHhC-CCCCEEEEEECccc
Confidence            36789999998541       112222 323   357888899864322222 333433332222 46899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ..+.  ..   .   +.                    .++.... ...++.+||++|+|+.+++..+.+.+..
T Consensus       112 ~~~~--v~---~---~~--------------------~~~~~~~-~~~~~e~SAk~~~~v~~~F~~l~~~i~~  155 (200)
T smart00176      112 KDRK--VK---A---KS--------------------ITFHRKK-NLQYYDISAKSNYNFEKPFLWLARKLIG  155 (200)
T ss_pred             cccc--CC---H---HH--------------------HHHHHHc-CCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            4321  10   0   00                    0111122 3579999999999999999999876643

Ran is involved in the active transport of proteins through nuclear pores.

>cd01850 CDC_Septin CDC/Septin

Probab=98.46  E-value=1.2e-06  Score=80.57  Aligned_cols=44  Identities=11%  Similarity=0.216  Sum_probs=28.1

Q ss_pred             CeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccch
Q 023298          148 NVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       148 ~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      .++++|++++... ..+.+.  .++.   .+.. +.|+|+|+||+|++...
T Consensus       115 vh~~ly~i~~~~~~l~~~D~--~~lk---~l~~-~v~vi~VinK~D~l~~~  159 (276)
T cd01850         115 VHACLYFIEPTGHGLKPLDI--EFMK---RLSK-RVNIIPVIAKADTLTPE  159 (276)
T ss_pred             eEEEEEEEeCCCCCCCHHHH--HHHH---HHhc-cCCEEEEEECCCcCCHH
Confidence            4688999987642 333331  1112   2222 68999999999998644

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.43  E-value=2.5e-06  Score=88.34  Aligned_cols=67  Identities=13%  Similarity=0.160  Sum_probs=43.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.+|||||++..      ...+...+..   .+++++++|+... ......+...      ..+.+.|.|+++||+|
T Consensus        86 ~~~i~liDtPG~~df------~~~~~~~l~~---~D~avlVvda~~g~~~~t~~~~~~------~~~~~~~~iv~iNK~D  150 (731)
T PRK07560         86 EYLINLIDTPGHVDF------GGDVTRAMRA---VDGAIVVVDAVEGVMPQTETVLRQ------ALRERVKPVLFINKVD  150 (731)
T ss_pred             cEEEEEEcCCCccCh------HHHHHHHHHh---cCEEEEEEECCCCCCccHHHHHHH------HHHcCCCeEEEEECch
Confidence            457899999998762      2234444543   3678899998754 3223333221      2345789999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       151 ~~~  153 (731)
T PRK07560        151 RLI  153 (731)
T ss_pred             hhc
Confidence            864

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.42  E-value=4e-06  Score=77.17  Aligned_cols=174  Identities=20%  Similarity=0.296  Sum_probs=95.9

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      |-.||-= -|||||+.+++..|+..+.          +....|+   .|+..  .++  +.-|+.-|.+=   +      
T Consensus        15 igtiGHvdHGKTTLtaAit~~la~~~~----------~~~~~y~---~id~a--PeE--k~rGITIntah---v------   68 (394)
T COG0050          15 VGTIGHVDHGKTTLTAAITTVLAKKGG----------AEAKAYD---QIDNA--PEE--KARGITINTAH---V------   68 (394)
T ss_pred             EEEeccccCchhhHHHHHHHHHHhhcc----------ccccchh---hhccC--chH--hhcCceeccce---e------
Confidence            4467777 9999999999999998763          3334442   12111  000  11122111100   0      


Q ss_pred             HHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhc
Q 023298          101 LDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQL  180 (284)
Q Consensus       101 ~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~  180 (284)
                             ..+ ..+..|-.+||||+.      ...+.|+.-...+|...+++---|.....+ .+.+  +     ...+.
T Consensus        69 -------eye-t~~rhyahVDcPGHa------DYvKNMItgAaqmDgAILVVsA~dGpmPqT-rEHi--L-----larqv  126 (394)
T COG0050          69 -------EYE-TANRHYAHVDCPGHA------DYVKNMITGAAQMDGAILVVAATDGPMPQT-REHI--L-----LARQV  126 (394)
T ss_pred             -------EEe-cCCceEEeccCCChH------HHHHHHhhhHHhcCccEEEEEcCCCCCCcc-hhhh--h-----hhhhc
Confidence                   011 116689999999954      344555554434565555444444432222 2221  1     11367


Q ss_pred             CCCEEEE-ecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCc----eEEEEeccC------
Q 023298          181 ELPHVNI-LSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMV----SFMPLDLRK------  249 (284)
Q Consensus       181 ~~p~IlV-lNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~----~~ipiSa~~------  249 (284)
                      +.|.|+| +||+|+++++ ++.+..+.                      .+.+++.+|+|.    .++-=||+.      
T Consensus       127 Gvp~ivvflnK~Dmvdd~-ellelVem----------------------EvreLLs~y~f~gd~~Pii~gSal~ale~~~  183 (394)
T COG0050         127 GVPYIVVFLNKVDMVDDE-ELLELVEM----------------------EVRELLSEYGFPGDDTPIIRGSALKALEGDA  183 (394)
T ss_pred             CCcEEEEEEecccccCcH-HHHHHHHH----------------------HHHHHHHHcCCCCCCcceeechhhhhhcCCc
Confidence            8887666 8999999877 66655532                      224556677763    233333332      


Q ss_pred             --cccHHHHHHHHHHhcCC
Q 023298          250 --ESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       250 --~~~l~~Ll~~I~~~l~~  266 (284)
                        ...+.+|+++++++.|.
T Consensus       184 ~~~~~i~eLm~avd~yip~  202 (394)
T COG0050         184 KWEAKIEELMDAVDSYIPT  202 (394)
T ss_pred             chHHHHHHHHHHHHhcCCC
Confidence              23458888888888765

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=98.41  E-value=4.9e-06  Score=77.79  Aligned_cols=40  Identities=8%  Similarity=0.014  Sum_probs=37.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .+|+.++++|-- |||||+..-||.||.+.|++|++.-.|.
T Consensus       137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DT  177 (340)
T COG0552         137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDT  177 (340)
T ss_pred             CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecch
Confidence            469999999998 9999999999999999999999998875

>cd01858 NGP_1 NGP-1

Probab=98.41  E-value=1.1e-06  Score=73.42  Aligned_cols=87  Identities=13%  Similarity=0.124  Sum_probs=57.9

Q ss_pred             CCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHH
Q 023298          147 FNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAK  225 (284)
Q Consensus       147 ~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~  225 (284)
                      .++++++++|+... .+...++...+..    ...++|.|+|+||+|++.++ ++..++.                    
T Consensus         8 ~aD~il~VvD~~~p~~~~~~~i~~~l~~----~~~~~p~ilVlNKiDl~~~~-~~~~~~~--------------------   62 (157)
T cd01858           8 SSDVVIQVLDARDPMGTRCKHVEEYLKK----EKPHKHLIFVLNKCDLVPTW-VTARWVK--------------------   62 (157)
T ss_pred             hCCEEEEEEECCCCccccCHHHHHHHHh----ccCCCCEEEEEEchhcCCHH-HHHHHHH--------------------
Confidence            35789999999864 3334555444331    13358999999999997644 3333331                    


Q ss_pred             HHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          226 LNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       226 l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                            .+-+.+.+ .++|+||+++.|++.|++.+.+.+.
T Consensus        63 ------~~~~~~~~-~~~~iSa~~~~~~~~L~~~l~~~~~   95 (157)
T cd01858          63 ------ILSKEYPT-IAFHASINNPFGKGSLIQLLRQFSK   95 (157)
T ss_pred             ------HHhcCCcE-EEEEeeccccccHHHHHHHHHHHHh
Confidence                  11122322 3689999999999999999987653

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.39  E-value=7.3e-07  Score=83.65  Aligned_cols=100  Identities=20%  Similarity=0.360  Sum_probs=60.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCC----CCHHHHHHHHHHHHHHHHhcCCC-EEEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFI----TDVTKFISGCMASLSAMVQLELP-HVNI  187 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~----~~~~~~i~~~l~~l~~~~~~~~p-~IlV  187 (284)
                      +.+||+.||||+.+.-          +.+ ..+.-+++.+.|||+...    ++-+.||+++         ++.+ +|++
T Consensus        85 KRkFIiADTPGHeQYT----------RNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sL---------LGIrhvvvA  145 (431)
T COG2895          85 KRKFIIADTPGHEQYT----------RNMATGASTADLAILLVDARKGVLEQTRRHSFIASL---------LGIRHVVVA  145 (431)
T ss_pred             cceEEEecCCcHHHHh----------hhhhcccccccEEEEEEecchhhHHHhHHHHHHHHH---------hCCcEEEEE
Confidence            6789999999965422          223 222335688999999754    2345555543         3444 4677


Q ss_pred             ecCCcccc-chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHH
Q 023298          188 LSKMDLVT-NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRY  255 (284)
Q Consensus       188 lNK~Dll~-~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~  255 (284)
                      +||+||+. ++..++.+. .               .|.       .+..+.++  ..++|+||..|+|+-.
T Consensus       146 VNKmDLvdy~e~~F~~I~-~---------------dy~-------~fa~~L~~~~~~~IPiSAl~GDNV~~  193 (431)
T COG2895         146 VNKMDLVDYSEEVFEAIV-A---------------DYL-------AFAAQLGLKDVRFIPISALLGDNVVS  193 (431)
T ss_pred             EeeecccccCHHHHHHHH-H---------------HHH-------HHHHHcCCCcceEEechhccCCcccc
Confidence            99999986 331222222 1               121       22233333  5899999999999754

>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]

Probab=98.38  E-value=2.1e-06  Score=78.23  Aligned_cols=42  Identities=12%  Similarity=0.088  Sum_probs=36.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      +++.-|.| |||||++.|||..|+..|.+|-++|.|--+...|
T Consensus        50 I~VlSGKGGVGKSTvt~nla~~La~~g~~vglLD~Dl~GPSiP   92 (300)
T KOG3022|consen   50 ILVLSGKGGVGKSTVTVNLALALASEGKKVGLLDADLCGPSIP   92 (300)
T ss_pred             EEEEeCCCCCchhHHHHHHHHHHhcCCCcEEEEeecccCCCch
Confidence            44556888 9999999999999999999999999998887654

>TIGR00347 bioD dethiobiotin synthase

Probab=98.38  E-value=8.8e-06  Score=68.51  Aligned_cols=34  Identities=12%  Similarity=0.105  Sum_probs=28.6

Q ss_pred             EECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           24 VFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        24 viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      |.|.+  +||||++.+|+.+|+++|+||.++  +|.++
T Consensus         2 I~~t~~~~GKT~va~~L~~~l~~~g~~V~~~--kP~~~   37 (166)
T TIGR00347         2 VTGTDTGVGKTVASSALAAKLKKAGYSVGYY--KPVQT   37 (166)
T ss_pred             eecCCCCccHHHHHHHHHHHHHHCCCcEEEE--Eeeee
Confidence            55664  999999999999999999999995  55554

Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=98.35  E-value=5.4e-06  Score=72.17  Aligned_cols=181  Identities=14%  Similarity=0.092  Sum_probs=100.1

Q ss_pred             cCc-eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC---CCCC-ccccccccccHHHHhhhcCcccCchh
Q 023298           17 YAL-VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN---FDYP-VAMDIRELISLEDVMEELGLGPNGGL   90 (284)
Q Consensus        17 ~~~-~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~---~~~~-~~~dir~~i~~~~vm~~~~lgPng~l   90 (284)
                      .+| ..+-|.||+ |||||+.-.+.+.|... +++.+|--|-....   .-+. +...+....        .|-+-.  +
T Consensus        10 ~~~~~~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l~~~~g~~i~~v~--------TG~~CH--~   78 (202)
T COG0378          10 NRPMLRIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRLRKLPGEPIIGVE--------TGKGCH--L   78 (202)
T ss_pred             cCceEEEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHHHHHhCCCCeeEEec--------cCCccC--C
Confidence            455 778899999 99999999999999877 89999988877632   0011 111111110        010000  0


Q ss_pred             hhhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCC-CcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHH
Q 023298           91 IYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPG-QIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFIS  168 (284)
Q Consensus        91 ~~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg-~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~  168 (284)
                        -..+...++++ |.   ..+..-+++||-+-| ..-.++.         .|..    ..-++++|..... .|.+-  
T Consensus        79 --da~m~~~ai~~-l~---~~~~~~Dll~iEs~GNL~~~~sp---------~L~d----~~~v~VidvteGe~~P~K~--  137 (202)
T COG0378          79 --DASMNLEAIEE-LV---LDFPDLDLLFIESVGNLVCPFSP---------DLGD----HLRVVVIDVTEGEDIPRKG--  137 (202)
T ss_pred             --cHHHHHHHHHH-Hh---hcCCcCCEEEEecCcceecccCc---------chhh----ceEEEEEECCCCCCCcccC--
Confidence              01122233311 11   111124899999999 2221211         1211    2567788886542 23220  


Q ss_pred             HHHHHHHHHHhcCCCEEEEecCCccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEec
Q 023298          169 GCMASLSAMVQLELPHVNILSKMDLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDL  247 (284)
Q Consensus       169 ~~l~~l~~~~~~~~p~IlVlNK~Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa  247 (284)
                              .+-+-+.-++||||.|+.+.- .+++.+.        +                  .+.+--+-..|+..|.
T Consensus       138 --------gP~i~~aDllVInK~DLa~~v~~dlevm~--------~------------------da~~~np~~~ii~~n~  183 (202)
T COG0378         138 --------GPGIFKADLLVINKTDLAPYVGADLEVMA--------R------------------DAKEVNPEAPIIFTNL  183 (202)
T ss_pred             --------CCceeEeeEEEEehHHhHHHhCccHHHHH--------H------------------HHHHhCCCCCEEEEeC
Confidence                    011122558999999997511 1122221        1                  1111123478999999


Q ss_pred             cCcccHHHHHHHHHHh
Q 023298          248 RKESSIRYVLSQIDNC  263 (284)
Q Consensus       248 ~~~~~l~~Ll~~I~~~  263 (284)
                      ++|+|++.++..+...
T Consensus       184 ktg~G~~~~~~~i~~~  199 (202)
T COG0378         184 KTGEGLDEWLRFIEPQ  199 (202)
T ss_pred             CCCcCHHHHHHHHHhh
Confidence            9999999999888654

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=98.34  E-value=1e-05  Score=60.47  Aligned_cols=32  Identities=9%  Similarity=0.108  Sum_probs=30.2

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      +++.|.+ +||||++.+++.+|++.|++|+++|
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~   34 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID   34 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence            6788999 9999999999999999999999999

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.32  E-value=8.6e-06  Score=86.71  Aligned_cols=131  Identities=23%  Similarity=0.340  Sum_probs=69.7

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      .+.|+||||+.. |.      .+...  .....+++++++|+...-.+..+-     .+..+...++|+|+|+||+|+..
T Consensus       527 ~i~fiDTPGhe~-F~------~lr~~--g~~~aDivlLVVDa~~Gi~~qT~e-----~I~~lk~~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        527 GLLFIDTPGHEA-FT------SLRKR--GGSLADLAVLVVDINEGFKPQTIE-----AINILRQYKTPFVVAANKIDLIP  592 (1049)
T ss_pred             cEEEEECCCcHH-HH------HHHHh--hcccCCEEEEEEECcccCCHhHHH-----HHHHHHHcCCCEEEEEECCCCcc
Confidence            389999999532 21      11111  122357899999987543344331     11223456889999999999863


Q ss_pred             chhhh---hhhcC---cchHHHHHHhhhcchhHHHHHHHHHH---------HHHhcc-CCceEEEEeccCcccHHHHHHH
Q 023298          196 NKKEI---EDYLN---PESQFLLSELNQHMAPQFAKLNKSLI---------ELVDEY-SMVSFMPLDLRKESSIRYVLSQ  259 (284)
Q Consensus       196 ~~~~l---~~~l~---~~~~~l~~~l~~~~~~~~~~l~~~i~---------~~l~~~-~~~~~ipiSa~~~~~l~~Ll~~  259 (284)
                      .. ..   ..+..   .+.+....++..    ...++...+.         ..++++ +...++|+||.+|+|+++|+..
T Consensus       593 ~~-~~~~~~~~~~~~~~q~~~~~~el~~----~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~  667 (1049)
T PRK14845        593 GW-NISEDEPFLLNFNEQDQHALTELEI----KLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMM  667 (1049)
T ss_pred             cc-ccccchhhhhhhhhhHHHHHHHHHH----HHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHH
Confidence            21 10   11110   011111111110    0001111111         112343 4578999999999999999998


Q ss_pred             HHHhcC
Q 023298          260 IDNCIQ  265 (284)
Q Consensus       260 I~~~l~  265 (284)
                      |....+
T Consensus       668 l~~l~~  673 (1049)
T PRK14845        668 VAGLAQ  673 (1049)
T ss_pred             HHHhhH
Confidence            865444

>PTZ00416 elongation factor 2; Provisional

Probab=98.32  E-value=1.7e-06  Score=90.86  Aligned_cols=66  Identities=17%  Similarity=0.157  Sum_probs=43.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+.++||||+++.      ...+...+.   ..+++++++|+... ......++.      ...+.++|.|+++||+|
T Consensus        91 ~~~i~liDtPG~~~f------~~~~~~al~---~~D~ailVvda~~g~~~~t~~~~~------~~~~~~~p~iv~iNK~D  155 (836)
T PTZ00416         91 PFLINLIDSPGHVDF------SSEVTAALR---VTDGALVVVDCVEGVCVQTETVLR------QALQERIRPVLFINKVD  155 (836)
T ss_pred             ceEEEEEcCCCHHhH------HHHHHHHHh---cCCeEEEEEECCCCcCccHHHHHH------HHHHcCCCEEEEEEChh
Confidence            456899999998761      122333343   35688999999764 333333332      33456789999999999


Q ss_pred             cc
Q 023298          193 LV  194 (284)
Q Consensus       193 ll  194 (284)
                      +.
T Consensus       156 ~~  157 (836)
T PTZ00416        156 RA  157 (836)
T ss_pred             hh
Confidence            86

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=98.32  E-value=8.6e-06  Score=71.84  Aligned_cols=133  Identities=16%  Similarity=0.248  Sum_probs=76.1

Q ss_pred             CCCEEEEeCCCCcccccc-cchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTH-VPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~-~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK  190 (284)
                      +.++.+|||||+.+.-.. ....+.+.+.+. ...-..+++|+++..+++..+......+..  .+ ...-.-+++|++.
T Consensus        48 g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~--~FG~~~~k~~ivvfT~  125 (212)
T PF04548_consen   48 GRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLGRFTEEDREVLELLQE--IFGEEIWKHTIVVFTH  125 (212)
T ss_dssp             TEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETTB-SHHHHHHHHHHHH--HHCGGGGGGEEEEEEE
T ss_pred             ceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEEEecCcchHHHHHHHHHHHH--HccHHHHhHhhHHhhh
Confidence            457899999998653221 122233444443 233356899999988776544443333221  11 1223468999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEecc------CcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLR------KESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~------~~~~l~~Ll~~I~~~l  264 (284)
                      .|..... .+.++++.                  .-+..+.++++..+ .+++-++..      +...+.+|+..|++..
T Consensus       126 ~d~~~~~-~~~~~l~~------------------~~~~~l~~li~~c~-~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv  185 (212)
T PF04548_consen  126 ADELEDD-SLEDYLKK------------------ESNEALQELIEKCG-GRYHVFNNKTKDKEKDESQVSELLEKIEEMV  185 (212)
T ss_dssp             GGGGTTT-THHHHHHH------------------HHHHHHHHHHHHTT-TCEEECCTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccc-cHHHHHhc------------------cCchhHhHHhhhcC-CEEEEEeccccchhhhHHHHHHHHHHHHHHH
Confidence            9887655 45555431                  11233456666666 366666665      4567889999998887


Q ss_pred             CCCC
Q 023298          265 QWGE  268 (284)
Q Consensus       265 ~~g~  268 (284)
                      .+..
T Consensus       186 ~~n~  189 (212)
T PF04548_consen  186 QENG  189 (212)
T ss_dssp             HHTT
T ss_pred             HHcC
Confidence            6643

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=4.3e-06  Score=81.09  Aligned_cols=161  Identities=14%  Similarity=0.173  Sum_probs=92.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHH----HHhhhcCcccCchhh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLE----DVMEELGLGPNGGLI   91 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~----~vm~~~~lgPng~l~   91 (284)
                      .+|+.|.++|-- |||||-..-+|.||.+++.||++.-+||=.+.---...+-+|.+-.+.    ++.+ -|+|-.-+.+
T Consensus       376 krPYVi~fvGVNGVGKSTNLAKIayWLlqNkfrVLIAACDTFRsGAvEQLrtHv~rl~~l~~~~v~lfe-kGYgkd~a~v  454 (587)
T KOG0781|consen  376 KRPYVISFVGVNGVGKSTNLAKIAYWLLQNKFRVLIAACDTFRSGAVEQLRTHVERLSALHGTMVELFE-KGYGKDAAGV  454 (587)
T ss_pred             CCCeEEEEEeecCccccchHHHHHHHHHhCCceEEEEeccchhhhHHHHHHHHHHHHHHhccchhHHHh-hhcCCChHHH
Confidence            389999999998 999999999999999999999999999866521000000111110000    0001 1222211111


Q ss_pred             hhhHhhhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHH
Q 023298           92 YCMEHLEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISG  169 (284)
Q Consensus        92 ~~~e~~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~  169 (284)
                                   -+++++...  +.+.|+|||.|.+.  ...+++..+-+.+ .....+.|+|+-+|...++.-+.+..
T Consensus       455 -------------ak~AI~~a~~~gfDVvLiDTAGR~~--~~~~lm~~l~k~~-~~~~pd~i~~vgealvg~dsv~q~~~  518 (587)
T KOG0781|consen  455 -------------AKEAIQEARNQGFDVVLIDTAGRMH--NNAPLMTSLAKLI-KVNKPDLILFVGEALVGNDSVDQLKK  518 (587)
T ss_pred             -------------HHHHHHHHHhcCCCEEEEecccccc--CChhHHHHHHHHH-hcCCCceEEEehhhhhCcHHHHHHHH
Confidence                         122222111  67999999999876  3333333333333 34557889999888655544443433


Q ss_pred             HHHHHHHHHhcCCC---EEEEecCCccccch
Q 023298          170 CMASLSAMVQLELP---HVNILSKMDLVTNK  197 (284)
Q Consensus       170 ~l~~l~~~~~~~~p---~IlVlNK~Dll~~~  197 (284)
                      .=.++   .....|   --++|+|+|.+.++
T Consensus       519 fn~al---~~~~~~r~id~~~ltk~dtv~d~  546 (587)
T KOG0781|consen  519 FNRAL---ADHSTPRLIDGILLTKFDTVDDK  546 (587)
T ss_pred             HHHHH---hcCCCccccceEEEEeccchhhH
Confidence            32222   222222   35789999987643

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=98.27  E-value=8.2e-06  Score=74.28  Aligned_cols=72  Identities=18%  Similarity=0.296  Sum_probs=48.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .+++|||||+....-        ++.++..+   +.++.+.+.+...     ++.+..++....+++.|+..|+||.++-
T Consensus       164 ~~~~IIDsaaG~gCp--------Vi~sl~~a---D~ai~VTEPTp~g-----lhD~kr~~el~~~f~ip~~iViNr~~~g  227 (284)
T COG1149         164 ADLLIIDSAAGTGCP--------VIASLKGA---DLAILVTEPTPFG-----LHDLKRALELVEHFGIPTGIVINRYNLG  227 (284)
T ss_pred             cceeEEecCCCCCCh--------HHHhhccC---CEEEEEecCCccc-----hhHHHHHHHHHHHhCCceEEEEecCCCC
Confidence            489999999976532        44556543   4566666653321     4455566677788999999999999653


Q ss_pred             cchhhhhhhc
Q 023298          195 TNKKEIEDYL  204 (284)
Q Consensus       195 ~~~~~l~~~l  204 (284)
                      ..  +++++.
T Consensus       228 ~s--~ie~~~  235 (284)
T COG1149         228 DS--EIEEYC  235 (284)
T ss_pred             ch--HHHHHH
Confidence            32  455554

>cd01856 YlqF YlqF

Probab=98.25  E-value=4.5e-06  Score=70.91  Aligned_cols=81  Identities=11%  Similarity=0.204  Sum_probs=53.4

Q ss_pred             CeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      ++++++++|+... ......+...        ..++|.++|+||+|+..+. ....+.                      
T Consensus        20 aD~il~v~D~~~~~~~~~~~i~~~--------~~~k~~ilVlNK~Dl~~~~-~~~~~~----------------------   68 (171)
T cd01856          20 VDLVIEVRDARIPLSSRNPLLEKI--------LGNKPRIIVLNKADLADPK-KTKKWL----------------------   68 (171)
T ss_pred             CCEEEEEeeccCccCcCChhhHhH--------hcCCCEEEEEehhhcCChH-HHHHHH----------------------
Confidence            5789999999754 2222222211        1368999999999986432 222221                      


Q ss_pred             HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          227 NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       227 ~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                           +.+... ...++++||+++.|++.|.+.+.+.++
T Consensus        69 -----~~~~~~-~~~vi~iSa~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          69 -----KYFESK-GEKVLFVNAKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             -----HHHHhc-CCeEEEEECCCcccHHHHHHHHHHHHH
Confidence                 111111 256899999999999999999998764

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.22  E-value=5.1e-06  Score=69.41  Aligned_cols=83  Identities=14%  Similarity=0.070  Sum_probs=54.4

Q ss_pred             eEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHH
Q 023298          149 VCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLN  227 (284)
Q Consensus       149 ~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~  227 (284)
                      +++++++|+... .+....+..     ..+...++|.|+|+||+|++.++ ++..|+.                      
T Consensus         1 Dvvl~VvD~~~p~~~~~~~i~~-----~~~~~~~~p~IiVlNK~Dl~~~~-~~~~~~~----------------------   52 (155)
T cd01849           1 DVILEVLDARDPLGTRSPDIER-----VLIKEKGKKLILVLNKADLVPKE-VLRKWLA----------------------   52 (155)
T ss_pred             CEEEEEEeccCCccccCHHHHH-----HHHhcCCCCEEEEEechhcCCHH-HHHHHHH----------------------
Confidence            468999999754 222232221     12234679999999999997544 3333321                      


Q ss_pred             HHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          228 KSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       228 ~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                          .+ ....+..++++||+++.|++.|.+.|.+.+
T Consensus        53 ----~~-~~~~~~~ii~vSa~~~~gi~~L~~~i~~~~   84 (155)
T cd01849          53 ----YL-RHSYPTIPFKISATNGQGIEKKESAFTKQT   84 (155)
T ss_pred             ----HH-HhhCCceEEEEeccCCcChhhHHHHHHHHh
Confidence                11 122246789999999999999999887653

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>cd01859 MJ1464 MJ1464

Probab=98.22  E-value=1e-05  Score=67.34  Aligned_cols=94  Identities=12%  Similarity=0.169  Sum_probs=59.6

Q ss_pred             HHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHh
Q 023298          137 NFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSEL  215 (284)
Q Consensus       137 ~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l  215 (284)
                      ++.+++.+  ..+++++++|+... ......+...      ....++|.++|+||+|+..+. ....+.           
T Consensus         4 ~~~~~i~~--~aD~vl~V~D~~~~~~~~~~~l~~~------~~~~~~p~iiv~NK~Dl~~~~-~~~~~~-----------   63 (156)
T cd01859           4 RLVRRIIK--ESDVVLEVLDARDPELTRSRKLERY------VLELGKKLLIVLNKADLVPKE-VLEKWK-----------   63 (156)
T ss_pred             HHHHHHHh--hCCEEEEEeeCCCCcccCCHHHHHH------HHhCCCcEEEEEEhHHhCCHH-HHHHHH-----------
Confidence            35555533  13689999999653 2222223221      124578999999999986432 221110           


Q ss_pred             hhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          216 NQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       216 ~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                                      .+.+.. ...++++||+++.|++.|.+.|.+.++..
T Consensus        64 ----------------~~~~~~-~~~~~~iSa~~~~gi~~L~~~l~~~~~~~   98 (156)
T cd01859          64 ----------------SIKESE-GIPVVYVSAKERLGTKILRRTIKELAKID   98 (156)
T ss_pred             ----------------HHHHhC-CCcEEEEEccccccHHHHHHHHHHHHhhc
Confidence                            011111 25689999999999999999999998753

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=98.22  E-value=2.5e-06  Score=71.38  Aligned_cols=67  Identities=12%  Similarity=0.111  Sum_probs=39.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-H-HHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-V-TKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ...++||||||.......+.  ....+.+.   ..++++|++++..... . ..++..      ........+|+|+||+
T Consensus       100 ~~~~~lvDtPG~~~~~~~~~--~~~~~~~~---~~d~vi~V~~~~~~~~~~~~~~l~~------~~~~~~~~~i~V~nk~  168 (168)
T PF00350_consen  100 LRNLTLVDTPGLNSTNSEHT--EITEEYLP---KADVVIFVVDANQDLTESDMEFLKQ------MLDPDKSRTIFVLNKA  168 (168)
T ss_dssp             SCSEEEEEEEEBHSSHTTTS--HHHHHHHS---TTEEEEEEEETTSTGGGHHHHHHHH------HHTTTCSSEEEEEE-G
T ss_pred             ccceEEEeCCccccchhhhH--HHHHHhhc---cCCEEEEEeccCcccchHHHHHHHH------HhcCCCCeEEEEEcCC
Confidence            45789999999866433222  22233342   3578999999987433 2 222222      2224556799999995

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.20  E-value=1.1e-05  Score=71.08  Aligned_cols=142  Identities=17%  Similarity=0.186  Sum_probs=72.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH---HhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM---VQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~---~~~~~p~IlVlNK~D  192 (284)
                      ..-+||.||+..      .-.++...+......-.+||+||+......-.-++.++.....-   ...+.|+.++.||.|
T Consensus        83 ~~~LVD~PGH~r------lR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqD  156 (238)
T KOG0090|consen   83 NVTLVDLPGHSR------LRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQD  156 (238)
T ss_pred             ceEEEeCCCcHH------HHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchh
Confidence            357899999543      34556666542122356999999986643333333333322111   355778888899999


Q ss_pred             cccc--hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHH--hccC-------CceEEEEeccCcccHHHHHHHHH
Q 023298          193 LVTN--KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELV--DEYS-------MVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       193 ll~~--~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l--~~~~-------~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      +.-.  ...+...++.....+.+.-+......+...........  .+|.       -+.|.+-|++++ +++++.+-|.
T Consensus       157 l~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~  235 (238)
T KOG0090|consen  157 LFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIR  235 (238)
T ss_pred             hhhcCcHHHHHHHHHHHHHHHHHHHhhhhccccccccccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHH
Confidence            9642  21233333322222211110000000000000000000  1121       257899999988 8888888887


Q ss_pred             Hhc
Q 023298          262 NCI  264 (284)
Q Consensus       262 ~~l  264 (284)
                      +++
T Consensus       236 ~~l  238 (238)
T KOG0090|consen  236 EAL  238 (238)
T ss_pred             HhC
Confidence            754

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.20  E-value=1.8e-05  Score=78.02  Aligned_cols=111  Identities=14%  Similarity=0.182  Sum_probs=68.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHH--hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLK--SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~--~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ...+.|.||||+.-.           .+|.  .+...++++++|-+...-.|...     .++.-....+.|+|+++|||
T Consensus       200 G~~iTFLDTPGHaAF-----------~aMRaRGA~vtDIvVLVVAadDGVmpQT~-----EaIkhAk~A~VpiVvAinKi  263 (683)
T KOG1145|consen  200 GKSITFLDTPGHAAF-----------SAMRARGANVTDIVVLVVAADDGVMPQTL-----EAIKHAKSANVPIVVAINKI  263 (683)
T ss_pred             CCEEEEecCCcHHHH-----------HHHHhccCccccEEEEEEEccCCccHhHH-----HHHHHHHhcCCCEEEEEecc
Confidence            457899999996531           1132  23556778888866543333332     11223346789999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC-ceEEEEeccCcccHHHHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM-VSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~-~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |.-..  ..++...        +|-..            --..+++|. +.++||||++|+|++.|.+.+.-
T Consensus       264 Dkp~a--~pekv~~--------eL~~~------------gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill  313 (683)
T KOG1145|consen  264 DKPGA--NPEKVKR--------ELLSQ------------GIVVEDLGGDVQVIPISALTGENLDLLEEAILL  313 (683)
T ss_pred             CCCCC--CHHHHHH--------HHHHc------------CccHHHcCCceeEEEeecccCCChHHHHHHHHH
Confidence            96432  2222221        11100            012456655 89999999999999999988763

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.18  E-value=6.9e-06  Score=75.39  Aligned_cols=85  Identities=13%  Similarity=0.259  Sum_probs=57.3

Q ss_pred             CCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHH
Q 023298          146 NFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFA  224 (284)
Q Consensus       146 d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~  224 (284)
                      +.++++++++|+... .+....+...+        .++|+|+|+||+|++.+. ....|.+                   
T Consensus        20 ~~aDvVl~V~Dar~p~~~~~~~i~~~l--------~~kp~IiVlNK~DL~~~~-~~~~~~~-------------------   71 (276)
T TIGR03596        20 KLVDVVIEVLDARIPLSSRNPMIDEIR--------GNKPRLIVLNKADLADPA-VTKQWLK-------------------   71 (276)
T ss_pred             hhCCEEEEEEeCCCCCCCCChhHHHHH--------CCCCEEEEEEccccCCHH-HHHHHHH-------------------
Confidence            335789999999754 33333332221        268999999999986533 3333321                   


Q ss_pred             HHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          225 KLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       225 ~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                              .+...+ ..++++||+++.|+..|.+.+.+.+++.
T Consensus        72 --------~~~~~~-~~vi~iSa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        72 --------YFEEKG-IKALAINAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             --------HHHHcC-CeEEEEECCCcccHHHHHHHHHHHHHHh
Confidence                    111212 4689999999999999999999888754

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.17  E-value=8e-06  Score=76.05  Aligned_cols=152  Identities=14%  Similarity=0.148  Sum_probs=90.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      |.|+|=. +|||||.+.|.. .+..-+.-++=-|||....-.                      .||             
T Consensus       181 iavVGYTNaGKsTLikaLT~-Aal~p~drLFATLDpT~h~a~----------------------Lps-------------  224 (410)
T KOG0410|consen  181 IAVVGYTNAGKSTLIKALTK-AALYPNDRLFATLDPTLHSAH----------------------LPS-------------  224 (410)
T ss_pred             EEEEeecCccHHHHHHHHHh-hhcCccchhheeccchhhhcc----------------------CCC-------------
Confidence            7899999 999999999994 332223334444555443211                      143             


Q ss_pred             HHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhc
Q 023298          101 LDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQL  180 (284)
Q Consensus       101 ~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~  180 (284)
                                   +..+++.||=|++.-..+ .+...|-..|.....++++++++|.+... ........+   ..+...
T Consensus       225 -------------g~~vlltDTvGFisdLP~-~LvaAF~ATLeeVaeadlllHvvDiShP~-ae~q~e~Vl---~vL~~i  286 (410)
T KOG0410|consen  225 -------------GNFVLLTDTVGFISDLPI-QLVAAFQATLEEVAEADLLLHVVDISHPN-AEEQRETVL---HVLNQI  286 (410)
T ss_pred             -------------CcEEEEeechhhhhhCcH-HHHHHHHHHHHHHhhcceEEEEeecCCcc-HHHHHHHHH---HHHHhc
Confidence                         346789999998875532 22333444444344468999999987442 112233332   234444


Q ss_pred             CCC-------EEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccH
Q 023298          181 ELP-------HVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSI  253 (284)
Q Consensus       181 ~~p-------~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l  253 (284)
                      +.|       .|=|=||+|..+.+      .+                              .... ..+++|+++|+|+
T Consensus       287 gv~~~pkl~~mieVdnkiD~e~~~------~e------------------------------~E~n-~~v~isaltgdgl  329 (410)
T KOG0410|consen  287 GVPSEPKLQNMIEVDNKIDYEEDE------VE------------------------------EEKN-LDVGISALTGDGL  329 (410)
T ss_pred             CCCcHHHHhHHHhhcccccccccc------Cc------------------------------cccC-CccccccccCccH
Confidence            443       34455666653322      10                              1111 1689999999999


Q ss_pred             HHHHHHHHHhc
Q 023298          254 RYVLSQIDNCI  264 (284)
Q Consensus       254 ~~Ll~~I~~~l  264 (284)
                      +++++.++...
T Consensus       330 ~el~~a~~~kv  340 (410)
T KOG0410|consen  330 EELLKAEETKV  340 (410)
T ss_pred             HHHHHHHHHHh
Confidence            99999998764

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=98.17  E-value=1.2e-05  Score=63.13  Aligned_cols=65  Identities=22%  Similarity=0.332  Sum_probs=37.4

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh--cCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ--LELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~--~~~p~IlVlNK~  191 (284)
                      .+.+.|++|+.+....+.   .+   +..   .+++++++|..   ++..+  +..++..+..+.+  .+.|+++|.||.
T Consensus        51 ~~~~~d~~g~~~~~~~~~---~~---~~~---~d~~ilv~D~s---~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~  118 (119)
T PF08477_consen   51 SLQFWDFGGQEEFYSQHQ---FF---LKK---ADAVILVYDLS---DPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKS  118 (119)
T ss_dssp             EEEEEEESSSHCHHCTSH---HH---HHH---SCEEEEEEECC---GHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-T
T ss_pred             EEEEEecCccceeccccc---ch---hhc---CcEEEEEEcCC---ChHHHHHHHHHHHHHHHHHccCCCCCEEEEEecc
Confidence            367889999865332111   11   333   36789999986   33333  2233333333332  459999999999


Q ss_pred             c
Q 023298          192 D  192 (284)
Q Consensus       192 D  192 (284)
                      |
T Consensus       119 D  119 (119)
T PF08477_consen  119 D  119 (119)
T ss_dssp             C
T ss_pred             C
Confidence            8

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.16  E-value=9e-06  Score=84.14  Aligned_cols=67  Identities=12%  Similarity=0.134  Sum_probs=43.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.++||||+...      ...+...+..   .+++++++|+... ......+..      ...+.+.|.++|+||+|
T Consensus        85 ~~~i~liDTPG~~~f------~~~~~~al~~---aD~~llVvda~~g~~~~t~~~~~------~~~~~~~p~ivviNKiD  149 (720)
T TIGR00490        85 EYLINLIDTPGHVDF------GGDVTRAMRA---VDGAIVVVCAVEGVMPQTETVLR------QALKENVKPVLFINKVD  149 (720)
T ss_pred             ceEEEEEeCCCcccc------HHHHHHHHHh---cCEEEEEEecCCCCCccHHHHHH------HHHHcCCCEEEEEEChh
Confidence            568999999998751      1223444544   4678899998653 222222221      12356789999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      ...
T Consensus       150 ~~~  152 (720)
T TIGR00490       150 RLI  152 (720)
T ss_pred             ccc
Confidence            864

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

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

Probab=98.14  E-value=3.2e-05  Score=74.21  Aligned_cols=148  Identities=15%  Similarity=0.230  Sum_probs=78.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH--hcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE--TVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~--~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      +++.+.++||. |||||+..-||..+.  ...++|.+|-+|-=--.       -...+-++.++|.   + |= -+++..
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIG-------A~EQLk~Ya~im~---v-p~-~vv~~~  269 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIG-------AVEQLKTYADIMG---V-PL-EVVYSP  269 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhh-------HHHHHHHHHHHhC---C-ce-EEecCH
Confidence            46779999999 999999999999888  56779999999853211       0011112222221   1 11 011222


Q ss_pred             HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                              .-|.+++..+.+++.|+|||.|....  ......+|...+... ...-+-+++.+..-   ..-+..++   
T Consensus       270 --------~el~~ai~~l~~~d~ILVDTaGrs~~--D~~~i~el~~~~~~~-~~i~~~Lvlsat~K---~~dlkei~---  332 (407)
T COG1419         270 --------KELAEAIEALRDCDVILVDTAGRSQY--DKEKIEELKELIDVS-HSIEVYLVLSATTK---YEDLKEII---  332 (407)
T ss_pred             --------HHHHHHHHHhhcCCEEEEeCCCCCcc--CHHHHHHHHHHHhcc-ccceEEEEEecCcc---hHHHHHHH---
Confidence                    12334454444779999999997541  111223333333322 23334445555322   12122221   


Q ss_pred             HHHHhcCCCEEEEecCCcccc
Q 023298          175 SAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ..+...+ .-=++++|.|=..
T Consensus       333 ~~f~~~~-i~~~I~TKlDET~  352 (407)
T COG1419         333 KQFSLFP-IDGLIFTKLDETT  352 (407)
T ss_pred             HHhccCC-cceeEEEcccccC
Confidence            2233333 3356789999643

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=98.13  E-value=1.1e-05  Score=79.36  Aligned_cols=112  Identities=15%  Similarity=0.175  Sum_probs=72.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      +-.=+|||||+...      +....+.+.++   +-++++|||...-.+.. ++++..    ....+...|.|+||+|+-
T Consensus       125 ylLNLIDTPGHvDF------s~EVsRslaac---~G~lLvVDA~qGvqAQT-~anf~l----Afe~~L~iIpVlNKIDlp  190 (650)
T KOG0462|consen  125 YLLNLIDTPGHVDF------SGEVSRSLAAC---DGALLVVDASQGVQAQT-VANFYL----AFEAGLAIIPVLNKIDLP  190 (650)
T ss_pred             eEEEeecCCCcccc------cceehehhhhc---CceEEEEEcCcCchHHH-HHHHHH----HHHcCCeEEEeeeccCCC
Confidence            55678999997752      22344556553   45788999975432222 333322    245688999999999985


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ...  -+        ....++.               ++ .+....+.+.+||++|-|++.++++|.+..|.
T Consensus       191 ~ad--pe--------~V~~q~~---------------~l-F~~~~~~~i~vSAK~G~~v~~lL~AII~rVPp  236 (650)
T KOG0462|consen  191 SAD--PE--------RVENQLF---------------EL-FDIPPAEVIYVSAKTGLNVEELLEAIIRRVPP  236 (650)
T ss_pred             CCC--HH--------HHHHHHH---------------HH-hcCCccceEEEEeccCccHHHHHHHHHhhCCC
Confidence            422  11        1111111               11 12334689999999999999999999998875

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=98.12  E-value=9.3e-05  Score=76.07  Aligned_cols=134  Identities=16%  Similarity=0.180  Sum_probs=75.4

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      ..+.+-+-|+|.= +||||++-+|-.+-....+   .=+.+-++..++|      .+      .-.+-|+.=.-+.+.  
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k---~G~v~~g~~~~D~------~e------~EqeRGITI~saa~s--   69 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISK---IGEVHDGAATMDW------ME------QEQERGITITSAATT--   69 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCC---CccccCCCccCCC------cH------HHHhcCCEEeeeeeE--
Confidence            5677889999999 9999999999887543322   0011111111111      11      001112110000000  


Q ss_pred             HhhhhcHHHHHHHHhhccC-CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYL-DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMA  172 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~  172 (284)
                                    + ... ++.+-+|||||++..      ....-++|..+   |.++.++|+... ....+.++.   
T Consensus        70 --------------~-~~~~~~~iNlIDTPGHVDF------t~EV~rslrvl---DgavvVvdaveGV~~QTEtv~r---  122 (697)
T COG0480          70 --------------L-FWKGDYRINLIDTPGHVDF------TIEVERSLRVL---DGAVVVVDAVEGVEPQTETVWR---  122 (697)
T ss_pred             --------------E-EEcCceEEEEeCCCCcccc------HHHHHHHHHhh---cceEEEEECCCCeeecHHHHHH---
Confidence                          0 011 368999999998862      22344556554   456668888754 333443433   


Q ss_pred             HHHHHHhcCCCEEEEecCCccccc
Q 023298          173 SLSAMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       173 ~l~~~~~~~~p~IlVlNK~Dll~~  196 (284)
                         +..+.+.|.++++||+|.+..
T Consensus       123 ---qa~~~~vp~i~fiNKmDR~~a  143 (697)
T COG0480         123 ---QADKYGVPRILFVNKMDRLGA  143 (697)
T ss_pred             ---HHhhcCCCeEEEEECcccccc
Confidence               234678999999999999754

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.10  E-value=4.7e-05  Score=71.11  Aligned_cols=97  Identities=15%  Similarity=0.154  Sum_probs=50.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEE--ecCCCCCCHHHHHHHHHHHHHHH--HhcCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYL--LDSQFITDVTKFISGCMASLSAM--VQLELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~L--iDa~~~~~~~~~i~~~l~~l~~~--~~~~~p~IlVlN  189 (284)
                      +.++.+|||||+.+...........++.+....-.++++|+  +|..+....+..+...+   ...  ...-.+.|+|++
T Consensus        85 G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~I---qe~FG~~iw~~~IVVfT  161 (313)
T TIGR00991        85 GFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAI---TDSFGKDIWRKSLVVLT  161 (313)
T ss_pred             CeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHH---HHHhhhhhhccEEEEEE
Confidence            45789999999876421111111122222111225678888  44444443333222222   211  223468999999


Q ss_pred             CCccccc-hhhhhhhcCcchHHHHH
Q 023298          190 KMDLVTN-KKEIEDYLNPESQFLLS  213 (284)
Q Consensus       190 K~Dll~~-~~~l~~~l~~~~~~l~~  213 (284)
                      ++|.+.. ...++.|+....+.|..
T Consensus       162 h~d~~~pd~~~~e~fv~~~~~~lq~  186 (313)
T TIGR00991       162 HAQFSPPDGLEYNDFFSKRSEALLR  186 (313)
T ss_pred             CCccCCCCCCCHHHHHHhcHHHHHH
Confidence            9998742 22566676544444433

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=98.08  E-value=7.3e-06  Score=67.98  Aligned_cols=41  Identities=15%  Similarity=0.152  Sum_probs=34.2

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceE-EEecCcCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMH-IVNLDPAAENF   61 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~-iVdLDPq~~~~   61 (284)
                      ++.|+|+. |||||++..|.++|.++|++|. +.+.|++...+
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~~g~~~~   44 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTDHGQFEI   44 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-STTSTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEccCCCccc
Confidence            48999999 9999999999999999999988 99999966544

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.08  E-value=2.6e-05  Score=67.84  Aligned_cols=112  Identities=13%  Similarity=0.246  Sum_probs=71.9

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..=|-||.|| |  +++    .+..+.-+ + +.-|+++.|....   ..|  +..|+..+......+.|.++|-||+|+
T Consensus        59 KlQIWDTAGQ-E--RFr----tit~syYR-~-ahGii~vyDiT~~---~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl  126 (205)
T KOG0084|consen   59 KLQIWDTAGQ-E--RFR----TITSSYYR-G-AHGIIFVYDITKQ---ESFNNVKRWIQEIDRYASENVPKLLVGNKCDL  126 (205)
T ss_pred             EEEeeecccc-H--HHh----hhhHhhcc-C-CCeEEEEEEcccH---HHhhhHHHHHHHhhhhccCCCCeEEEeecccc
Confidence            4457799998 3  222    12222211 1 2468888898643   333  566777666777778899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... ....-.                         -..+....+...|.+.||+++.|+++.+..+...+.
T Consensus       127 ~~~~-~v~~~~-------------------------a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk  172 (205)
T KOG0084|consen  127 TEKR-VVSTEE-------------------------AQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELK  172 (205)
T ss_pred             Hhhe-ecCHHH-------------------------HHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHH
Confidence            6543 211100                         012234455556999999999999999988876643

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.07  E-value=1.5e-05  Score=83.91  Aligned_cols=66  Identities=17%  Similarity=0.156  Sum_probs=43.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+-+|||||+...      ...+...+..   .+.++++||+... ......++      ......++|.|+++||+|
T Consensus        97 ~~~inliDtPGh~dF------~~e~~~al~~---~D~ailVvda~~Gv~~~t~~~~------~~~~~~~~p~i~~iNK~D  161 (843)
T PLN00116         97 EYLINLIDSPGHVDF------SSEVTAALRI---TDGALVVVDCIEGVCVQTETVL------RQALGERIRPVLTVNKMD  161 (843)
T ss_pred             ceEEEEECCCCHHHH------HHHHHHHHhh---cCEEEEEEECCCCCcccHHHHH------HHHHHCCCCEEEEEECCc
Confidence            345689999997652      2223444433   4678899998754 33333232      233467899999999999


Q ss_pred             cc
Q 023298          193 LV  194 (284)
Q Consensus       193 ll  194 (284)
                      ..
T Consensus       162 ~~  163 (843)
T PLN00116        162 RC  163 (843)
T ss_pred             cc
Confidence            97

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.06  E-value=3.8e-05  Score=66.52  Aligned_cols=118  Identities=13%  Similarity=0.241  Sum_probs=73.3

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ++.|=||.||-..   +++.+..   ...+   ..++.+.|..   +.+.|  ...|+..|.....-+.-+.+|-||+|+
T Consensus        55 kfeIWDTAGQERy---~slapMY---yRgA---~AAivvYDit---~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL  122 (200)
T KOG0092|consen   55 KFEIWDTAGQERY---HSLAPMY---YRGA---NAAIVVYDIT---DEESFEKAKNWVKELQRQASPNIVIALVGNKADL  122 (200)
T ss_pred             EEEEEEcCCcccc---cccccce---ecCC---cEEEEEEecc---cHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhh
Confidence            6789999998752   2322211   1222   3456667764   45555  455666554444434445668999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADL  272 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~~  272 (284)
                      ...+ ++ .+-+                         ++...+-...-|+..||++|.|++.|+..|.+.+|..+..+.
T Consensus       123 ~~~R-~V-~~~e-------------------------a~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~~  174 (200)
T KOG0092|consen  123 LERR-EV-EFEE-------------------------AQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQER  174 (200)
T ss_pred             hhcc-cc-cHHH-------------------------HHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCcccccc
Confidence            7633 22 1110                         011111233678899999999999999999999999887765

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=98.05  E-value=3.3e-05  Score=76.53  Aligned_cols=108  Identities=19%  Similarity=0.275  Sum_probs=61.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-----CHHHHHHHHHHHHHHHHhcCC-CEEEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-----DVTKFISGCMASLSAMVQLEL-PHVNI  187 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-----~~~~~i~~~l~~l~~~~~~~~-p~IlV  187 (284)
                      .+.++++|+|| |..|.     ..|   +..+...++.+++||++.-.     ++........   ..+..+++ ..|++
T Consensus       254 ~~~~tliDaPG-hkdFi-----~nm---i~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha---~llr~Lgi~qliva  321 (603)
T KOG0458|consen  254 SKIVTLIDAPG-HKDFI-----PNM---ISGASQADVAVLVVDASTGEFESGFDPGGQTREHA---LLLRSLGISQLIVA  321 (603)
T ss_pred             ceeEEEecCCC-ccccc-----hhh---hccccccceEEEEEECCcchhhhccCCCCchHHHH---HHHHHcCcceEEEE
Confidence            56799999999 55443     222   22222346788899997421     1211111111   11123444 45778


Q ss_pred             ecCCcccc-chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHH-hccCC----ceEEEEeccCcccHHHH
Q 023298          188 LSKMDLVT-NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELV-DEYSM----VSFMPLDLRKESSIRYV  256 (284)
Q Consensus       188 lNK~Dll~-~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l-~~~~~----~~~ipiSa~~~~~l~~L  256 (284)
                      +||.|+++ .+..++++.                       ..+..++ +..+|    ++|+|+|+..|+|+...
T Consensus       322 iNKmD~V~Wsq~RF~eIk-----------------------~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  322 INKMDLVSWSQDRFEEIK-----------------------NKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             eecccccCccHHHHHHHH-----------------------HHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            99999985 332333332                       2233444 44555    57999999999998764

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.04  E-value=0.0002  Score=65.59  Aligned_cols=132  Identities=10%  Similarity=0.145  Sum_probs=78.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH-HHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF-VDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l-~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ....++-||||.=+.-.......++ .+.+.+.   +++++++|+..-  ..+..|+..++.     ...++|+++|+|.
T Consensus        86 ~~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~---DLvL~l~~~~draL~~d~~f~~dVi~-----~~~~~~~i~~VtQ  157 (296)
T COG3596          86 GENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKL---DLVLWLIKADDRALGTDEDFLRDVII-----LGLDKRVLFVVTQ  157 (296)
T ss_pred             ccceEEecCCCcccchhhhHHHHHHHHHHhhhc---cEEEEeccCCCccccCCHHHHHHHHH-----hccCceeEEEEeh
Confidence            4467999999977644444333333 4455554   578889998743  455666655533     2455899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHH-HHHHHHHHHHhccCC-ceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFA-KLNKSLIELVDEYSM-VSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~-~l~~~i~~~l~~~~~-~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|...+-   .+|-.   ..      ....+..+ -+.++.+.+.+.+.. ..++.+|...+-|++.|+..+.+++|
T Consensus       158 ~D~a~p~---~~W~~---~~------~~p~~a~~qfi~~k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp  222 (296)
T COG3596         158 ADRAEPG---REWDS---AG------HQPSPAIKQFIEEKAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALP  222 (296)
T ss_pred             hhhhccc---ccccc---cc------CCCCHHHHHHHHHHHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCc
Confidence            9986432   11110   00      00000111 111222333333322 35777888999999999999999998

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=98.04  E-value=3.1e-05  Score=75.66  Aligned_cols=112  Identities=13%  Similarity=0.243  Sum_probs=63.5

Q ss_pred             CEEEEeCCCCccc-ccccchHHHH-HHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIEL-FTHVPVLRNF-VDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~-~~~~~~~~~l-~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .+-+|||||+..- ...+...+.. +.+|.  -..-+|+|+.|-+..  .+....+. ++.++.- +-.++|.|+|+||+
T Consensus       216 rwQViDTPGILD~plEdrN~IEmqsITALA--HLraaVLYfmDLSe~CGySva~Qvk-LfhsIKp-LFaNK~~IlvlNK~  291 (620)
T KOG1490|consen  216 RWQVIDTPGILDRPEEDRNIIEMQIITALA--HLRSAVLYFMDLSEMCGYSVAAQVK-LYHSIKP-LFANKVTILVLNKI  291 (620)
T ss_pred             eeeecCCccccCcchhhhhHHHHHHHHHHH--HhhhhheeeeechhhhCCCHHHHHH-HHHHhHH-HhcCCceEEEeecc
Confidence            4688999997642 1111212111 12221  123468999998742  55555432 2222222 23578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRY  255 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~  255 (284)
                      |.+..+ ++.+-.                       .++.+-+.+-+.+.++--|..+.+|+..
T Consensus       292 D~m~~e-dL~~~~-----------------------~~ll~~~~~~~~v~v~~tS~~~eegVm~  331 (620)
T KOG1490|consen  292 DAMRPE-DLDQKN-----------------------QELLQTIIDDGNVKVVQTSCVQEEGVMD  331 (620)
T ss_pred             cccCcc-ccCHHH-----------------------HHHHHHHHhccCceEEEecccchhceee
Confidence            998765 443221                       1223333455567788888888888765

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=98.03  E-value=7e-05  Score=65.59  Aligned_cols=110  Identities=16%  Similarity=0.240  Sum_probs=60.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK  190 (284)
                      ..+-|.||+|+.+.-       .|... +...+ ..+++|=++     +...|  +..+..-+..... ...|+++|-||
T Consensus        51 ~~l~ilDt~g~~~~~-------~~~~~~~~~~~-gF~lVysit-----d~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK  117 (196)
T KOG0395|consen   51 CMLEILDTAGQEEFS-------AMRDLYIRNGD-GFLLVYSIT-----DRSSFEEAKQLREQILRVKGRDDVPIILVGNK  117 (196)
T ss_pred             EEEEEEcCCCcccCh-------HHHHHhhccCc-EEEEEEECC-----CHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEc
Confidence            456699999966522       12222 32222 345555544     34444  2222222212222 35699999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+...+ ....-          +.               ..+...++ ..|+..||+...++++++..+....
T Consensus       118 ~Dl~~~R-~V~~e----------eg---------------~~la~~~~-~~f~E~Sak~~~~v~~~F~~L~r~~  164 (196)
T KOG0395|consen  118 CDLERER-QVSEE----------EG---------------KALARSWG-CAFIETSAKLNYNVDEVFYELVREI  164 (196)
T ss_pred             ccchhcc-ccCHH----------HH---------------HHHHHhcC-CcEEEeeccCCcCHHHHHHHHHHHH
Confidence            9996532 11100          00               11123343 4499999999999999998877643

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=98.03  E-value=0.00022  Score=60.55  Aligned_cols=115  Identities=17%  Similarity=0.157  Sum_probs=63.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .+++.+-|-.||.+.-+.      --+.+.+   .+.++|++|++...+-.+-...+-..+.--...++|.+++.||.|+
T Consensus        59 ~~~L~iwDvGGq~~lr~~------W~nYfes---tdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl  129 (185)
T KOG0073|consen   59 GYTLNIWDVGGQKTLRSY------WKNYFES---TDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDL  129 (185)
T ss_pred             ceEEEEEEcCCcchhHHH------HHHhhhc---cCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcC
Confidence            668899999998762111      1233433   3579999998532222221111111111123368999999999998


Q ss_pred             ccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCc----ccHHHHHHHHHH
Q 023298          194 VTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKE----SSIRYVLSQIDN  262 (284)
Q Consensus       194 l~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~----~~l~~Ll~~I~~  262 (284)
                      ...-  .++...++                        +.++... .-.+++..|+.+|    +|++.|...+.+
T Consensus       130 ~~~l~~~~i~~~~~------------------------L~~l~ks-~~~~l~~cs~~tge~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  130 PGALSLEEISKALD------------------------LEELAKS-HHWRLVKCSAVTGEDLLEGIDWLCDDLMS  179 (185)
T ss_pred             ccccCHHHHHHhhC------------------------HHHhccc-cCceEEEEeccccccHHHHHHHHHHHHHH
Confidence            5311  12222221                        1222221 1268999999999    566666665544

>cd01900 YchF YchF subfamily

Probab=98.02  E-value=1.3e-05  Score=73.72  Aligned_cols=42  Identities=10%  Similarity=0.094  Sum_probs=30.1

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                      ..++.++|+||...... ....+++++.+++.   .++++++||+.
T Consensus        61 ~~~i~lvD~pGl~~~a~~~~glg~~fL~~i~~---~D~li~VV~~f  103 (274)
T cd01900          61 PATIEFVDIAGLVKGASKGEGLGNKFLSHIRE---VDAIAHVVRCF  103 (274)
T ss_pred             eeEEEEEECCCcCCCCchhhHHHHHHHHHHHh---CCEEEEEEeCc
Confidence            34799999999886542 23455667777765   46899999874

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.01  E-value=0.00011  Score=69.39  Aligned_cols=121  Identities=15%  Similarity=0.239  Sum_probs=69.3

Q ss_pred             CCCEEEEeCCCCcccccccch----HHHH----HHHHH---h--------cCCCeEEEEEecCCC-CCCHHHHHHHHHHH
Q 023298          114 DDDYLVFDCPGQIELFTHVPV----LRNF----VDHLK---S--------RNFNVCAVYLLDSQF-ITDVTKFISGCMAS  173 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~----~~~l----~~~l~---~--------~d~~~vil~LiDa~~-~~~~~~~i~~~l~~  173 (284)
                      .-.+.+|||||.-.......+    ...+    -..|.   .        -....+|+|++.+.. ..++-+.       
T Consensus        81 ~~~l~vIDtpGfGD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DI-------  153 (373)
T COG5019          81 HLNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDI-------  153 (373)
T ss_pred             EEEEEEeccCCccccccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHH-------
Confidence            346899999997655433322    2222    11121   0        123468999997653 3455442       


Q ss_pred             HHHHHh--cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc
Q 023298          174 LSAMVQ--LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES  251 (284)
Q Consensus       174 l~~~~~--~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~  251 (284)
                       ..|.+  -....|.||.|+|.+... ++..+.+                       .|.+.++.++..-|.|.+..+.+
T Consensus       154 -e~Mk~ls~~vNlIPVI~KaD~lT~~-El~~~K~-----------------------~I~~~i~~~nI~vf~pyd~e~~~  208 (373)
T COG5019         154 -EAMKRLSKRVNLIPVIAKADTLTDD-ELAEFKE-----------------------RIREDLEQYNIPVFDPYDPEDDE  208 (373)
T ss_pred             -HHHHHHhcccCeeeeeeccccCCHH-HHHHHHH-----------------------HHHHHHHHhCCceeCCCCccccc
Confidence             12222  246789999999998766 6665542                       33455566665444476555432


Q ss_pred             -cHHHHHHHHHHhcCC
Q 023298          252 -SIRYVLSQIDNCIQW  266 (284)
Q Consensus       252 -~l~~Ll~~I~~~l~~  266 (284)
                       ...+.-+.+...+|+
T Consensus       209 ~e~~e~~~~l~~~~PF  224 (373)
T COG5019         209 DESLEENQDLRSLIPF  224 (373)
T ss_pred             hhhHHHHHHHhhcCCe
Confidence             445556666666665

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.00  E-value=1.9e-05  Score=72.97  Aligned_cols=83  Identities=14%  Similarity=0.294  Sum_probs=55.6

Q ss_pred             CeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      ++++++++|+... .+....+...       .. ++|.++|+||+|+.... ....+.+                     
T Consensus        25 aDvIL~VvDar~p~~~~~~~l~~~-------~~-~kp~iiVlNK~DL~~~~-~~~~~~~---------------------   74 (287)
T PRK09563         25 VDVVIEVLDARIPLSSENPMIDKI-------IG-NKPRLLILNKSDLADPE-VTKKWIE---------------------   74 (287)
T ss_pred             CCEEEEEEECCCCCCCCChhHHHH-------hC-CCCEEEEEEchhcCCHH-HHHHHHH---------------------
Confidence            5789999999754 3222323221       12 78999999999986533 2333321                     


Q ss_pred             HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          227 NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       227 ~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                            .++..+ ..++++|+.++.|+..|.+.+.+.+++.
T Consensus        75 ------~~~~~~-~~vi~vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         75 ------YFEEQG-IKALAINAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             ------HHHHcC-CeEEEEECCCcccHHHHHHHHHHHHHHH
Confidence                  111112 4689999999999999999998887653

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.99  E-value=6.7e-05  Score=65.82  Aligned_cols=112  Identities=13%  Similarity=0.225  Sum_probs=69.5

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..=+.||.||-.       ...+.++ ...+   ..++.++|.....+-.. +..|+..+......+.|.++|-||+|+.
T Consensus        62 ~lQiWDtaGQer-------f~ti~~sYyrgA---~gi~LvyDitne~Sfen-i~~W~~~I~e~a~~~v~~~LvGNK~D~~  130 (207)
T KOG0078|consen   62 KLQIWDTAGQER-------FRTITTAYYRGA---MGILLVYDITNEKSFEN-IRNWIKNIDEHASDDVVKILVGNKCDLE  130 (207)
T ss_pred             EEEEEEcccchh-------HHHHHHHHHhhc---CeeEEEEEccchHHHHH-HHHHHHHHHhhCCCCCcEEEeecccccc
Confidence            346789999864       2223333 3332   34666777653322222 4557666666666689999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .++ .+..-                  .-       ..+..+++ ..|+..||++|.|+++.+..+.+.+.
T Consensus       131 ~~R-~V~~e------------------~g-------e~lA~e~G-~~F~EtSAk~~~NI~eaF~~La~~i~  174 (207)
T KOG0078|consen  131 EKR-QVSKE------------------RG-------EALAREYG-IKFFETSAKTNFNIEEAFLSLARDIL  174 (207)
T ss_pred             ccc-cccHH------------------HH-------HHHHHHhC-CeEEEccccCCCCHHHHHHHHHHHHH
Confidence            533 22110                  00       12224454 89999999999999998877765544

>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=97.98  E-value=1.6e-05  Score=67.28  Aligned_cols=43  Identities=9%  Similarity=0.019  Sum_probs=37.2

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ++++++++|.+ |||||++..|...|...|+++.++|-|--...
T Consensus         1 ~g~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR~~   44 (156)
T PF01583_consen    1 KGFVIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNLRHG   44 (156)
T ss_dssp             S-EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHCTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchhhc
Confidence            56789999999 99999999999999999999999998865543

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 ....

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=97.98  E-value=5.1e-05  Score=68.19  Aligned_cols=132  Identities=15%  Similarity=0.222  Sum_probs=69.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH--hcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV--QLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~--~~~~p~IlVlNK~D  192 (284)
                      -.+-+.|||||...+...- ....-.-++.   ..++||++|+.... ..+-+..+-.++..+.  +-+..+.+.+.|+|
T Consensus        48 ~~l~iwD~pGq~~~~~~~~-~~~~~~if~~---v~~LIyV~D~qs~~-~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D  122 (232)
T PF04670_consen   48 LPLNIWDCPGQDDFMENYF-NSQREEIFSN---VGVLIYVFDAQSDD-YDEDLAYLSDCIEALRQYSPNIKVFVFIHKMD  122 (232)
T ss_dssp             CEEEEEEE-SSCSTTHTTH-TCCHHHHHCT---ESEEEEEEETT-ST-CHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CC
T ss_pred             cEEEEEEcCCccccccccc-cccHHHHHhc---cCEEEEEEEccccc-HHHHHHHHHHHHHHHHHhCCCCeEEEEEeecc
Confidence            3678999999987543210 0000111333   35899999998432 2222333323333333  34677888899999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--CceEEEEeccCcccHHHHHHHHHHhcCCCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--MVSFMPLDLRKESSIRYVLSQIDNCIQWGEDA  270 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~  270 (284)
                      ++.++ .-.+.                   ++...+.+.+.+.+.+  -..++.-|+-+..=.+..=..+.+.+|.-+..
T Consensus       123 ~l~~~-~r~~~-------------------~~~~~~~i~~~~~~~~~~~~~~~~TSI~D~Sly~A~S~Ivq~LiP~~~~l  182 (232)
T PF04670_consen  123 LLSED-EREEI-------------------FRDIQQRIRDELEDLGIEDITFFLTSIWDESLYEAWSKIVQKLIPNLSTL  182 (232)
T ss_dssp             CS-HH-HHHHH-------------------HHHHHHHHHHHHHHTT-TSEEEEEE-TTSTHHHHHHHHHHHTTSTTHCCC
T ss_pred             cCCHH-HHHHH-------------------HHHHHHHHHHHhhhccccceEEEeccCcCcHHHHHHHHHHHHHcccHHHH
Confidence            98644 11111                   1223334445555554  37899999999654455555566667766665


Q ss_pred             C
Q 023298          271 D  271 (284)
Q Consensus       271 ~  271 (284)
                      |
T Consensus       183 e  183 (232)
T PF04670_consen  183 E  183 (232)
T ss_dssp             C
T ss_pred             H
Confidence            5

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=97.97  E-value=5e-05  Score=70.12  Aligned_cols=50  Identities=12%  Similarity=0.206  Sum_probs=30.7

Q ss_pred             CeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhc
Q 023298          148 NVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYL  204 (284)
Q Consensus       148 ~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l  204 (284)
                      ..+|+|++++... .++.+.-  .++   . +....++|.||.|+|.+..+ ++..+.
T Consensus       114 VH~cLYfI~pt~~~L~~~Di~--~mk---~-Ls~~vNvIPvIaKaD~lt~~-el~~~k  164 (281)
T PF00735_consen  114 VHACLYFIPPTGHGLKPLDIE--FMK---R-LSKRVNVIPVIAKADTLTPE-ELQAFK  164 (281)
T ss_dssp             EEEEEEEE-TTSSSS-HHHHH--HHH---H-HTTTSEEEEEESTGGGS-HH-HHHHHH
T ss_pred             cceEEEEEcCCCccchHHHHH--HHH---H-hcccccEEeEEecccccCHH-HHHHHH
Confidence            4789999997643 4555521  111   1 23357899999999999866 665554

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=97.96  E-value=2.3e-05  Score=74.69  Aligned_cols=42  Identities=10%  Similarity=0.075  Sum_probs=29.9

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                      ..++.++||||.++... ....+++++++++.   .++++|+||+.
T Consensus        65 ~a~i~lvD~pGL~~~a~~g~glg~~fL~~i~~---aD~li~VVd~f  107 (364)
T PRK09601         65 PATIEFVDIAGLVKGASKGEGLGNQFLANIRE---VDAIVHVVRCF  107 (364)
T ss_pred             CceEEEEECCCCCCCCChHHHHHHHHHHHHHh---CCEEEEEEeCC
Confidence            35799999999886432 22455667777755   46899999984

>cd01855 YqeH YqeH

Probab=97.95  E-value=6.1e-05  Score=64.83  Aligned_cols=89  Identities=9%  Similarity=0.072  Sum_probs=54.4

Q ss_pred             CeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      .+++++++|+.... +....+.        ....++|+++|+||+|+..+. .......    .               +
T Consensus        35 ad~il~VvD~~~~~~~~~~~l~--------~~~~~~~~ilV~NK~Dl~~~~-~~~~~~~----~---------------~   86 (190)
T cd01855          35 KALVVHVVDIFDFPGSLIPRLR--------LFGGNNPVILVGNKIDLLPKD-KNLVRIK----N---------------W   86 (190)
T ss_pred             CcEEEEEEECccCCCccchhHH--------HhcCCCcEEEEEEchhcCCCC-CCHHHHH----H---------------H
Confidence            57899999997542 1112121        113468999999999997533 1111110    0               0


Q ss_pred             HHHHHHHHhc--cCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          227 NKSLIELVDE--YSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       227 ~~~i~~~l~~--~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ..+  .....  +....++++||++|.|+++|++.|.+.++.
T Consensus        87 ~~~--~~~~~~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~~  126 (190)
T cd01855          87 LRA--KAAAGLGLKPKDVILISAKKGWGVEELINAIKKLAKK  126 (190)
T ss_pred             HHH--HHHhhcCCCcccEEEEECCCCCCHHHHHHHHHHHhhc
Confidence            000  00011  223479999999999999999999998764

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=97.94  E-value=3.4e-05  Score=75.10  Aligned_cols=111  Identities=17%  Similarity=0.209  Sum_probs=71.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .|.+=+|||||+....      ....++|.++.   -++++|||+-.-+ ...++++-.+    ...+.-.|.|+||+|+
T Consensus        75 ~Y~lnlIDTPGHVDFs------YEVSRSLAACE---GalLvVDAsQGve-AQTlAN~YlA----le~~LeIiPViNKIDL  140 (603)
T COG0481          75 TYVLNLIDTPGHVDFS------YEVSRSLAACE---GALLVVDASQGVE-AQTLANVYLA----LENNLEIIPVLNKIDL  140 (603)
T ss_pred             EEEEEEcCCCCccceE------EEehhhHhhCC---CcEEEEECccchH-HHHHHHHHHH----HHcCcEEEEeeecccC
Confidence            3566789999988631      12345576653   3567999964322 2224444332    3568899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      -...  .+...        .                  ++-+-.|.  ...+-+||++|.|+++++++|.+.+|.
T Consensus       141 P~Ad--pervk--------~------------------eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP~  187 (603)
T COG0481         141 PAAD--PERVK--------Q------------------EIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIPP  187 (603)
T ss_pred             CCCC--HHHHH--------H------------------HHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCCC
Confidence            5422  22211        1                  11122333  568899999999999999999999876

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.94  E-value=6.8e-05  Score=65.28  Aligned_cols=116  Identities=13%  Similarity=0.159  Sum_probs=70.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC---CCHHHHHHHHHHHHHHHHhc-CCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI---TDVTKFISGCMASLSAMVQL-ELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~---~~~~~~i~~~l~~l~~~~~~-~~p~IlVlNK~  191 (284)
                      ..=+-||.||-.   ++.    |+...-+ + +.+++.+.|....   .+...++....    .-... +.-+++|-||.
T Consensus        72 rLQlWDTAGQER---Frs----lipsY~R-d-s~vaviVyDit~~~Sfe~t~kWi~dv~----~e~gs~~viI~LVGnKt  138 (221)
T KOG0094|consen   72 RLQLWDTAGQER---FRS----LIPSYIR-D-SSVAVIVYDITDRNSFENTSKWIEDVR----RERGSDDVIIFLVGNKT  138 (221)
T ss_pred             EEEEEecccHHH---Hhh----hhhhhcc-C-CeEEEEEEeccccchHHHHHHHHHHHH----hccCCCceEEEEEcccc
Confidence            456779999753   222    3332211 1 3466777777543   23344443332    22222 24567889999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~  271 (284)
                      ||+++. +...-              ++..+.           .+++ ..|+..||+.|.|+..|+..|...+|+-+..+
T Consensus       139 DL~dkr-qvs~e--------------Eg~~kA-----------kel~-a~f~etsak~g~NVk~lFrrIaa~l~~~~~~~  191 (221)
T KOG0094|consen  139 DLSDKR-QVSIE--------------EGERKA-----------KELN-AEFIETSAKAGENVKQLFRRIAAALPGMEVLE  191 (221)
T ss_pred             cccchh-hhhHH--------------HHHHHH-----------HHhC-cEEEEecccCCCCHHHHHHHHHHhccCccccc
Confidence            998765 32110              011111           2233 58999999999999999999999999987765

>PRK00090 bioD dithiobiotin synthetase; Reviewed

Probab=97.93  E-value=0.00032  Score=61.80  Aligned_cols=36  Identities=8%  Similarity=0.048  Sum_probs=30.8

Q ss_pred             EEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++|.|++  +|||+.+..|+.+|.++|++|.+  .-|.++
T Consensus         2 i~I~~t~t~~GKT~vs~~L~~~l~~~g~~v~~--~KPv~~   39 (222)
T PRK00090          2 LFVTGTDTDVGKTVVTAALAQALREAGYSVAG--YKPVQS   39 (222)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHHcCCceEE--EeeEec
Confidence            6788887  99999999999999999999877  455544

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.91  E-value=2e-05  Score=67.58  Aligned_cols=146  Identities=18%  Similarity=0.259  Sum_probs=76.7

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCc----ccCchhhhhh-
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGL----GPNGGLIYCM-   94 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~l----gPng~l~~~~-   94 (284)
                      +.+|.|.- |||||+..++.. ....|.|+.+|=.|-+...      +|-+       .+++.+.    ..||- +.|. 
T Consensus         2 v~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~------iD~~-------~l~~~~~~v~~l~~gc-icc~~   66 (178)
T PF02492_consen    2 VIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVN------IDAE-------LLQEDGVPVVELNNGC-ICCTL   66 (178)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTH------HHHH-------HHHTTT-EEEEECTTT-ESS-T
T ss_pred             EEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccc------cchh-------hhcccceEEEEecCCC-ccccc
Confidence            37889998 999999999998 6678999999977766532      1111       0111110    02322 2221 


Q ss_pred             -HhhhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHHHHHH
Q 023298           95 -EHLEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKFISGC  170 (284)
Q Consensus        95 -e~~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~i~~~  170 (284)
                       +-+...+    . ++....  +.+++||=|.|.......   .. ....+. ... ...++.++|+..+..... +...
T Consensus        67 ~~~~~~~l----~-~l~~~~~~~~d~IiIE~sG~a~p~~l---~~-~~~~~~~~~~-~~~iI~vVDa~~~~~~~~-~~~~  135 (178)
T PF02492_consen   67 RDDLVEAL----R-RLLREYEERPDRIIIETSGLADPAPL---IL-QDPPLKEDFR-LDSIITVVDATNFDELEN-IPEL  135 (178)
T ss_dssp             TS-HHHHH----H-HHCCCCHGC-SEEEEEEECSSGGGGH---HH-HSHHHHHHES-ESEEEEEEEGTTHGGHTT-HCHH
T ss_pred             HHHHHHHH----H-HHHHhcCCCcCEEEECCccccccchh---hh-cccccccccc-ccceeEEecccccccccc-chhh
Confidence             1122222    2 222211  458999999996654322   00 012232 122 246888999976632221 1111


Q ss_pred             HHHHHHHHhcCCCEEEEecCCccccch
Q 023298          171 MASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       171 l~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      +     ..+...--++|+||+|+++.+
T Consensus       136 ~-----~~Qi~~ADvIvlnK~D~~~~~  157 (178)
T PF02492_consen  136 L-----REQIAFADVIVLNKIDLVSDE  157 (178)
T ss_dssp             H-----HHHHCT-SEEEEE-GGGHHHH
T ss_pred             h-----hhcchhcCEEEEeccccCChh
Confidence            1     123445679999999998754

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.90  E-value=0.00016  Score=69.96  Aligned_cols=30  Identities=13%  Similarity=0.103  Sum_probs=24.6

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .+.-.|--.+-|+||- +|||||.++|...+
T Consensus        11 a~RT~G~IyIGvvGpvrtGKSTfIn~fm~q~   41 (492)
T TIGR02836        11 AERTQGDIYIGVVGPVRTGKSTFIKKFMELL   41 (492)
T ss_pred             HHHhCCcEEEEEEcCCCCChHHHHHHHHhhh
Confidence            3444566778999999 99999999999953

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.88  E-value=0.00013  Score=70.97  Aligned_cols=45  Identities=9%  Similarity=0.075  Sum_probs=34.9

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHHHh-c-CCceEEEecCcCC
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHCET-V-RRTMHIVNLDPAA   58 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~-~-g~~v~iVdLDPq~   58 (284)
                      ....+..++.++||. |||||++..|+..+.. . +.++.++-.|...
T Consensus       186 ~~~~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~r  233 (420)
T PRK14721        186 EIIEQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYR  233 (420)
T ss_pred             cccCCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcc
Confidence            344667789999999 9999999999986543 3 3678888877743

>KOG2825 consensus Putative arsenite-translocating ATPase [Inorganic ion transport and metabolism]

Probab=97.88  E-value=3.8e-05  Score=69.39  Aligned_cols=41  Identities=24%  Similarity=0.186  Sum_probs=38.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +| ++|=|.| |||||.+..||..+++.+.+|++|-.||+-+.
T Consensus        20 Kw-ifVGGKGGVGKTTcs~sLAvqla~~r~~vLiISTDPAHNl   61 (323)
T KOG2825|consen   20 KW-IFVGGKGGVGKTTCSCSLAVQLAKVRESVLIISTDPAHNL   61 (323)
T ss_pred             eE-EEEcCcCCcCccchhhHHHHHHhccCCceEEeecCcccch
Confidence            45 8899999 99999999999999999999999999999984

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.84  E-value=0.0003  Score=59.81  Aligned_cols=31  Identities=6%  Similarity=-0.032  Sum_probs=27.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEE
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHI   51 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~i   51 (284)
                      .++|.|+| |||||+|..+++.|...|++|--
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgG   38 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLREKGYKVGG   38 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcCceeee
Confidence            38999999 99999999999999999887643

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.83  E-value=4.8e-05  Score=65.45  Aligned_cols=43  Identities=9%  Similarity=-0.021  Sum_probs=38.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .++.++++.|.+ |||||++..|.+.|..+|+++.++|=|---.
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~   64 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRH   64 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhh
Confidence            356789999999 9999999999999999999999999886555

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.79  E-value=0.00015  Score=67.72  Aligned_cols=117  Identities=16%  Similarity=0.272  Sum_probs=70.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCC-CCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQF-ITDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~-~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +..-|+|+||+--          |+.. |..+..-+-.+++|.+.. +-+|...  ..|.++..+ . -+.+|.|=||+|
T Consensus        86 R~VSfVDaPGHe~----------LMATMLsGAAlMDgAlLvIaANEpcPQPQT~--EHl~AleIi-g-ik~iiIvQNKID  151 (415)
T COG5257          86 RRVSFVDAPGHET----------LMATMLSGAALMDGALLVIAANEPCPQPQTR--EHLMALEII-G-IKNIIIVQNKID  151 (415)
T ss_pred             EEEEEeeCCchHH----------HHHHHhcchhhhcceEEEEecCCCCCCCchH--HHHHHHhhh-c-cceEEEEecccc
Confidence            3578999999432          2222 221112245667787763 3333221  222222222 1 146788899999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      +++++..++.+.                        .|.++++-.  ....++|+||..+.|++.|++.|.+.+|.-+-
T Consensus       152 lV~~E~AlE~y~------------------------qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~r  206 (415)
T COG5257         152 LVSRERALENYE------------------------QIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPER  206 (415)
T ss_pred             eecHHHHHHHHH------------------------HHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCcc
Confidence            998763444332                        223333322  23579999999999999999999999986443

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=97.79  E-value=0.00036  Score=67.93  Aligned_cols=127  Identities=16%  Similarity=0.208  Sum_probs=73.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+-|+||||+..   +-...+++   |+-   .+-+++||||...- ....|+.      ...+..+++-|+|+||+|
T Consensus        67 ~~~INIvDTPGHAD---FGGEVERv---l~M---VDgvlLlVDA~EGpMPQTrFVl------kKAl~~gL~PIVVvNKiD  131 (603)
T COG1217          67 GTRINIVDTPGHAD---FGGEVERV---LSM---VDGVLLLVDASEGPMPQTRFVL------KKALALGLKPIVVINKID  131 (603)
T ss_pred             CeEEEEecCCCcCC---ccchhhhh---hhh---cceEEEEEEcccCCCCchhhhH------HHHHHcCCCcEEEEeCCC
Confidence            56789999999764   22222333   322   36788999998653 4456653      234467899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCc----------ccHHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKE----------SSIRYVLSQIDN  262 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~----------~~l~~Ll~~I~~  262 (284)
                      .-...  -.+... ..-+|+.++.-               --++.. ..++.-|+.+|          +++..|++.|.+
T Consensus       132 rp~Ar--p~~Vvd-~vfDLf~~L~A---------------~deQLd-FPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~  192 (603)
T COG1217         132 RPDAR--PDEVVD-EVFDLFVELGA---------------TDEQLD-FPIVYASARNGTASLDPEDEADDMAPLFETILD  192 (603)
T ss_pred             CCCCC--HHHHHH-HHHHHHHHhCC---------------ChhhCC-CcEEEeeccCceeccCccccccchhHHHHHHHH
Confidence            85432  222221 01122222211               001111 45677777665          468899999999


Q ss_pred             hcCCCCCCCCCCC
Q 023298          263 CIQWGEDADLKIK  275 (284)
Q Consensus       263 ~l~~g~d~~~~~~  275 (284)
                      ..|.-. .++++|
T Consensus       193 hvp~P~-~~~d~P  204 (603)
T COG1217         193 HVPAPK-GDLDEP  204 (603)
T ss_pred             hCCCCC-CCCCCC
Confidence            987633 444433

>PRK12289 GTPase RsgA; Reviewed

Probab=97.79  E-value=0.00011  Score=69.95  Aligned_cols=82  Identities=16%  Similarity=0.164  Sum_probs=53.5

Q ss_pred             CeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      .+++++++|+.... ++ ..+..++.   .....++|.|+|+||+|++... +...+.                      
T Consensus        90 vD~vLlV~d~~~p~~~~-~~LdR~L~---~a~~~~ip~ILVlNK~DLv~~~-~~~~~~----------------------  142 (352)
T PRK12289         90 ADQILLVFALAEPPLDP-WQLSRFLV---KAESTGLEIVLCLNKADLVSPT-EQQQWQ----------------------  142 (352)
T ss_pred             CCEEEEEEECCCCCCCH-HHHHHHHH---HHHHCCCCEEEEEEchhcCChH-HHHHHH----------------------
Confidence            46788899986432 22 12333322   1234689999999999997544 333332                      


Q ss_pred             HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          227 NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       227 ~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                           +.+...++ .++++||+++.|+++|++.+..
T Consensus       143 -----~~~~~~g~-~v~~iSA~tg~GI~eL~~~L~~  172 (352)
T PRK12289        143 -----DRLQQWGY-QPLFISVETGIGLEALLEQLRN  172 (352)
T ss_pred             -----HHHHhcCC-eEEEEEcCCCCCHHHHhhhhcc
Confidence                 11233444 7899999999999999988764

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.77  E-value=0.00012  Score=60.07  Aligned_cols=53  Identities=13%  Similarity=0.124  Sum_probs=33.5

Q ss_pred             HHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccch
Q 023298          138 FVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       138 l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      +.++++.   .+++++++|+... .+.+..+..++..   . ..++|+++|+||+|+..++
T Consensus         5 ~~~~i~~---aD~vl~ViD~~~p~~~~~~~l~~~l~~---~-~~~k~~iivlNK~DL~~~~   58 (141)
T cd01857           5 LWRVVER---SDIVVQIVDARNPLLFRPPDLERYVKE---V-DPRKKNILLLNKADLLTEE   58 (141)
T ss_pred             HHHHHhh---CCEEEEEEEccCCcccCCHHHHHHHHh---c-cCCCcEEEEEechhcCCHH
Confidence            3444544   4689999999754 3333344443321   1 1378999999999997543

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=97.77  E-value=0.00025  Score=64.39  Aligned_cols=26  Identities=15%  Similarity=0.082  Sum_probs=21.3

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      -...+..|+|+|.+ |||||+...|..
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg   53 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFG   53 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhC
Confidence            34455679999999 999999988775

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.76  E-value=4.3e-05  Score=63.75  Aligned_cols=38  Identities=13%  Similarity=0.065  Sum_probs=34.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++++|++ |||||++..|+.++...|.++..+|-|+...
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d~~r~   40 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVRH   40 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCHHHHH
Confidence            7899999 9999999999999998898999999887664

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.75  E-value=0.00016  Score=68.63  Aligned_cols=161  Identities=17%  Similarity=0.186  Sum_probs=82.2

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhh--hcCcccCchhh
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVME--ELGLGPNGGLI   91 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~--~~~lgPng~l~   91 (284)
                      -|..+..|+++|+= .||||+...|.+    ..+        | +-.++.+|..|-  ++.   +|.  +.+..|.++++
T Consensus        54 dfd~KPmill~GqyStGKTtfi~yLle----~dy--------p-g~riGpEPTtd~--Fi~---vM~G~~e~~ipGnal~  115 (532)
T KOG1954|consen   54 DFDAKPMILLVGQYSTGKTTFIRYLLE----QDY--------P-GLRIGPEPTTDR--FIA---VMHGDEEGSIPGNALV  115 (532)
T ss_pred             ccccCceEEEEeccccchhHHHHHHHh----CCC--------C-ccccCCCCCcce--eEE---EEecCcccccCCceee
Confidence            35555559999999 999999887765    222        1 112222221110  110   121  23455655554


Q ss_pred             hh-------hHhhhhcHHHH-HHHHhhccCCCCEEEEeCCCCcccccc-cchHHHHHHHHH-hcCCCeEEEEEecCCCCC
Q 023298           92 YC-------MEHLEDNLDDW-LAEELDNYLDDDYLVFDCPGQIELFTH-VPVLRNFVDHLK-SRNFNVCAVYLLDSQFIT  161 (284)
Q Consensus        92 ~~-------~e~~~~~~~~~-l~~~l~~~~~~~~viiDtPg~~e~~~~-~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~  161 (284)
                      .-       +..+...+... .-.++..-.=.++.||||||..+.--. .+-+.-+...++ =++..+.|++|.|+....
T Consensus       116 vd~~~pF~gL~~FG~aflnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLD  195 (532)
T KOG1954|consen  116 VDAKKPFRGLNKFGNAFLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLD  195 (532)
T ss_pred             ecCCCchhhhhhhHHHHHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhcc
Confidence            32       22222222111 111111101247899999998764211 111111222222 113357889999998763


Q ss_pred             CHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccch
Q 023298          162 DVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       162 ~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      =.++| +.+   +.++...+-.+=+|+||.|.++.+
T Consensus       196 IsdEf-~~v---i~aLkG~EdkiRVVLNKADqVdtq  227 (532)
T KOG1954|consen  196 ISDEF-KRV---IDALKGHEDKIRVVLNKADQVDTQ  227 (532)
T ss_pred             ccHHH-HHH---HHHhhCCcceeEEEeccccccCHH
Confidence            33333 222   234455667788999999998765

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.74  E-value=0.0002  Score=63.78  Aligned_cols=52  Identities=8%  Similarity=0.008  Sum_probs=42.5

Q ss_pred             eehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298            3 RYLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..||-+..|   =+.+...++|.|++ |||||+|..++....++|.+|+++.++-.
T Consensus        12 ~~LD~~l~g---G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~   64 (234)
T PRK06067         12 EELDRKLGG---GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT   64 (234)
T ss_pred             HHHHHhhCC---CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC
Confidence            346766553   26778889999999 99999999998877778999999999633

>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=97.72  E-value=0.00077  Score=57.18  Aligned_cols=38  Identities=13%  Similarity=0.137  Sum_probs=34.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++|.||+ +||||++..++...++.|.+|+++.++...+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~~   40 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPE   40 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCHH
Confidence            6899999 9999999999999999999999999876554

A related protein is found in archaea.

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=97.71  E-value=6.2e-05  Score=68.62  Aligned_cols=41  Identities=17%  Similarity=0.216  Sum_probs=37.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .+.|-|.| .||||++.||+..|+..|+||+.|-+||..+.+
T Consensus         2 ~IAiYGKGGIGKST~~~Nlsaala~~G~kVl~iGCDPK~DST   43 (273)
T PF00142_consen    2 KIAIYGKGGIGKSTTASNLSAALAEMGKKVLQIGCDPKADST   43 (273)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESSSSTSS
T ss_pred             eEEEEcCCCcccChhhhHHHHHHHhccceeeEecccCCCccc
Confidence            47899999 999999999999999999999999999999975

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=97.71  E-value=0.00021  Score=67.20  Aligned_cols=115  Identities=19%  Similarity=0.332  Sum_probs=64.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH--HHHHHHHHHHHHHHHhcCCCEEEE-ecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV--TKFISGCMASLSAMVQLELPHVNI-LSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~--~~~i~~~l~~l~~~~~~~~p~IlV-lNK  190 (284)
                      ...|-=+||||+..      ..+.|+.-...+|.   .+++|-+...--|  .+.+       ....+.+.++|+| +||
T Consensus       116 ~RhYaH~DCPGHAD------YIKNMItGaaqMDG---aILVVaatDG~MPQTrEHl-------LLArQVGV~~ivvfiNK  179 (449)
T KOG0460|consen  116 KRHYAHTDCPGHAD------YIKNMITGAAQMDG---AILVVAATDGPMPQTREHL-------LLARQVGVKHIVVFINK  179 (449)
T ss_pred             ccccccCCCCchHH------HHHHhhcCccccCc---eEEEEEcCCCCCcchHHHH-------HHHHHcCCceEEEEEec
Confidence            55788899999643      23333221112343   3444433322122  2221       1123678888777 899


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCc----eEEE---EeccCc-------ccHHHH
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMV----SFMP---LDLRKE-------SSIRYV  256 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~----~~ip---iSa~~~-------~~l~~L  256 (284)
                      .|++.+. ++.+..+.                      .+-+++.+|+|.    .++-   ++|+.|       +.+..|
T Consensus       180 vD~V~d~-e~leLVEm----------------------E~RElLse~gf~Gd~~PvI~GSAL~ALeg~~peig~~aI~kL  236 (449)
T KOG0460|consen  180 VDLVDDP-EMLELVEM----------------------EIRELLSEFGFDGDNTPVIRGSALCALEGRQPEIGLEAIEKL  236 (449)
T ss_pred             ccccCCH-HHHHHHHH----------------------HHHHHHHHcCCCCCCCCeeecchhhhhcCCCccccHHHHHHH
Confidence            9999766 56555531                      234556677762    2443   455555       447888


Q ss_pred             HHHHHHhcCCC
Q 023298          257 LSQIDNCIQWG  267 (284)
Q Consensus       257 l~~I~~~l~~g  267 (284)
                      ++++|+++|.-
T Consensus       237 ldavDsyip~P  247 (449)
T KOG0460|consen  237 LDAVDSYIPTP  247 (449)
T ss_pred             HHHHhccCCCc
Confidence            88888887753

>PF13479 AAA_24: AAA domain

Probab=97.68  E-value=0.00014  Score=64.13  Aligned_cols=36  Identities=14%  Similarity=0.385  Sum_probs=31.1

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      ++..++|.|++ +||||++..+        -++++||+|.+...+
T Consensus         2 ~~~~~lIyG~~G~GKTt~a~~~--------~k~l~id~E~g~~~~   38 (213)
T PF13479_consen    2 KPIKILIYGPPGSGKTTLAASL--------PKPLFIDTENGSDSL   38 (213)
T ss_pred             CceEEEEECCCCCCHHHHHHhC--------CCeEEEEeCCCccch
Confidence            46779999999 9999999988        589999999996543

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.67  E-value=7e-05  Score=63.66  Aligned_cols=43  Identities=12%  Similarity=0.080  Sum_probs=38.0

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |.|..++..++++|++ |||||++..|+..|...+..+.++|-|
T Consensus         1 ~~~~~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~~d   44 (176)
T PRK05541          1 MQMKPNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGD   44 (176)
T ss_pred             CCCCCCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEecH
Confidence            5678889999999999 999999999999999888888888644

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=97.65  E-value=6.6e-05  Score=69.10  Aligned_cols=39  Identities=8%  Similarity=0.041  Sum_probs=35.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      |+++.|+|++ ||||||+.+|+..|.++| +|.+|+-||..
T Consensus         1 M~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~h~   40 (274)
T PRK14493          1 MKVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKHMDTE   40 (274)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEEcCCC
Confidence            3568899999 999999999999999999 89999999954

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.62  E-value=0.00074  Score=57.88  Aligned_cols=121  Identities=13%  Similarity=0.127  Sum_probs=67.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHH-HHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLS-AMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~-~~~~~~~p~IlVlNK~D  192 (284)
                      .....++|--||-+.       +.|-+..-  .....++|+||+..-.+-.+ ..+.+..+. .-..-+.|.+...||-|
T Consensus        68 ~~~l~fwdlgGQe~l-------rSlw~~yY--~~~H~ii~viDa~~~eR~~~-~~t~~~~v~~~E~leg~p~L~lankqd  137 (197)
T KOG0076|consen   68 NAPLSFWDLGGQESL-------RSLWKKYY--WLAHGIIYVIDATDRERFEE-SKTAFEKVVENEKLEGAPVLVLANKQD  137 (197)
T ss_pred             cceeEEEEcCChHHH-------HHHHHHHH--HHhceeEEeecCCCHHHHHH-HHHHHHHHHHHHHhcCCchhhhcchhh
Confidence            446789999997652       11212111  11357999999974221111 112222211 12335899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +-... +..+.-     ..++.                ++.+. -.--.|.||||.+|+|+++=..-+.+.++..
T Consensus       138 ~q~~~-~~~El~-----~~~~~----------------~e~~~-~rd~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  138 LQNAM-EAAELD-----GVFGL----------------AELIP-RRDNPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhhhh-hHHHHH-----HHhhh----------------hhhcC-CccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence            85432 222211     00000                11111 1124699999999999999888888777665

>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=97.60  E-value=0.00062  Score=55.20  Aligned_cols=31  Identities=19%  Similarity=0.360  Sum_probs=24.7

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .++++||+ |||||++..++..+.     ..+|+.|-
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~-----~~~i~~D~   32 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG-----AVVISQDE   32 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST-----EEEEEHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC-----CEEEeHHH
Confidence            37899999 999999999987543     55666665

...

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.60  E-value=0.0012  Score=58.28  Aligned_cols=43  Identities=9%  Similarity=0.131  Sum_probs=34.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq~   58 (284)
                      +.....++|.|++ +|||++|..++...+++ |.+|++|.++-..
T Consensus        16 ip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~   60 (226)
T PF06745_consen   16 IPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP   60 (226)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H
T ss_pred             CCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH
Confidence            5667779999999 99999999999887777 9999999986544

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 ....

>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=97.58  E-value=8.4e-05  Score=58.81  Aligned_cols=31  Identities=19%  Similarity=0.361  Sum_probs=24.5

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +|+|.|++ |||||+|+.|++.+   |.  .++++|-
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~---~~--~~i~~d~   32 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL---GF--PVISMDD   32 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH---TC--EEEEEHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH---CC--eEEEecc
Confidence            48999999 99999999999976   33  3445554

...

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.53  E-value=0.00015  Score=61.51  Aligned_cols=41  Identities=10%  Similarity=0.060  Sum_probs=36.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ...++++|++ |||||++..|+..+...|.++.++|-|....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~~~~   45 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDAVRT   45 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCccHHH
Confidence            3468999999 9999999999999998898999999986543

>PRK07667 uridine kinase; Provisional

Probab=97.52  E-value=0.00017  Score=62.71  Aligned_cols=40  Identities=15%  Similarity=0.198  Sum_probs=36.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .+...|.|-|++ |||||+|..|++.|...|.++.+|.+|.
T Consensus        15 ~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd   55 (193)
T PRK07667         15 ENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD   55 (193)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence            455778899999 9999999999999999999999999996

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.52  E-value=0.00075  Score=58.51  Aligned_cols=116  Identities=15%  Similarity=0.168  Sum_probs=66.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.=|.||.||-...       .+.++.-+ + ..-++++.|..   +.+.|  +.+||.-+.+....+..++++-||+|+
T Consensus        56 KlqiwDtaGqe~fr-------sv~~syYr-~-a~GalLVydit---~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL  123 (216)
T KOG0098|consen   56 KLQIWDTAGQESFR-------SVTRSYYR-G-AAGALLVYDIT---RRESFNHLTSWLEDARQHSNENMVIMLIGNKSDL  123 (216)
T ss_pred             EEEEEecCCcHHHH-------HHHHHHhc-c-CcceEEEEEcc---chhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhh
Confidence            45788999975411       13333311 0 12244555654   33334  566666555555567888999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHH----HHhcCCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQI----DNCIQWGED  269 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I----~~~l~~g~d  269 (284)
                      ..++ ++.+-               .+          ..+.+++++. |...||++++|+++.+..+    .+.++.|--
T Consensus       124 ~~rR-~Vs~E---------------EG----------eaFA~ehgLi-fmETSakt~~~VEEaF~nta~~Iy~~~q~g~~  176 (216)
T KOG0098|consen  124 EARR-EVSKE---------------EG----------EAFAREHGLI-FMETSAKTAENVEEAFINTAKEIYRKIQDGVF  176 (216)
T ss_pred             hccc-cccHH---------------HH----------HHHHHHcCce-eehhhhhhhhhHHHHHHHHHHHHHHHHHhccc
Confidence            7654 33110               00          1112456644 4489999999999887644    444555443


Q ss_pred             C
Q 023298          270 A  270 (284)
Q Consensus       270 ~  270 (284)
                      .
T Consensus       177 ~  177 (216)
T KOG0098|consen  177 D  177 (216)
T ss_pred             c
Confidence            3

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.51  E-value=0.00053  Score=57.39  Aligned_cols=109  Identities=13%  Similarity=0.261  Sum_probs=64.6

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.=+.||.|+-- +      +.+... ...   +...+++.|...   .+.|  +..+...+....-.+.|+|+|-||||
T Consensus        71 klQiwDTagqEr-y------rtiTTayyRg---amgfiLmyDitN---eeSf~svqdw~tqIktysw~naqvilvgnKCD  137 (193)
T KOG0093|consen   71 KLQIWDTAGQER-Y------RTITTAYYRG---AMGFILMYDITN---EESFNSVQDWITQIKTYSWDNAQVILVGNKCD  137 (193)
T ss_pred             EEEEEecccchh-h------hHHHHHHhhc---cceEEEEEecCC---HHHHHHHHHHHHHheeeeccCceEEEEecccC
Confidence            567889999643 1      112111 111   345677888753   3333  33443333344557899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +-+.+ .+    ..              ++-       ..+.++.|| .|+.-||+.+.|++.++..+...+
T Consensus       138 md~eR-vi----s~--------------e~g-------~~l~~~LGf-efFEtSaK~NinVk~~Fe~lv~~I  182 (193)
T KOG0093|consen  138 MDSER-VI----SH--------------ERG-------RQLADQLGF-EFFETSAKENINVKQVFERLVDII  182 (193)
T ss_pred             Cccce-ee----eH--------------HHH-------HHHHHHhCh-HHhhhcccccccHHHHHHHHHHHH
Confidence            84432 11    10              011       233355554 788899999999999888766554

>TIGR02012 tigrfam_recA protein RecA

Probab=97.50  E-value=0.00049  Score=64.71  Aligned_cols=49  Identities=18%  Similarity=0.209  Sum_probs=39.6

Q ss_pred             hhhhhh-cccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            5 LDLLCK-GYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~-~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ||.++. |   =+..-+++.|.||+ |||||||.+++...++.|.+|++||..-
T Consensus        43 LD~~Lg~G---Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~   93 (321)
T TIGR02012        43 LDLALGVG---GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   93 (321)
T ss_pred             HHHHhcCC---CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccc
Confidence            555553 2   23455678899999 9999999999999999999999998753

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.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.50  E-value=0.00088  Score=64.77  Aligned_cols=110  Identities=14%  Similarity=0.198  Sum_probs=71.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCCCCH--HHHHHHHHHHHHHHHhcCCCE-EEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFITDV--TKFISGCMASLSAMVQLELPH-VNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~~~~--~~~i~~~l~~l~~~~~~~~p~-IlVlN  189 (284)
                      ++-..|||.||+-+          +++.+ ..+...+.++++||+.....+  .+.+       ..+-.++.+. ++|+|
T Consensus        49 d~~~~fIDvpgh~~----------~i~~miag~~~~d~alLvV~~deGl~~qtgEhL-------~iLdllgi~~giivlt  111 (447)
T COG3276          49 DGVMGFIDVPGHPD----------FISNLLAGLGGIDYALLVVAADEGLMAQTGEHL-------LILDLLGIKNGIIVLT  111 (447)
T ss_pred             CCceEEeeCCCcHH----------HHHHHHhhhcCCceEEEEEeCccCcchhhHHHH-------HHHHhcCCCceEEEEe
Confidence            45789999999543          33333 344455778899998533222  2222       2233567777 99999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+|..... .++...+                       .|.+.+. +.-.++++.|+.+|+|+++|-+.|.+.+.
T Consensus       112 k~D~~d~~-r~e~~i~-----------------------~Il~~l~-l~~~~i~~~s~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276         112 KADRVDEA-RIEQKIK-----------------------QILADLS-LANAKIFKTSAKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             ccccccHH-HHHHHHH-----------------------HHHhhcc-cccccccccccccCCCHHHHHHHHHHhhh
Confidence            99998654 3433321                       1111112 33367899999999999999999999885

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=97.49  E-value=0.00072  Score=57.23  Aligned_cols=113  Identities=14%  Similarity=0.238  Sum_probs=71.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.+.-|-||.||-.   ++.+++..   ...   +.-++++.|..   +.+.|  +.+|...+..|+....-.+.|-||+
T Consensus        61 ra~L~IWDTAGQEr---fHALGPIY---YRg---SnGalLVyDIT---DrdSFqKVKnWV~Elr~mlGnei~l~IVGNKi  128 (218)
T KOG0088|consen   61 RADLHIWDTAGQER---FHALGPIY---YRG---SNGALLVYDIT---DRDSFQKVKNWVLELRTMLGNEIELLIVGNKI  128 (218)
T ss_pred             eeeeeeeeccchHh---hhccCceE---EeC---CCceEEEEecc---chHHHHHHHHHHHHHHHHhCCeeEEEEecCcc
Confidence            56889999999864   33444311   111   12355566653   55556  7889999999998889999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+-... .+- ..+        +                ..+.+..+ ..++.-||+++.|+.+|+..+-..+-
T Consensus       129 DLEeeR-~Vt-~qe--------A----------------e~YAesvG-A~y~eTSAk~N~Gi~elFe~Lt~~Mi  175 (218)
T KOG0088|consen  129 DLEEER-QVT-RQE--------A----------------EAYAESVG-ALYMETSAKDNVGISELFESLTAKMI  175 (218)
T ss_pred             cHHHhh-hhh-HHH--------H----------------HHHHHhhc-hhheecccccccCHHHHHHHHHHHHH
Confidence            984322 110 000        0                00111112 45677899999999999887665443

>cd01394 radB RadB

Probab=97.49  E-value=0.00021  Score=62.79  Aligned_cols=53  Identities=15%  Similarity=0.214  Sum_probs=42.9

Q ss_pred             eehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298            3 RYLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +-||-++.|   =+..-..+.|.|++ |||||+|..++..++..|.+|++++.+...
T Consensus         6 ~~LD~~l~G---Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~~   59 (218)
T cd01394           6 KGLDELLGG---GVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLS   59 (218)
T ss_pred             hHHHHHhcC---CccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCCC
Confidence            346666643   24566779999999 999999999999999999999999987543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.49  E-value=0.0042  Score=55.60  Aligned_cols=49  Identities=12%  Similarity=0.137  Sum_probs=39.8

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ||-+..|   -+.....++|.|+| |||||+|..++....+.|.++++|.++-
T Consensus        10 LD~~l~G---G~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee   59 (237)
T TIGR03877        10 MDEILHG---GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE   59 (237)
T ss_pred             HHHHhcC---CCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC
Confidence            5554333   35667889999999 9999999999888778899999998764

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.

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.46  E-value=0.00058  Score=57.27  Aligned_cols=109  Identities=10%  Similarity=0.215  Sum_probs=61.6

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      +.-|-||.||-.   +++    +.++.-+.  ...++++.|.++.-+- +-+-.|+..+....+.+.-.|+|-||+|+-.
T Consensus        57 klqiwdtagqer---frs----itqsyyrs--ahalilvydiscqpsf-dclpewlreie~yan~kvlkilvgnk~d~~d  126 (213)
T KOG0095|consen   57 KLQIWDTAGQER---FRS----ITQSYYRS--AHALILVYDISCQPSF-DCLPEWLREIEQYANNKVLKILVGNKIDLAD  126 (213)
T ss_pred             EEEEeeccchHH---HHH----HHHHHhhh--cceEEEEEecccCcch-hhhHHHHHHHHHHhhcceEEEeeccccchhh
Confidence            456889999753   222    22322111  1235556666543211 1145667777777787888899999999876


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      ++ ++-..+.++                          +.+.-..-|+.-||++-+|++.|+..+.
T Consensus       127 rr-evp~qigee--------------------------fs~~qdmyfletsakea~nve~lf~~~a  165 (213)
T KOG0095|consen  127 RR-EVPQQIGEE--------------------------FSEAQDMYFLETSAKEADNVEKLFLDLA  165 (213)
T ss_pred             hh-hhhHHHHHH--------------------------HHHhhhhhhhhhcccchhhHHHHHHHHH
Confidence            54 342222110                          0111122355667888888888877654

>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=97.46  E-value=0.00015  Score=62.36  Aligned_cols=34  Identities=15%  Similarity=0.245  Sum_probs=32.1

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +.|.|++ |||||+|..|+..+...|.++.+|.+|
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~D   36 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLD   36 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehh
Confidence            6899999 999999999999999999999999888

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK00098 GTPase RsgA; Reviewed

Probab=97.46  E-value=0.00061  Score=63.32  Aligned_cols=83  Identities=13%  Similarity=0.173  Sum_probs=51.3

Q ss_pred             CeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHH
Q 023298          148 NVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLN  227 (284)
Q Consensus       148 ~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~  227 (284)
                      .+++++++|+.........+..++.   .....++|.++|+||+|+..+......+.                       
T Consensus        81 iD~vllV~d~~~p~~~~~~idr~L~---~~~~~~ip~iIVlNK~DL~~~~~~~~~~~-----------------------  134 (298)
T PRK00098         81 VDQAVLVFAAKEPDFSTDLLDRFLV---LAEANGIKPIIVLNKIDLLDDLEEARELL-----------------------  134 (298)
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHH---HHHHCCCCEEEEEEhHHcCCCHHHHHHHH-----------------------
Confidence            4678889998643221222333322   22356899999999999863321111111                       


Q ss_pred             HHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          228 KSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       228 ~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                          +.....+ ..++++||++++|+++|.+.+.
T Consensus       135 ----~~~~~~g-~~v~~vSA~~g~gi~~L~~~l~  163 (298)
T PRK00098        135 ----ALYRAIG-YDVLELSAKEGEGLDELKPLLA  163 (298)
T ss_pred             ----HHHHHCC-CeEEEEeCCCCccHHHHHhhcc
Confidence                1122333 4789999999999999988764

>PRK06696 uridine kinase; Validated

Probab=97.46  E-value=0.0002  Score=63.51  Aligned_cols=40  Identities=13%  Similarity=0.140  Sum_probs=35.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      -.+|..|.|-|++ |||||++..|++.|...|.+++.+.+|
T Consensus        19 ~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~D   59 (223)
T PRK06696         19 LTRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASID   59 (223)
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccc
Confidence            4478889999999 999999999999998889888887766

>PRK13796 GTPase YqeH; Provisional

Probab=97.45  E-value=0.0012  Score=63.15  Aligned_cols=84  Identities=20%  Similarity=0.301  Sum_probs=52.7

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchh---hhhhhcCcchHHHHHHhhhcchhHHHH
Q 023298          149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKK---EIEDYLNPESQFLLSELNQHMAPQFAK  225 (284)
Q Consensus       149 ~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~---~l~~~l~~~~~~l~~~l~~~~~~~~~~  225 (284)
                      .++++++|+....  ..+...    +.... .++|.++|+||+|++.+..   .+.+|+                     
T Consensus        71 ~lIv~VVD~~D~~--~s~~~~----L~~~~-~~kpviLViNK~DLl~~~~~~~~i~~~l---------------------  122 (365)
T PRK13796         71 ALVVNVVDIFDFN--GSWIPG----LHRFV-GNNPVLLVGNKADLLPKSVKKNKVKNWL---------------------  122 (365)
T ss_pred             cEEEEEEECccCC--CchhHH----HHHHh-CCCCEEEEEEchhhCCCccCHHHHHHHH---------------------
Confidence            4899999986432  111111    11111 2689999999999975320   111121                     


Q ss_pred             HHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          226 LNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       226 l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                           ......++.  ..++++||+++.|+++|++.|.+..+
T Consensus       123 -----~~~~k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~~~  159 (365)
T PRK13796        123 -----RQEAKELGLRPVDVVLISAQKGHGIDELLEAIEKYRE  159 (365)
T ss_pred             -----HHHHHhcCCCcCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence                 112233443  47999999999999999999987643

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.45  E-value=0.002  Score=61.30  Aligned_cols=82  Identities=16%  Similarity=0.262  Sum_probs=47.7

Q ss_pred             CEEEEeCCCCccccc----ccchHHHH----HHHHH--------hc--CCCeEEEEEecCCCC-CCHHHHHHHHHHHHHH
Q 023298          116 DYLVFDCPGQIELFT----HVPVLRNF----VDHLK--------SR--NFNVCAVYLLDSQFI-TDVTKFISGCMASLSA  176 (284)
Q Consensus       116 ~~viiDtPg~~e~~~----~~~~~~~l----~~~l~--------~~--d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~  176 (284)
                      ...+|||||.-....    |....+.+    -+.|.        +.  ....+|+|+|....- .+|-+. ..+ +    
T Consensus        80 ~LtvidtPGfGD~vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di-~~M-k----  153 (366)
T KOG2655|consen   80 NLTVIDTPGFGDAVDNSNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDI-EFM-K----  153 (366)
T ss_pred             eeEEeccCCCcccccccccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhH-HHH-H----
Confidence            578999999755433    33333222    11221        11  245789999976533 556552 111 1    


Q ss_pred             HHhcCCCEEEEecCCccccchhhhhhhc
Q 023298          177 MVQLELPHVNILSKMDLVTNKKEIEDYL  204 (284)
Q Consensus       177 ~~~~~~p~IlVlNK~Dll~~~~~l~~~l  204 (284)
                      -+......|.||-|+|.+.+. ++..+.
T Consensus       154 ~l~~~vNiIPVI~KaD~lT~~-El~~~K  180 (366)
T KOG2655|consen  154 KLSKKVNLIPVIAKADTLTKD-ELNQFK  180 (366)
T ss_pred             HHhccccccceeeccccCCHH-HHHHHH
Confidence            123467899999999998866 665554

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=97.43  E-value=0.00037  Score=66.21  Aligned_cols=99  Identities=17%  Similarity=0.219  Sum_probs=65.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      +=++|-| ||||||...++.             .+.+...+|+.                  .+-||-++++.-+.-.  
T Consensus         5 ~GIVGlPNVGKSTlFnAlT~-------------~~a~~aNYPF~------------------TIePN~Giv~v~d~rl--   51 (372)
T COG0012           5 IGIVGLPNVGKSTLFNALTK-------------AGAEIANYPFC------------------TIEPNVGVVYVPDCRL--   51 (372)
T ss_pred             eEEecCCCCcHHHHHHHHHc-------------CCccccCCCcc------------------cccCCeeEEecCchHH--
Confidence            4589999 999999999988             44344455552                  2337877766433111  


Q ss_pred             HHHHHHHHhh-c--cCCCCEEEEeCCCCcccc-cccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298          101 LDDWLAEELD-N--YLDDDYLVFDCPGQIELF-THVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus       101 ~~~~l~~~l~-~--~~~~~~viiDtPg~~e~~-~~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                        +.|.+..+ .  .....+=|+|.+|.+... ..+.+|++|+..+...   ++++++||+.
T Consensus        52 --~~L~~~~~c~~k~~~~~ve~vDIAGLV~GAs~GeGLGNkFL~~IRev---daI~hVVr~f  108 (372)
T COG0012          52 --DELAEIVKCPPKIRPAPVEFVDIAGLVKGASKGEGLGNKFLDNIREV---DAIIHVVRCF  108 (372)
T ss_pred             --HHHHHhcCCCCcEEeeeeEEEEecccCCCcccCCCcchHHHHhhhhc---CeEEEEEEec
Confidence              11221111 0  003467899999998874 4678899999999763   6899999986

>TIGR00092 GTP-binding protein YchF

Probab=97.40  E-value=0.00065  Score=64.96  Aligned_cols=99  Identities=15%  Similarity=0.121  Sum_probs=61.3

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc-CCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP-AAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP-q~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      +-++|.| |||||+...|+..             .+ ....+|+.                  .+.||-+.+..-+.   
T Consensus         5 ~GivGlPn~GKSTlfnaLT~~-------------~~~~~a~ypft------------------Ti~p~~g~v~v~d~---   50 (368)
T TIGR00092         5 GGIVGLPNVGKSTLFAATTNL-------------LGNEAANPPFT------------------TIEPNAGVVNPSDP---   50 (368)
T ss_pred             EEEECCCCCChHHHHHHHhCC-------------CccccCCCCCC------------------CCCCceeEEEechh---
Confidence            6789999 9999999988872             22 22333332                  12255444332110   


Q ss_pred             cHHHHHHHHhhccC--CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298          100 NLDDWLAEELDNYL--DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus       100 ~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                      .+ ++|.+.....+  ...+.++|.||.++... ....+++++.+++..   +++++++++.
T Consensus        51 r~-d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs~g~Glgn~fL~~ir~~---d~l~hVvr~f  108 (368)
T TIGR00092        51 RL-DLLAIYIKPEKVPPTTTEFVDIAGLVGGASKGEGLGNQFLANIREV---DIIQHVVRCF  108 (368)
T ss_pred             HH-HHHHHHhCCcCcCCceEEEEeccccccchhcccCcchHHHHHHHhC---CEEEEEEeCC
Confidence            11 33433332211  45789999999988643 345678899998763   6789999874

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=97.39  E-value=0.0015  Score=57.34  Aligned_cols=71  Identities=10%  Similarity=0.027  Sum_probs=40.7

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH------------------
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM------------------  177 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~------------------  177 (284)
                      .+-+.||+|+.+.       ..+....-.  -.+++++++|.+...+-.. +..|+..+...                  
T Consensus        55 ~l~IwDtaG~e~~-------~~l~~~~yr--~ad~iIlVyDvtn~~Sf~~-l~~W~~ei~~~~~~~~~~~~~~~~~~~~~  124 (202)
T cd04102          55 FVELWDVGGSESV-------KSTRAVFYN--QVNGIILVHDLTNRKSSQN-LQRWSLEALNKDTFPTGLLVTNGDYDSEQ  124 (202)
T ss_pred             EEEEEecCCchhH-------HHHHHHHhC--cCCEEEEEEECcChHHHHH-HHHHHHHHHHhhccccccccccccccccc
Confidence            5678999998542       112222211  1367888999864422222 44444433221                  


Q ss_pred             -HhcCCCEEEEecCCccccc
Q 023298          178 -VQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       178 -~~~~~p~IlVlNK~Dll~~  196 (284)
                       ...+.|+++|-||+|+...
T Consensus       125 ~~~~~~PiilVGnK~Dl~~~  144 (202)
T cd04102         125 FGGNQIPLLVIGTKLDQIPE  144 (202)
T ss_pred             cCCCCceEEEEEECccchhh
Confidence             1135899999999998653

RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

Probab=97.39  E-value=0.0002  Score=64.16  Aligned_cols=42  Identities=19%  Similarity=0.226  Sum_probs=39.2

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      +.+.|-|.| -||||+++|++..|+..|++|++|-+||.+..+
T Consensus         2 r~iAiYGKGGIGKSTts~N~aAAla~~GkkVl~vGCDPKaDST   44 (278)
T COG1348           2 RQIAIYGKGGIGKSTTSQNLAAALAELGKKVLIVGCDPKADST   44 (278)
T ss_pred             ceEEEecCCCcCcchhHHHHHHHHHHcCCeEEEEcCCCCcchH
Confidence            457899999 999999999999999999999999999999854

>PRK04328 hypothetical protein; Provisional

Probab=97.38  E-value=0.006  Score=55.14  Aligned_cols=50  Identities=12%  Similarity=0.091  Sum_probs=40.7

Q ss_pred             ehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            4 YLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      -||-++.|-   +.....++|.|++ +||||+|..++....+.|.++++|+++-
T Consensus        11 ~LD~lL~GG---ip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee   61 (249)
T PRK04328         11 GMDEILYGG---IPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEE   61 (249)
T ss_pred             hHHHHhcCC---CcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeC
Confidence            466655442   4566779999999 9999999999988778899999999864

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.37  E-value=0.00038  Score=60.62  Aligned_cols=49  Identities=16%  Similarity=0.313  Sum_probs=39.9

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ||-++.|   =+..-..+.|.||+ |||||+|..++......|.+|++|+.+-
T Consensus         1 lD~~l~G---Gi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~   50 (209)
T TIGR02237         1 IDELLGG---GVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG   50 (209)
T ss_pred             ChhhhcC---CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            3444444   24455678999999 9999999999999988999999999973

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

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.36  E-value=0.0014  Score=59.29  Aligned_cols=81  Identities=9%  Similarity=0.254  Sum_probs=50.5

Q ss_pred             eEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhh-hhcCcchHHHHHHhhhcchhHHHHH
Q 023298          149 VCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIE-DYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       149 ~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~-~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      +.++.++|+.... +. ..+..++.   .....+.|.++|+||+|+.... ... ++                       
T Consensus        38 D~viiV~d~~~p~~s~-~~l~r~l~---~~~~~~i~~vIV~NK~DL~~~~-~~~~~~-----------------------   89 (245)
T TIGR00157        38 DQIVIVSSAVLPELSL-NQLDRFLV---VAEAQNIEPIIVLNKIDLLDDE-DMEKEQ-----------------------   89 (245)
T ss_pred             CEEEEEEECCCCCCCH-HHHHHHHH---HHHHCCCCEEEEEECcccCCCH-HHHHHH-----------------------
Confidence            5677777775332 22 22444432   2234689999999999996533 221 11                       


Q ss_pred             HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          227 NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       227 ~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                          .+.+...+ ..++.+||++|+|+++|++.+.+
T Consensus        90 ----~~~~~~~g-~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        90 ----LDIYRNIG-YQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             ----HHHHHHCC-CeEEEEecCCchhHHHHHhhhcC
Confidence                11122333 47899999999999999987753

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.34  E-value=0.00019  Score=56.18  Aligned_cols=41  Identities=15%  Similarity=0.229  Sum_probs=35.1

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ..++++||+ |||||++..++..+...+..+..++.+.....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~   44 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEE   44 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEcccc
Confidence            458999999 99999999999988877777888888876654

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.33  E-value=0.00025  Score=63.86  Aligned_cols=35  Identities=17%  Similarity=0.183  Sum_probs=32.3

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      |+++|++ |||||++..|++++...|.++.+++.|.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~   37 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDL   37 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHH
Confidence            7899999 9999999999999998899999998764

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.

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=97.31  E-value=0.00044  Score=58.60  Aligned_cols=40  Identities=8%  Similarity=0.061  Sum_probs=35.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +.++.|+|+. |||||++.+|...|...|++|.+|..|+..
T Consensus         1 m~vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~~~~   41 (159)
T cd03116           1 MKVIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHDHHD   41 (159)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEecCCc
Confidence            3568899999 999999999999999999999999887664

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.29  E-value=0.00042  Score=60.57  Aligned_cols=39  Identities=13%  Similarity=0.208  Sum_probs=33.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      .++..|.|.|++ |||||++..|+..+  .+.++.+++.|.-
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l--~~~~~~~i~~D~~   43 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL--GDESIAVIPQDSY   43 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh--CCCceEEEeCCcc
Confidence            467889999999 99999999999987  4567889999864

>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=97.29  E-value=0.0048  Score=53.61  Aligned_cols=116  Identities=9%  Similarity=0.209  Sum_probs=56.8

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCME   95 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e   95 (284)
                      ..|..+++.|++ |||||+...+...+.  +.....||.|-=....|-           ..+++..   +|.-....+-.
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~--~~~~v~i~~D~~r~~~p~-----------~~~~~~~---~~~~~~~~~~~   76 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFG--GGGIVVIDADEFRQFHPD-----------YDELLKA---DPDEASELTQK   76 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT---TT-SEEE-GGGGGGGSTT-----------HHHHHHH---HCCCTHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhcc--CCCeEEEehHHHHHhccc-----------hhhhhhh---hhhhhHHHHHH
Confidence            789999999999 999999999888665  667888888765443321           1222221   12111111100


Q ss_pred             hhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecC
Q 023298           96 HLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDS  157 (284)
Q Consensus        96 ~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa  157 (284)
                      ....-.+..+...++   +..-+++||+..     +......+++.+++.++. +.++.+.+
T Consensus        77 ~a~~~~~~~~~~a~~---~~~nii~E~tl~-----~~~~~~~~~~~~k~~GY~-v~l~~v~~  129 (199)
T PF06414_consen   77 EASRLAEKLIEYAIE---NRYNIIFEGTLS-----NPSKLRKLIREAKAAGYK-VELYYVAV  129 (199)
T ss_dssp             HHHHHHHHHHHHHHH---CT--EEEE--TT-----SSHHHHHHHHHHHCTT-E-EEEEEE--
T ss_pred             HHHHHHHHHHHHHHH---cCCCEEEecCCC-----ChhHHHHHHHHHHcCCce-EEEEEEEC
Confidence            000011112333343   334577798773     333345577888777776 56666765

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=97.29  E-value=0.00042  Score=60.26  Aligned_cols=44  Identities=11%  Similarity=-0.001  Sum_probs=39.1

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      -++|..+.++|++ |||||++..|+..|...|..+.++|-|+-..
T Consensus        21 ~~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~~~   65 (198)
T PRK03846         21 GHKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNVRH   65 (198)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeHHh
Confidence            3788899999999 9999999999999988899899999887653

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=97.28  E-value=0.0069  Score=53.42  Aligned_cols=41  Identities=7%  Similarity=0.047  Sum_probs=35.5

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +.....++|.|++ +|||++|..++....++|.+|++|+++-
T Consensus        13 i~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~   54 (224)
T TIGR03880        13 FPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE   54 (224)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            3445678999999 9999999999998888899999999875

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.

>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=97.27  E-value=0.00048  Score=49.88  Aligned_cols=31  Identities=13%  Similarity=0.140  Sum_probs=26.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      +++.|++ |||||++..|++.+  .++++.+++-
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i~~   33 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL--GGRSVVVLDE   33 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh--cCCCEEEEeE
Confidence            6789999 99999999999998  5677777754

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.

>PRK06762 hypothetical protein; Provisional

Probab=97.26  E-value=0.00034  Score=58.68  Aligned_cols=34  Identities=15%  Similarity=0.165  Sum_probs=27.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |..+++.|++ |||||++..|++.+   +..+.+++.|
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~~D   36 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL---GRGTLLVSQD   36 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh---CCCeEEecHH
Confidence            5678999999 99999999999987   4456677644

>PRK12374 putative dithiobiotin synthetase; Provisional

Probab=97.26  E-value=0.011  Score=52.64  Aligned_cols=38  Identities=11%  Similarity=0.094  Sum_probs=33.6

Q ss_pred             EEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           21 IKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        21 ~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      .++|.|++  +|||+.+..|++.|.++|++|.++  -|.++.
T Consensus         4 ~ifIt~t~t~vGKT~vt~~L~~~l~~~g~~v~~~--KPi~~g   43 (231)
T PRK12374          4 RFFITGTDTSVGKTVVSRALLQALASQGKTVAGY--KPVAKG   43 (231)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE--CccccC
Confidence            48899987  999999999999999999999885  777654

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.26  E-value=0.0024  Score=60.94  Aligned_cols=86  Identities=17%  Similarity=0.230  Sum_probs=53.1

Q ss_pred             CeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      ..++++++|+... .+-...+..       .. .++|+++|+||+|++.+........                      
T Consensus        64 ~~~Il~VvD~~d~~~s~~~~l~~-------~~-~~~piilV~NK~DLl~k~~~~~~~~----------------------  113 (360)
T TIGR03597        64 NALIVYVVDIFDFEGSLIPELKR-------FV-GGNPVLLVGNKIDLLPKSVNLSKIK----------------------  113 (360)
T ss_pred             CcEEEEEEECcCCCCCccHHHHH-------Hh-CCCCEEEEEEchhhCCCCCCHHHHH----------------------
Confidence            4689999998533 121121211       11 2689999999999975331111111                      


Q ss_pred             HHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhc
Q 023298          227 NKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       227 ~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                       .-+.+...++++  ..++++||+++.|+++|++.|.+..
T Consensus       114 -~~l~~~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~~  152 (360)
T TIGR03597       114 -EWMKKRAKELGLKPVDIILVSAKKGNGIDELLDKIKKAR  152 (360)
T ss_pred             -HHHHHHHHHcCCCcCcEEEecCCCCCCHHHHHHHHHHHh
Confidence             001122344554  3699999999999999999998753

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=97.26  E-value=0.0035  Score=63.98  Aligned_cols=100  Identities=9%  Similarity=0.129  Sum_probs=53.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH----HhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHH--HhcCCCEEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL----KSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAM--VQLELPHVN  186 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l----~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~--~~~~~p~Il  186 (284)
                      +.++.+|||||..+..........+++.+    .... .++++|+........ ..+.  .++..+..+  ...-.-+|+
T Consensus       165 G~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~g-pDVVLlV~RLd~~~~D~eD~--~aLr~Iq~lFG~~Iwk~tIV  241 (763)
T TIGR00993       165 GVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNP-PDIVLYVDRLDMQTRDSNDL--PLLRTITDVLGPSIWFNAIV  241 (763)
T ss_pred             CceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCC-CCEEEEEEeCCCccccHHHH--HHHHHHHHHhCHHhHcCEEE
Confidence            45789999999887432222233444433    2222 456777664432322 1221  122222222  223457899


Q ss_pred             EecCCccccch------hhhhhhcCcchHHHHHHhh
Q 023298          187 ILSKMDLVTNK------KEIEDYLNPESQFLLSELN  216 (284)
Q Consensus       187 VlNK~Dll~~~------~~l~~~l~~~~~~l~~~l~  216 (284)
                      |++..|.+..+      ..++.|+...++.+...+.
T Consensus       242 VFThgD~lppdg~ng~~~tye~fv~~rs~~Lq~~Ir  277 (763)
T TIGR00993       242 TLTHAASAPPDGPNGTPLSYDVFVAQRSHIVQQAIG  277 (763)
T ss_pred             EEeCCccCCCCCCCCCCcCHHHHHhhChHHHHHHHH
Confidence            99999998531      1567777655555554443

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>PHA00729 NTP-binding motif containing protein

Probab=97.25  E-value=0.00033  Score=62.66  Aligned_cols=26  Identities=19%  Similarity=0.345  Sum_probs=22.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +..-++|+|++ +||||+|..++..+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34468999999 999999999999765

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=97.24  E-value=0.00047  Score=58.08  Aligned_cols=36  Identities=11%  Similarity=0.154  Sum_probs=33.0

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +.|+|+. |||||++..|...|...|.+|.+|.-|..
T Consensus         2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~~~   38 (155)
T TIGR00176         2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHDHH   38 (155)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccc
Confidence            6789999 99999999999999999999999997743

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.18  E-value=0.00056  Score=55.79  Aligned_cols=38  Identities=21%  Similarity=0.271  Sum_probs=34.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++|+|++ +||||++..++..+...|.++++++.+....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchH
Confidence            6899999 9999999999999999999999999986654

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.

>PLN00023 GTP-binding protein; Provisional

Probab=97.17  E-value=0.003  Score=59.61  Aligned_cols=68  Identities=13%  Similarity=0.097  Sum_probs=40.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh------------
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ------------  179 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~------------  179 (284)
                      ..+-|.||+|+-...       .+... +..   .+++++++|.+.   ...|  +..++..+.....            
T Consensus        83 v~LqIWDTAGqErfr-------sL~~~yyr~---AdgiILVyDITd---r~SFenL~kWl~eI~~~~~~s~p~~s~~~~~  149 (334)
T PLN00023         83 FFVELWDVSGHERYK-------DCRSLFYSQ---INGVIFVHDLSQ---RRTKTSLQKWASEVAATGTFSAPLGSGGPGG  149 (334)
T ss_pred             EEEEEEECCCChhhh-------hhhHHhccC---CCEEEEEEeCCC---HHHHHHHHHHHHHHHHhcccccccccccccC
Confidence            357899999975411       12222 222   357888899764   3333  4455544433321            


Q ss_pred             cCCCEEEEecCCcccc
Q 023298          180 LELPHVNILSKMDLVT  195 (284)
Q Consensus       180 ~~~p~IlVlNK~Dll~  195 (284)
                      .+.|+++|-||+|+..
T Consensus       150 ~~ipIILVGNK~DL~~  165 (334)
T PLN00023        150 LPVPYIVIGNKADIAP  165 (334)
T ss_pred             CCCcEEEEEECccccc
Confidence            2479999999999864

>PF13173 AAA_14: AAA domain

Probab=97.15  E-value=0.00061  Score=55.04  Aligned_cols=37  Identities=16%  Similarity=0.197  Sum_probs=30.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +++|.||. |||||++..+++.+. .+.+++.+|+|-..
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~   41 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPR   41 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHH
Confidence            48999999 999999999998766 56677788776433

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.15  E-value=0.00087  Score=59.18  Aligned_cols=40  Identities=13%  Similarity=0.325  Sum_probs=36.3

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +..-..+.|.|++ +||||+|..++...++.|.+|++|+.+
T Consensus        20 i~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         20 FERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            4455678999999 999999999999999999999999998

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

Probab=97.15  E-value=0.00049  Score=54.87  Aligned_cols=41  Identities=20%  Similarity=0.250  Sum_probs=29.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhc-----CCceEEEecCcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETV-----RRTMHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~-----g~~v~iVdLDPq~   58 (284)
                      +..+++|.|++ +||||++.+++..+...     +.+++.+++.+..
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSR   49 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHS
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCC
Confidence            34578999999 99999999999998764     5566666666555

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.14  E-value=0.00056  Score=59.23  Aligned_cols=35  Identities=20%  Similarity=0.205  Sum_probs=29.2

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCc----eEEEecC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRT----MHIVNLD   55 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~----v~iVdLD   55 (284)
                      +|.|.||+ |||||+|..|+..|.+.|.+    +.++.+|
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~~~~~~~~~~~~~d   40 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRGIPAMEMDIILSLD   40 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCTTTCCCSEEEEEGG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccCcCccceeEEEeec
Confidence            47899999 99999999999999988876    4555554

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 ....

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

Probab=97.14  E-value=0.00049  Score=62.61  Aligned_cols=46  Identities=4%  Similarity=0.064  Sum_probs=41.6

Q ss_pred             hhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298            9 CKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus         9 ~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ++.|+.|+.+...+++.||+ +|||.++.+++..+.+.|.+|+++..
T Consensus        95 ~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~  141 (254)
T COG1484          95 LASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA  141 (254)
T ss_pred             HHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH
Confidence            46788899999999999999 99999999999999988999988753

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.14  E-value=0.0007  Score=60.29  Aligned_cols=45  Identities=20%  Similarity=0.105  Sum_probs=38.0

Q ss_pred             ccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEE-EecCc
Q 023298           12 YMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHI-VNLDP   56 (284)
Q Consensus        12 ~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~i-VdLDP   56 (284)
                      ++....++.++.|.||. |||||++..|+..+...+..+.+ |.+|.
T Consensus        26 ~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~~g~~~v~i~~D~   72 (229)
T PRK09270         26 LQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQDGELPAIQVPMDG   72 (229)
T ss_pred             HHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhhccCCceEEEeccc
Confidence            33456779999999999 99999999999999988777766 77775

>PF13245 AAA_19: Part of AAA domain

Probab=97.14  E-value=0.00082  Score=49.91  Aligned_cols=35  Identities=11%  Similarity=0.153  Sum_probs=27.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhc----CCceEEEe
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETV----RRTMHIVN   53 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~----g~~v~iVd   53 (284)
                      ....+|.||| |||||++.++..++...    +++|+++-
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a   49 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLA   49 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEEC
Confidence            4447789999 99998888888887754    77777774

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

Probab=97.13  E-value=0.00068  Score=58.36  Aligned_cols=42  Identities=5%  Similarity=0.156  Sum_probs=33.1

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      +.|..+...+++.||+ +|||.++..++..+..+|++|.+++.
T Consensus        41 ~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~   83 (178)
T PF01695_consen   41 LEFIENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITA   83 (178)
T ss_dssp             H-S-SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEH
T ss_pred             CCCcccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeec
Confidence            4678888899999999 99999999999999999999988864

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.

>PRK06526 transposase; Provisional

Probab=97.13  E-value=0.00032  Score=63.82  Aligned_cols=40  Identities=8%  Similarity=0.125  Sum_probs=35.3

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      +.|..++..++++||+ +|||+++.+++..+...|++|+++
T Consensus        92 ~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~  132 (254)
T PRK06526         92 LDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFA  132 (254)
T ss_pred             CchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhh
Confidence            4577777889999999 999999999999999999988763

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=97.12  E-value=0.016  Score=55.30  Aligned_cols=159  Identities=14%  Similarity=0.157  Sum_probs=86.4

Q ss_pred             CceEEEEECC-C-CcHHHHHHHHHHHHHh-cCCceEEEecCcCCCC----CCCCccccccccccHHHHhhh-------cC
Q 023298           18 ALVIKCVFSP-P-PNQSTYCSSLYRHCET-VRRTMHIVNLDPAAEN----FDYPVAMDIRELISLEDVMEE-------LG   83 (284)
Q Consensus        18 ~~~~~~viG~-~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq~~~----~~~~~~~dir~~i~~~~vm~~-------~~   83 (284)
                      +-+.+-++|. | ||=||++.|+|..++. .+..|+++|||-|...    +.+++..+|.+.+...+-..+       ..
T Consensus       103 ~~r~iafl~akgg~g~stlA~n~a~~l~~~~~~~v~L~DL~~~~G~~~~~l~~~~a~~i~~~~~~peRLDq~lld~~~~~  182 (366)
T COG4963         103 QGRELAFLGAKGGVGTSTLAHNLAKGLAILSGAAVLLVDLDLQGGTAALYLDQDPAFGIAEAVKQPERLDQVLLDSLLTR  182 (366)
T ss_pred             hceEEEEEeecCCcchHHHHHHHHHHHhhhcCCcEEEEEcCCCCcchhhhcCCCchhhHHHHhcCHHHhhHHHHHHHHhc
Confidence            4455678887 4 9999999999999986 6789999999998873    344444444443221110000       01


Q ss_pred             cccCchhhhhh-------HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEec
Q 023298           84 LGPNGGLIYCM-------EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLD  156 (284)
Q Consensus        84 lgPng~l~~~~-------e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiD  156 (284)
                      +.++-.+....       +....+. ..|-+.+..  .+++|++|-| +..    ....   .+.|..   ++.++.+++
T Consensus       183 ~~~~l~ll~a~~~~~~~~d~~~~~~-~~Ll~~~~~--~~~~vV~Dlp-~~~----~~~t---~~vL~~---Sd~iviv~e  248 (366)
T COG4963         183 LASGLKLLAAPTELAKNYDLKTGAV-ERLLDLLRG--SFDFVVVDLP-NIW----TDWT---RQVLSG---SDEIVIVAE  248 (366)
T ss_pred             cCCCceeecCCcchhhhcccccchH-HHHHHHhhc--cCCeEEEcCC-Ccc----chHH---HHHHhc---CCeEEEEec
Confidence            11111111110       1111111 223333332  6799999999 332    2222   233433   345667777


Q ss_pred             CCCC--CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          157 SQFI--TDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       157 a~~~--~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .+-.  ....    .++..+..+.....+.++|+||...-
T Consensus       249 ~sl~slR~ak----~lld~l~~~r~~~~~p~lv~n~~~~~  284 (366)
T COG4963         249 PSLASLRNAK----ELLDELKRLRPNDPKPILVLNRVGVP  284 (366)
T ss_pred             ccHHHHHHHH----HHHHHHHHhCCCCCCceEEeeecCCC
Confidence            6422  1222    23333444445567889999998864

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.11  E-value=0.048  Score=47.85  Aligned_cols=21  Identities=14%  Similarity=0.295  Sum_probs=19.3

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+|+|++ |||||+|..||+.+
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999 99999999999864

>TIGR00313 cobQ cobyric acid synthase CobQ

Probab=97.10  E-value=0.0084  Score=59.39  Aligned_cols=35  Identities=14%  Similarity=0.087  Sum_probs=30.8

Q ss_pred             EEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           22 KCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        22 ~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ++|.|++  ||||+.|..|+.+|++.|++|..  +.||+
T Consensus         1 ~~I~GT~t~vGKT~v~~~L~~~l~~~G~~v~~--fKp~~   37 (475)
T TIGR00313         1 IMVVGTTSSAGKSTLTAGLCRILARRGYRVAP--FKSQN   37 (475)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHHhCCCeEEE--ECCcc
Confidence            4799998  99999999999999999999886  46763

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=97.10  E-value=0.018  Score=56.02  Aligned_cols=67  Identities=18%  Similarity=0.251  Sum_probs=43.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+-+.||||+.. |+     +--.+.|.+.   +.+|.+||+.+.-.|... +.      ..-...++|++..+||.|
T Consensus        80 ~~~iNLLDTPGHeD-FS-----EDTYRtLtAv---DsAvMVIDaAKGiE~qT~KLf------eVcrlR~iPI~TFiNKlD  144 (528)
T COG4108          80 DCLVNLLDTPGHED-FS-----EDTYRTLTAV---DSAVMVIDAAKGIEPQTLKLF------EVCRLRDIPIFTFINKLD  144 (528)
T ss_pred             CeEEeccCCCCccc-cc-----hhHHHHHHhh---heeeEEEecccCccHHHHHHH------HHHhhcCCceEEEeeccc
Confidence            45677899999543 32     2233456553   567889999877555542 11      112235899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      .-.
T Consensus       145 R~~  147 (528)
T COG4108         145 REG  147 (528)
T ss_pred             ccc
Confidence            854

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.10  E-value=0.0036  Score=59.39  Aligned_cols=38  Identities=11%  Similarity=0.093  Sum_probs=31.0

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ...+|.|-- |||||+..++.+.  ..|+++++|-.|-+..
T Consensus         5 pv~iltGFLGaGKTTll~~ll~~--~~~~~iavi~Ne~G~~   43 (341)
T TIGR02475         5 PVTIVTGFLGAGKTTLIRHLLQN--AAGRRIAVIVNEFGDL   43 (341)
T ss_pred             CEEEEEECCCCCHHHHHHHHHhc--cCCCcEEEEECCCccc
Confidence            457888987 9999999999873  4788999998887754

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.09  E-value=0.00079  Score=61.28  Aligned_cols=40  Identities=8%  Similarity=0.056  Sum_probs=36.5

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +.....++|.|++ +||||+|..++...+++|.+|++|.++
T Consensus        33 ip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E   73 (259)
T TIGR03878        33 IPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE   73 (259)
T ss_pred             eECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            5566779999999 999999999999988889999999997

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.09  E-value=0.00066  Score=61.50  Aligned_cols=45  Identities=7%  Similarity=0.149  Sum_probs=36.6

Q ss_pred             hhcccccccC-ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298            9 CKGYMSWLYA-LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus         9 ~~~~~~~~~~-~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      |+.|+..|.. ...+++.|++ +|||+++.+++.+|...|++|++++
T Consensus        88 a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it  134 (244)
T PRK07952         88 ARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT  134 (244)
T ss_pred             HHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4555554443 2368999999 9999999999999999999999984

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.08  E-value=0.0025  Score=59.87  Aligned_cols=153  Identities=21%  Similarity=0.264  Sum_probs=77.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhh-h-Hh
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYC-M-EH   96 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~-~-e~   96 (284)
                      ...+|.|-- ||||||..++...  ..|+|+++|--|-+.....-       +++.-.. .+-..+ .||- +.| + +-
T Consensus         5 pv~iltGFLGaGKTTll~~ll~~--~~~~riaVi~NEfG~v~iD~-------~ll~~~~-~~v~eL-~~GC-iCCs~~~~   72 (318)
T PRK11537          5 AVTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEFGEVSVDD-------QLIGDRA-TQIKTL-TNGC-ICCSRSNE   72 (318)
T ss_pred             CEEEEEECCCCCHHHHHHHHHhc--ccCCcccccccCcCCccccH-------HHHhCcC-ceEEEE-CCCE-EEEccCch
Confidence            347888988 9999999999864  47889999877777543210       0110000 000011 2332 222 1 12


Q ss_pred             hhhcHHHHHHHHhh-ccCCCCEEEEeCCCCcccccccchHHHHH--HHHHh-cCCCeEEEEEecCCCCCCH-HHHHHHHH
Q 023298           97 LEDNLDDWLAEELD-NYLDDDYLVFDCPGQIELFTHVPVLRNFV--DHLKS-RNFNVCAVYLLDSQFITDV-TKFISGCM  171 (284)
Q Consensus        97 ~~~~~~~~l~~~l~-~~~~~~~viiDtPg~~e~~~~~~~~~~l~--~~l~~-~d~~~vil~LiDa~~~~~~-~~~i~~~l  171 (284)
                      +...+.+.+.+.-. .. +.++|+|-|.|..+..   +....+.  ..+.. .. -.-++.++|+..+... ..+  .. 
T Consensus        73 l~~~l~~l~~~~~~~~~-~~d~IvIEttG~a~p~---~i~~~~~~~~~l~~~~~-l~~vvtvvDa~~~~~~~~~~--~~-  144 (318)
T PRK11537         73 LEDALLDLLDNLDKGNI-QFDRLVIECTGMADPG---PIIQTFFSHEVLCQRYL-LDGVIALVDAVHADEQMNQF--TI-  144 (318)
T ss_pred             HHHHHHHHHHHHhccCC-CCCEEEEECCCccCHH---HHHHHHhcChhhcccEE-eccEEEEEEhhhhhhhcccc--HH-
Confidence            33333222221111 11 4689999999976522   1122221  12221 11 1358889999755221 111  00 


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccc
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~  196 (284)
                          ...+..---++|+||+|++..
T Consensus       145 ----~~~Qi~~AD~IvlnK~Dl~~~  165 (318)
T PRK11537        145 ----AQSQVGYADRILLTKTDVAGE  165 (318)
T ss_pred             ----HHHHHHhCCEEEEeccccCCH
Confidence                011233356899999999864

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.08  E-value=0.0028  Score=58.62  Aligned_cols=81  Identities=12%  Similarity=0.086  Sum_probs=51.1

Q ss_pred             CeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      .+++++++|+.... ++. .+..++.   .+...++|.++|+||+|+..+. +...+.                      
T Consensus        79 vD~vllV~d~~~p~~s~~-~ldr~L~---~~~~~~ip~iIVlNK~DL~~~~-~~~~~~----------------------  131 (287)
T cd01854          79 VDQLVIVVSLNEPFFNPR-LLDRYLV---AAEAAGIEPVIVLTKADLLDDE-EEELEL----------------------  131 (287)
T ss_pred             CCEEEEEEEcCCCCCCHH-HHHHHHH---HHHHcCCCEEEEEEHHHCCChH-HHHHHH----------------------
Confidence            46788889986443 322 2333322   2334689999999999987532 111111                      


Q ss_pred             HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          227 NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       227 ~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                           ......+ ..++++||+++.|++.|...+.
T Consensus       132 -----~~~~~~g-~~v~~vSA~~g~gi~~L~~~L~  160 (287)
T cd01854         132 -----VEALALG-YPVLAVSAKTGEGLDELREYLK  160 (287)
T ss_pred             -----HHHHhCC-CeEEEEECCCCccHHHHHhhhc
Confidence                 0011223 5789999999999999888775

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=97.08  E-value=0.0033  Score=62.73  Aligned_cols=113  Identities=22%  Similarity=0.434  Sum_probs=70.2

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      .--|+++.|+||+ +|||||...|...+...--                   -+|+..|++               +   
T Consensus        66 ~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti-------------------~~i~GPiTv---------------v---  108 (1077)
T COG5192          66 LPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTI-------------------DEIRGPITV---------------V---  108 (1077)
T ss_pred             CCCCeEEEeecCCCCChhHHHHHHHHHHHHhhh-------------------hccCCceEE---------------e---
Confidence            4568888899999 9999999999997764311                   022222221               0   


Q ss_pred             HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC--HHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD--VTKFISGCMA  172 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~--~~~~i~~~l~  172 (284)
                                     .. +...+.|+.||.-+         ..|+.-.   .++++++++||+.+.-.  .-+|+ +   
T Consensus       109 ---------------sg-K~RRiTflEcp~Dl---------~~miDva---KIaDLVlLlIdgnfGfEMETmEFL-n---  156 (1077)
T COG5192         109 ---------------SG-KTRRITFLECPSDL---------HQMIDVA---KIADLVLLLIDGNFGFEMETMEFL-N---  156 (1077)
T ss_pred             ---------------ec-ceeEEEEEeChHHH---------HHHHhHH---HhhheeEEEeccccCceehHHHHH-H---
Confidence                           00 13467899999532         2243333   23578999999986543  33333 2   


Q ss_pred             HHHHHHhcCCCEE-EEecCCccccchhhh
Q 023298          173 SLSAMVQLELPHV-NILSKMDLVTNKKEI  200 (284)
Q Consensus       173 ~l~~~~~~~~p~I-lVlNK~Dll~~~~~l  200 (284)
                         .+...+.|-| -|++-.|+.++...+
T Consensus       157 ---il~~HGmPrvlgV~ThlDlfk~~stL  182 (1077)
T COG5192         157 ---ILISHGMPRVLGVVTHLDLFKNPSTL  182 (1077)
T ss_pred             ---HHhhcCCCceEEEEeecccccChHHH
Confidence               2346777765 478899998754334

>PRK01077 cobyrinic acid a,c-diamide synthase; Validated

Probab=97.07  E-value=0.013  Score=57.55  Aligned_cols=39  Identities=13%  Similarity=0.192  Sum_probs=34.4

Q ss_pred             ceEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           19 LVIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        19 ~~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +..++|.|++  |||||.+..|+.+|+++|++|..+-..|.
T Consensus         3 m~~i~I~gt~s~~GKT~it~~L~~~L~~~G~~V~~fK~Gpd   43 (451)
T PRK01077          3 MPALVIAAPASGSGKTTVTLGLMRALRRRGLRVQPFKVGPD   43 (451)
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHhCCCCcceeecCCC
Confidence            4468999997  99999999999999999999999977554

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=97.06  E-value=0.022  Score=48.67  Aligned_cols=116  Identities=14%  Similarity=0.170  Sum_probs=62.7

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh--cCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ--LELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~--~~~p~IlVlNK~Dl  193 (284)
                      +.=+-||.||-.   +++    +.+..-..  +.-++.+.|...-.+ -+.+..++....+...  .+.-+.+|-.|+|+
T Consensus        59 klqlwdtagqer---frs----itksyyrn--svgvllvyditnr~s-fehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL  128 (213)
T KOG0091|consen   59 KLQLWDTAGQER---FRS----ITKSYYRN--SVGVLLVYDITNRES-FEHVENWVKEAAMATQGPDKVVFLLVGHKSDL  128 (213)
T ss_pred             EEEEeeccchHH---HHH----HHHHHhhc--ccceEEEEeccchhh-HHHHHHHHHHHHHhcCCCCeeEEEEeccccch
Confidence            567889999754   111    33332221  233555667653211 1226666665444444  22334567789999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHH----HHHhcCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQ----IDNCIQWGE  268 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~----I~~~l~~g~  268 (284)
                      .+.+ ++.. -+                         ++.+..+--..|+.-||++|.|+++-...    |...+..|+
T Consensus       129 ~SqR-qVt~-EE-------------------------aEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~qGe  180 (213)
T KOG0091|consen  129 QSQR-QVTA-EE-------------------------AEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQGE  180 (213)
T ss_pred             hhhc-cccH-HH-------------------------HHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHHhcCc
Confidence            7544 2210 00                         22222333378999999999999986554    444455554

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.06  E-value=0.0016  Score=55.79  Aligned_cols=51  Identities=20%  Similarity=0.193  Sum_probs=34.3

Q ss_pred             eEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhc
Q 023298          149 VCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYL  204 (284)
Q Consensus       149 ~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l  204 (284)
                      |++++++|+... .+.+..+...+.    +...++|+|+|+||+|+++++ .+.+|+
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~----l~~~~kp~IlVlNK~DL~~~~-~l~~~~   52 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVL----QAGGNKKLVLVLNKIDLVPKE-NVEKWL   52 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHH----hccCCCCEEEEEehhhcCCHH-HHHHHH
Confidence            478999999864 444444433311    224578999999999998755 555555

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=97.05  E-value=0.0009  Score=56.94  Aligned_cols=34  Identities=9%  Similarity=-0.038  Sum_probs=30.2

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .|+|.|+. |||||++..|+++|...|++|..+--
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~   36 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTRE   36 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            48899999 99999999999999999999876644

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.04  E-value=0.002  Score=60.70  Aligned_cols=39  Identities=10%  Similarity=0.175  Sum_probs=34.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ..-+++.|.||+ |||||+|..++...++.|.+|++||..
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E   92 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAE   92 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECcc
Confidence            445668899999 999999999999999999999999963

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=97.04  E-value=0.00094  Score=59.95  Aligned_cols=36  Identities=6%  Similarity=0.024  Sum_probs=32.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ++++.|+|+. |||||++..|+.+|..+|++|.+|--
T Consensus         1 m~vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~   37 (229)
T PRK14494          1 MRAIGVIGFKDSGKTTLIEKILKNLKERGYRVATAKH   37 (229)
T ss_pred             CeEEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEe
Confidence            3568899999 99999999999999999999999964

>PRK09354 recA recombinase A; Provisional

Probab=97.03  E-value=0.0023  Score=60.80  Aligned_cols=49  Identities=16%  Similarity=0.204  Sum_probs=39.7

Q ss_pred             hhhhhh-cccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            5 LDLLCK-GYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~-~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ||.++- |   =+..-+++.|.||+ |||||+|..++...++.|.++++||..-
T Consensus        48 LD~~LG~G---Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~   98 (349)
T PRK09354         48 LDIALGIG---GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   98 (349)
T ss_pred             HHHHhcCC---CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCcc
Confidence            565554 3   24456678899999 9999999999999999999999999753

>PRK05439 pantothenate kinase; Provisional

Probab=97.03  E-value=0.001  Score=62.25  Aligned_cols=40  Identities=15%  Similarity=0.030  Sum_probs=34.3

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHh--cCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCET--VRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~--~g~~v~iVdLD   55 (284)
                      -..|..|.|.|++ |||||+|..|+..|..  .+.+|.+|.+|
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~D  125 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTD  125 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEecc
Confidence            3468888999999 9999999999999876  36788888887

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=97.03  E-value=0.0018  Score=60.93  Aligned_cols=99  Identities=16%  Similarity=0.232  Sum_probs=66.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      +=++|.| |||||+...|...             --+...+||.                  .+-||-+-+.+.+   +.
T Consensus        23 iGIVGlPNvGKST~fnalT~~-------------~a~~~NfPF~------------------TIdPn~a~V~v~d---~R   68 (391)
T KOG1491|consen   23 IGIVGLPNVGKSTFFNALTKS-------------KAGAANFPFC------------------TIDPNEARVEVPD---SR   68 (391)
T ss_pred             eeEeeCCCCchHHHHHHHhcC-------------CCCccCCCcc------------------eeccccceeecCc---hH
Confidence            5689999 9999999999882             3334456652                  2237766554432   22


Q ss_pred             HHHHHHHHhhccC--CCCEEEEeCCCCcccc-cccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298          101 LDDWLAEELDNYL--DDDYLVFDCPGQIELF-THVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus       101 ~~~~l~~~l~~~~--~~~~viiDtPg~~e~~-~~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                      + +||.+.-...+  ...+-+.|..|..... ....+|++++.++...   +.+++++++.
T Consensus        69 f-d~l~~~Y~~~~~vpa~l~v~DIAGLvkGAs~G~GLGN~FLs~iR~v---DaifhVVr~f  125 (391)
T KOG1491|consen   69 F-DLLCPIYGPKSKVPAFLTVYDIAGLVKGASAGEGLGNKFLSHIRHV---DAIFHVVRAF  125 (391)
T ss_pred             H-HHHHHhcCCcceeeeeEEEEeecccccCcccCcCchHHHHHhhhhc---cceeEEEEec
Confidence            3 55554433221  4678999999988764 5678899999999764   5678888764

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=97.02  E-value=0.00062  Score=63.18  Aligned_cols=40  Identities=15%  Similarity=0.071  Sum_probs=34.1

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhc--CCceEEEecCc
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETV--RRTMHIVNLDP   56 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~--g~~v~iVdLDP   56 (284)
                      ..|.++.|.||. |||||++..|+..+.+.  +.+|.++.+|.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~  102 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLSRWPEHRKVELITTDG  102 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCceEEEeccc
Confidence            578989999999 99999999999988753  44788888886

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>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=97.01  E-value=0.00075  Score=62.01  Aligned_cols=38  Identities=16%  Similarity=0.191  Sum_probs=28.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..++++|-| |||||+|..|+.++...+.+|.+|+.|--
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~   40 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSL   40 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEccccc
Confidence            358999999 99999999999999999999999995433

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.01  E-value=0.00061  Score=60.25  Aligned_cols=37  Identities=11%  Similarity=0.107  Sum_probs=31.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ..+++.|+| |||||++++||..|.+.+.+|..+--|-
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~kdy   39 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHLEKDY   39 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhhccccchhh
Confidence            348999999 9999999999999999988877665543

>PRK01889 GTPase RsgA; Reviewed

Probab=97.00  E-value=0.0012  Score=62.85  Aligned_cols=110  Identities=15%  Similarity=0.136  Sum_probs=61.7

Q ss_pred             CCEEEEeC--CCCcc-cccccchHHHHHHHH---------HhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCC
Q 023298          115 DDYLVFDC--PGQIE-LFTHVPVLRNFVDHL---------KSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLEL  182 (284)
Q Consensus       115 ~~~viiDt--Pg~~e-~~~~~~~~~~l~~~l---------~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~  182 (284)
                      .|.|++|+  ||.++ ....+.   .|.+.-         -+++ .|.+++++++..--++. ++..+   +......+.
T Consensus        72 GD~V~~~~~~~g~I~~i~pR~~---~L~R~~~~~~~~~q~iaAN-vD~vliV~s~~p~~~~~-~ldr~---L~~a~~~~i  143 (356)
T PRK01889         72 GDWVLLDNEKKARIVRLLPRRS---LFSRKAAGTRSEEQLIAAN-VDTVFIVCSLNHDFNLR-RIERY---LALAWESGA  143 (356)
T ss_pred             CcEEEEecCCceEEEEEECCCc---eEEcCCCCCCccceeEEEe-CCEEEEEEecCCCCChh-HHHHH---HHHHHHcCC
Confidence            46899987  77664 233322   122211         0233 34577777774322221 23222   223445788


Q ss_pred             CEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          183 PHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       183 p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      |.++|+||+|++.+..+..+.+                          ...   .....++++|++++.|++.|...+.
T Consensus       144 ~piIVLNK~DL~~~~~~~~~~~--------------------------~~~---~~g~~Vi~vSa~~g~gl~~L~~~L~  193 (356)
T PRK01889        144 EPVIVLTKADLCEDAEEKIAEV--------------------------EAL---APGVPVLAVSALDGEGLDVLAAWLS  193 (356)
T ss_pred             CEEEEEEChhcCCCHHHHHHHH--------------------------HHh---CCCCcEEEEECCCCccHHHHHHHhh
Confidence            9999999999975320111111                          111   1235789999999999999888774

>PRK08118 topology modulation protein; Reviewed

Probab=96.99  E-value=0.00064  Score=57.82  Aligned_cols=23  Identities=13%  Similarity=0.031  Sum_probs=20.5

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..|+|+||+ |||||+++.|++.+
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            359999999 99999999999864

>PRK09183 transposase/IS protein; Provisional

Probab=96.96  E-value=0.0012  Score=60.28  Aligned_cols=41  Identities=7%  Similarity=0.076  Sum_probs=35.5

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ++|..+...++++||+ +||||++..++..+...|++|.+++
T Consensus        96 ~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~  137 (259)
T PRK09183         96 LSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT  137 (259)
T ss_pred             CCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            3566677779999999 9999999999998888999998876

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.96  E-value=0.001  Score=59.15  Aligned_cols=36  Identities=11%  Similarity=0.015  Sum_probs=30.8

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHh--cCCceEEEecCcC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCET--VRRTMHIVNLDPA   57 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~--~g~~v~iVdLDPq   57 (284)
                      +-|.|+. |||||++..|+..+..  .+.++.+|.+|--
T Consensus         2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f   40 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGF   40 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCcc
Confidence            5688999 9999999999999975  5668888888854

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.94  E-value=0.017  Score=57.57  Aligned_cols=52  Identities=12%  Similarity=0.060  Sum_probs=41.1

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCcCCC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDPAAE   59 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq~~   59 (284)
                      ||-+..|   .+..-..++|.|++ +||||+|.+++...+++ |.+|++|.++-..+
T Consensus        20 LD~~l~G---G~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~~   73 (509)
T PRK09302         20 FDDITHG---GLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEESPE   73 (509)
T ss_pred             HHHhhcC---CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCHH
Confidence            5555433   35666779999999 99999999999877766 99999999876554

>smart00275 G_alpha G protein alpha subunit

Probab=96.94  E-value=0.0031  Score=59.81  Aligned_cols=132  Identities=12%  Similarity=0.175  Sum_probs=67.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-----H-HHHHHHHHHHHHHHHh----cCCCE
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-----V-TKFISGCMASLSAMVQ----LELPH  184 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-----~-~~~i~~~l~~l~~~~~----~~~p~  184 (284)
                      ..+.++|..||-.  .++    +-...+..   ...++|++|.+....     + ...+...+..+..+.+    .++|+
T Consensus       184 ~~~~~~DvgGqr~--~R~----kW~~~f~~---v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~pi  254 (342)
T smart00275      184 LFFRMFDVGGQRS--ERK----KWIHCFDN---VTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSI  254 (342)
T ss_pred             eEEEEEecCCchh--hhh----hHHHHhCC---CCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcE
Confidence            3467889999743  111    11223332   467999999875321     1 1223333333333433    46899


Q ss_pred             EEEecCCccccchh---hhhhhcCc--chHHHHHHhhhcchhHHHHHHHHHHHHHhc-c-CCceEEEEeccCcccHHHHH
Q 023298          185 VNILSKMDLVTNKK---EIEDYLNP--ESQFLLSELNQHMAPQFAKLNKSLIELVDE-Y-SMVSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       185 IlVlNK~Dll~~~~---~l~~~l~~--~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~-~-~~~~~ipiSa~~~~~l~~Ll  257 (284)
                      ++++||.|+..++-   .+..+...  +..+......     ...   ....++... . ...-.+..+|.+-.++..++
T Consensus       255 il~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~-----yi~---~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~  326 (342)
T smart00275      255 ILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAK-----FIK---QKFLRLNRNSSRKSIYHHFTCATDTRNIRVVF  326 (342)
T ss_pred             EEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHH-----HHH---HHHHHhccCCCCceEEEEEeeecccHHHHHHH
Confidence            99999999975431   12222110  0000000000     011   111122121 1 12456889999999999999


Q ss_pred             HHHHHh
Q 023298          258 SQIDNC  263 (284)
Q Consensus       258 ~~I~~~  263 (284)
                      ..+.+.
T Consensus       327 ~~v~~~  332 (342)
T smart00275      327 DAVKDI  332 (342)
T ss_pred             HHHHHH
Confidence            877665

Subunit of G proteins that contains the guanine nucleotide binding site

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.94  E-value=0.0016  Score=57.82  Aligned_cols=50  Identities=12%  Similarity=0.190  Sum_probs=39.8

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCcCC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDPAA   58 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq~   58 (284)
                      ||-+..|+    ..-..++|.|++ +||||+|.+++..++.. |.+|+++.++-..
T Consensus         3 LD~~~~Gl----~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~   54 (242)
T cd00984           3 LDNLTGGL----QPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSK   54 (242)
T ss_pred             hhhhhcCC----CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCH
Confidence            45555554    344568899999 99999999999998887 9999999987644

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.

>PRK08233 hypothetical protein; Provisional

Probab=96.94  E-value=0.00084  Score=56.71  Aligned_cols=37  Identities=8%  Similarity=-0.025  Sum_probs=29.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +..|.|.|++ |||||+|..|+..+.  +.++...|.+.+
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~--~~~~~~~d~~~~   40 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK--NSKALYFDRYDF   40 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC--CCceEEECCEEc
Confidence            4568889999 999999999999874  346777777754

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.92  E-value=0.003  Score=55.66  Aligned_cols=108  Identities=11%  Similarity=0.093  Sum_probs=64.6

Q ss_pred             EEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccc
Q 023298          117 YLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       117 ~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~  196 (284)
                      --|-||.||--   .+.    +..+.-+ + ..-++.+.|..+-.+-. .+..||..|--....+.++++|-||+||.+.
T Consensus        65 aqIWDTAGQER---yrA----itSaYYr-g-AvGAllVYDITr~~Tfe-nv~rWL~ELRdhad~nivimLvGNK~DL~~l  134 (222)
T KOG0087|consen   65 AQIWDTAGQER---YRA----ITSAYYR-G-AVGALLVYDITRRQTFE-NVERWLKELRDHADSNIVIMLVGNKSDLNHL  134 (222)
T ss_pred             Eeeecccchhh---hcc----ccchhhc-c-cceeEEEEechhHHHHH-HHHHHHHHHHhcCCCCeEEEEeecchhhhhc
Confidence            46779999753   111    1122211 1 23466677875443222 3777877666666678999999999999542


Q ss_pred             hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          197 KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       197 ~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      + ..   -.++                       .+.+.+-....|+..||+++.|++..+..+.
T Consensus       135 r-aV---~te~-----------------------~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l  172 (222)
T KOG0087|consen  135 R-AV---PTED-----------------------GKAFAEKEGLFFLETSALDATNVEKAFERVL  172 (222)
T ss_pred             c-cc---chhh-----------------------hHhHHHhcCceEEEecccccccHHHHHHHHH
Confidence            2 11   0000                       1112233347899999999999998776544

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.92  E-value=0.0011  Score=57.33  Aligned_cols=33  Identities=9%  Similarity=0.118  Sum_probs=29.2

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +.|+||. |||||++..|+..+  .+.++.++.+|.
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~~D~   35 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL--GNPKVVIISQDS   35 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh--CCCCeEEEEecc
Confidence            6799999 99999999999988  566889999984

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.

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.91  E-value=0.0086  Score=60.18  Aligned_cols=68  Identities=22%  Similarity=0.322  Sum_probs=43.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+-+|||||++.....      .-++|..+|   -+|.++|+... .+...-++.      ++.+.+.|.|.-+||.|
T Consensus       103 ~~~iNiIDTPGHvDFT~E------VeRALrVlD---GaVlvl~aV~GVqsQt~tV~r------Q~~ry~vP~i~FiNKmD  167 (721)
T KOG0465|consen  103 DYRINIIDTPGHVDFTFE------VERALRVLD---GAVLVLDAVAGVESQTETVWR------QMKRYNVPRICFINKMD  167 (721)
T ss_pred             cceeEEecCCCceeEEEE------ehhhhhhcc---CeEEEEEcccceehhhHHHHH------HHHhcCCCeEEEEehhh
Confidence            567899999998863211      223454444   34445666533 333333432      45688999999999999


Q ss_pred             cccc
Q 023298          193 LVTN  196 (284)
Q Consensus       193 ll~~  196 (284)
                      .+..
T Consensus       168 RmGa  171 (721)
T KOG0465|consen  168 RMGA  171 (721)
T ss_pred             hcCC
Confidence            9753

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.91  E-value=0.0017  Score=55.53  Aligned_cols=43  Identities=14%  Similarity=0.061  Sum_probs=36.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ..++..++++|++ |||||++..|+..+...|..+..+|-|+-.
T Consensus        15 ~~~~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~r   58 (184)
T TIGR00455        15 GHRGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNVR   58 (184)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChHHH
Confidence            3567789999999 999999999999998888888888877543

Important residue (active site in E.coli) is residue 100 of the seed alignment.

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

Probab=96.90  E-value=0.0015  Score=51.57  Aligned_cols=40  Identities=10%  Similarity=0.108  Sum_probs=33.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ...++|.||+ +||||++..++..+...+.++..++.....
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~   59 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLL   59 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhh
Confidence            4459999999 999999999999988777788888765444

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.90  E-value=0.0015  Score=56.12  Aligned_cols=34  Identities=6%  Similarity=-0.003  Sum_probs=30.3

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..|+|.|+. |||||+|..|+++|...|++|..+-
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~   38 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTR   38 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            349999999 9999999999999999999887653

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PRK08506 replicative DNA helicase; Provisional

Probab=96.89  E-value=0.011  Score=58.46  Aligned_cols=51  Identities=18%  Similarity=0.273  Sum_probs=39.9

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ||-+..|    |.+-..++|-|.| +||||++.+++..++..|.+|+++.|.-...
T Consensus       182 LD~~~~G----~~~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlEMs~~  233 (472)
T PRK08506        182 LNKMTKG----FNKGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLEMPAE  233 (472)
T ss_pred             HHhhcCC----CCCCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCcCCHH
Confidence            4555544    3444457888888 9999999999999988899999998876554

>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=96.89  E-value=0.0021  Score=54.86  Aligned_cols=28  Identities=11%  Similarity=0.179  Sum_probs=23.7

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCce
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTM   49 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v   49 (284)
                      +++.|++ +||||++..+.+.|...|.++
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~~~~~v   30 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKKKGLPV   30 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHHTCGGE
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhccCCcc
Confidence            7899999 999999999999997766554

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.

>PRK05632 phosphate acetyltransferase; Reviewed

Probab=96.88  E-value=0.034  Score=57.50  Aligned_cols=38  Identities=13%  Similarity=0.066  Sum_probs=33.0

Q ss_pred             eEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +.++|.|++  ||||+.|..|+++|.++|.+|.++=  |.+.
T Consensus         3 k~l~I~~T~t~~GKT~vslgL~~~L~~~G~~Vg~fK--Pi~~   42 (684)
T PRK05632          3 RSIYLAPTGTGVGLTSVSLGLMRALERKGVKVGFFK--PIAQ   42 (684)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEeC--Cccc
Confidence            358899997  9999999999999999999999865  6554

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=96.88  E-value=0.0029  Score=69.03  Aligned_cols=81  Identities=19%  Similarity=0.233  Sum_probs=48.9

Q ss_pred             CCCEEEEeCCCCccccc-----ccchHHHHHHHHHh---cCCCeEEEEEecCCCCC--CHHH------HHHHHHHHHHHH
Q 023298          114 DDDYLVFDCPGQIELFT-----HVPVLRNFVDHLKS---RNFNVCAVYLLDSQFIT--DVTK------FISGCMASLSAM  177 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-----~~~~~~~l~~~l~~---~d~~~vil~LiDa~~~~--~~~~------~i~~~l~~l~~~  177 (284)
                      ..+.|+|||+|..-.-.     ....-..+++.|++   ..-..-||+.||.....  ++..      .+...+..+...
T Consensus       160 ~~~avliDtaG~y~~~~~~~~~~~~~W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~  239 (1169)
T TIGR03348       160 TDEAVLIDTAGRYTTQDSDPEEDAAAWLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQ  239 (1169)
T ss_pred             cCCEEEEcCCCccccCCCcccccHHHHHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            34779999999653211     11223446666642   11123577778876542  3322      234444555555


Q ss_pred             HhcCCCEEEEecCCccc
Q 023298          178 VQLELPHVNILSKMDLV  194 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll  194 (284)
                      +....|+.+|++|+|++
T Consensus       240 lg~~~PVYvv~Tk~Dll  256 (1169)
T TIGR03348       240 LGARFPVYLVLTKADLL  256 (1169)
T ss_pred             hCCCCCEEEEEecchhh
Confidence            67789999999999997

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK13808 adenylate kinase; Provisional

Probab=96.87  E-value=0.055  Score=51.24  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=19.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++|+||| |||||+|..|++.+
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~y   24 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQY   24 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999 99999999999864

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.84  E-value=0.0037  Score=53.48  Aligned_cols=28  Identities=11%  Similarity=0.142  Sum_probs=24.1

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      ++|+|++ |||||+|..++..   .+.+++++
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~---~~~~~~y~   30 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE---LGGPVTYI   30 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh---cCCCeEEE
Confidence            6899999 9999999999864   56688887

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.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.83  E-value=0.0024  Score=56.41  Aligned_cols=49  Identities=16%  Similarity=0.181  Sum_probs=39.6

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ||-+..|   -+..-..++|.|++ +||||++.+++....+.|.++++|+++-
T Consensus         9 LD~~l~G---Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~   58 (229)
T TIGR03881         9 LDKLLEG---GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE   58 (229)
T ss_pred             HHHhhcC---CCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC
Confidence            5555543   35666779999999 9999999999987777899999999853

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.82  E-value=0.0018  Score=55.38  Aligned_cols=40  Identities=15%  Similarity=0.238  Sum_probs=30.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHh----------cCCceEEEecCcCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCET----------VRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~----------~g~~v~iVdLDPq~~   59 (284)
                      ...+|.|++ +||||++..++..++.          .+.+|++|+++-..+
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~   83 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSES   83 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHH
Confidence            358899999 9999999999999986          677999999887653

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=96.81  E-value=0.022  Score=53.74  Aligned_cols=148  Identities=20%  Similarity=0.267  Sum_probs=75.7

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC-----CCccccccccccHHHHhhhcCcccCchhhhhh-
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD-----YPVAMDIRELISLEDVMEELGLGPNGGLIYCM-   94 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~-----~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~-   94 (284)
                      .+|.|== |||||+..++.+...  |+|+++|=-+-+--...     -..+.++.++             +|| =+.|. 
T Consensus         4 tvitGFLGsGKTTlL~~lL~~~~--g~kiAVIVNEfGEvgID~~~~l~~~~e~~~El-------------~nG-CICCT~   67 (323)
T COG0523           4 TVITGFLGSGKTTLLNHLLANRD--GKKIAVIVNEFGEVGIDGGALLSDTGEEVVEL-------------TNG-CICCTV   67 (323)
T ss_pred             EEEeecCCCCHHHHHHHHHhccC--CCcEEEEEecCccccccCCCccccCCccEEEe-------------CCc-eEEEec
Confidence            5677765 999999999988755  88888763332221110     0001111111             333 34442 


Q ss_pred             -HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHH--HHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           95 -EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVD--HLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        95 -e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~--~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                       +.+...+ .-|.+ .+.  ..++++|=|.|..+...   ....+..  .+...-.-+-++-+||+..+......+...+
T Consensus        68 r~dl~~~~-~~L~~-~~~--~~D~ivIEtTGlA~P~p---v~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~  140 (323)
T COG0523          68 RDDLLPAL-ERLLR-RRD--RPDRLVIETTGLADPAP---VIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELA  140 (323)
T ss_pred             cchhHHHH-HHHHh-ccC--CCCEEEEeCCCCCCCHH---HHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHH
Confidence             1122222 11222 222  46899999999876421   1121211  1211101134788999976643332222221


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccch
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      .     .+..--=++|+||+|++.+.
T Consensus       141 ~-----~Qia~AD~ivlNK~Dlv~~~  161 (323)
T COG0523         141 E-----DQLAFADVIVLNKTDLVDAE  161 (323)
T ss_pred             H-----HHHHhCcEEEEecccCCCHH
Confidence            1     13333558999999999865

>PRK08181 transposase; Validated

Probab=96.81  E-value=0.0011  Score=60.80  Aligned_cols=43  Identities=16%  Similarity=0.133  Sum_probs=37.1

Q ss_pred             cc-ccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           12 YM-SWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        12 ~~-~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ++ +|..+...++++||+ +|||.++..++..+..+|++|.+++.
T Consensus        98 ~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~  142 (269)
T PRK08181         98 AGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT  142 (269)
T ss_pred             HHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH
Confidence            45 466677779999999 99999999999999999999888764

>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=96.80  E-value=0.0022  Score=52.09  Aligned_cols=36  Identities=17%  Similarity=0.250  Sum_probs=31.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ++++||+ +|||+++..+++.+   ++++..+++.++.+.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~~~~~i~~~~~~~~   38 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GRPVIRINCSSDTTE   38 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TCEEEEEE-TTTSTH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hcceEEEEecccccc
Confidence            7899999 99999999999988   889999988887763

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.

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.80  E-value=0.012  Score=56.34  Aligned_cols=219  Identities=15%  Similarity=0.198  Sum_probs=102.7

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      .+.|+|.. +||||++--|.+.--..|+--+-+|+=---.+..-...-.|..        +-.|+-.-|.++.-.+    
T Consensus       169 RvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~--------evlGFd~~g~vVNY~~----  236 (591)
T KOG1143|consen  169 RVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISN--------EVLGFDNRGKVVNYAQ----  236 (591)
T ss_pred             EEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccch--------hcccccccccccchhh----
Confidence            48899999 9999999988875444443333333311111000000001111        1123322233332111    


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCC-C-CCHHHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQF-I-TDVTKFISGCMASLSAM  177 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~-~-~~~~~~i~~~l~~l~~~  177 (284)
                      ++  -.++..++. ..-..|||-.|.....      +--+..|.. -......+++-+.+ + ....+.+.       ..
T Consensus       237 ~~--taEEi~e~S-SKlvTfiDLAGh~kY~------~TTi~gLtg-Y~Ph~A~LvVsA~~Gi~~tTrEHLg-------l~  299 (591)
T KOG1143|consen  237 NM--TAEEIVEKS-SKLVTFIDLAGHAKYQ------KTTIHGLTG-YTPHFACLVVSADRGITWTTREHLG-------LI  299 (591)
T ss_pred             cc--cHHHHHhhh-cceEEEeecccchhhh------eeeeeeccc-CCCceEEEEEEcCCCCccccHHHHH-------HH
Confidence            00  011122222 4457899999965421      101112322 11234445555543 2 22233221       22


Q ss_pred             HhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhH-HHHHHHHH--HHHHhccCCceEEEEeccCcccHH
Q 023298          178 VQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQ-FAKLNKSL--IELVDEYSMVSFMPLDLRKESSIR  254 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~-~~~l~~~i--~~~l~~~~~~~~ipiSa~~~~~l~  254 (284)
                      ..++.|++++++|+|+.++. .++.... +.+.|+...-....++ ...=..++  ++-...-+.+.++.+|.-.|+|+.
T Consensus       300 ~AL~iPfFvlvtK~Dl~~~~-~~~~tv~-~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~  377 (591)
T KOG1143|consen  300 AALNIPFFVLVTKMDLVDRQ-GLKKTVK-DLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLR  377 (591)
T ss_pred             HHhCCCeEEEEEeeccccch-hHHHHHH-HHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchh
Confidence            35688999999999998865 4544432 2233332221100000 00000111  122333456889999999999976


Q ss_pred             HHHHHHHHhcCCCCCCC
Q 023298          255 YVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       255 ~Ll~~I~~~l~~g~d~~  271 (284)
                       |+......++.+-..+
T Consensus       378 -ll~~fLn~Lsp~~~~~  393 (591)
T KOG1143|consen  378 -LLRTFLNCLSPAGTAE  393 (591)
T ss_pred             -HHHHHHhhcCCcCChH
Confidence             4555556666555444

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.80  E-value=0.0021  Score=55.28  Aligned_cols=40  Identities=5%  Similarity=-0.042  Sum_probs=34.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      .+.++.|+|+. |||||++..+...|...|.+|..|=-+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~~   45 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH   45 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcCC
Confidence            35568899999 99999999999999999999999876543

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=96.79  E-value=0.011  Score=58.97  Aligned_cols=27  Identities=11%  Similarity=-0.015  Sum_probs=22.9

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHH
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      +.--+...|+++|-. ||||+|...|++
T Consensus         4 ~~t~kdVRIvliGD~G~GKtSLImSL~~   31 (625)
T KOG1707|consen    4 DETLKDVRIVLIGDEGVGKTSLIMSLLE   31 (625)
T ss_pred             ccCccceEEEEECCCCccHHHHHHHHHh
Confidence            334466789999999 999999999987

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	284
1yr6_A	262	Pab0955 Crystal Structure : A Gtpase In Apo Form Fr		8e-08

>pdb|1YR6|A Chain A, Pab0955 Crystal Structure : A Gtpase In Apo Form From Pyrococcus Abyssi Length = 262

Iteration: 1
 Score = 54.3 bits (129), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 27/112 (24%), Positives = 55/112 (49%), Gaps = 2/112 (1%)
Query: 18  ALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLED 77
           ++++  V +    ++T      R+ E   +  + VNLD   +   Y  ++D+RE +++E+
Sbjct: 14  SMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAY-VNLDTGVKELPYEPSIDVREFVTVEE 72
Query: 78  VMEELGLGPNGGLIYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELF 129
           +M E G GPNG ++   + L +  +++              + D PGQ+E F
Sbjct: 73  IMRE-GYGPNGAIVESYDRLMEKFNEYLNKILRLEKENDYVLIDTPGQMETF 123

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	284
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	2e-62
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05

>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* Length = 262

 Score =  196 bits (500), Expect = 2e-62
 Identities = 46/243 (18%), Positives = 103/243 (42%), Gaps = 13/243 (5%)

Query: 31  QSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGL 90
           ++T      R+ E   +    VNLD   +   Y  ++D+RE +++E++M E G GPNG +
Sbjct: 27  KTTLTGEFGRYLEDNYKV-AYVNLDTGVKELPYEPSIDVREFVTVEEIMRE-GYGPNGAI 84

Query: 91  IYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVC 150
           +   + L +  +++L + L    ++DY++ D PGQ+E F         +++L        
Sbjct: 85  VESYDRLMEKFNEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVRLMENLPYP----L 140

Query: 151 AVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTN---KKEIEDYLNPE 207
            VY+ D + +     +      +L   ++L    +  L+K+DL++    ++  + + + +
Sbjct: 141 VVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEEKERHRKYFEDID 200

Query: 208 SQFLLSELNQHMAPQFAKLNKSLIELVDE-YSMVSFMPLDLRKESSIRYVLSQIDNCIQW 266
                 +L+  M      +   +  ++ E    V  + L  +       + +        
Sbjct: 201 YLTARLKLDPSM---QGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT 257

Query: 267 GED 269
             D
Sbjct: 258 CGD 260

>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 = 43.3 bits (101), Expect = 7e-05
 Identities = 50/326 (15%), Positives = 90/326 (27%), Gaps = 90/326 (27%)

Query: 6   DLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPV 65
           ++L   Y  +L + +      P      Y     R     +                Y V
Sbjct: 85  EVLRINY-KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV------FAK------YNV 131

Query: 66  AMDIRELISLEDVMEELGLGPNGGL-IYCM---------------EHLEDNLDD---WL- 105
           +  ++  + L   + EL   P   + I  +                 ++  +D    WL 
Sbjct: 132 SR-LQPYLKLRQALLELR--PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188

Query: 106 ------AEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVD-------HLKSRNFNVCAV 152
                  E +   L       D            +              LKS+ +  C +
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 153 YLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNP--ESQF 210
            LL+ Q       F   C                   K+ L T  K++ D+L+    +  
Sbjct: 249 VLLNVQNAKAWNAFNLSC-------------------KILLTTRFKQVTDFLSAATTTHI 289

Query: 211 LLSELNQHMAPQ-----FAK-LNKSLIELVDEYSMVSFMPLDLRKESSI----RYVLSQI 260
            L   +  + P        K L+    +L  E  +++  P  L   S I    R  L+  
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE--VLTTNPRRL---SIIAESIRDGLATW 344

Query: 261 DNCIQWGEDA-----DLKIKDFDPED 281
           DN      D      +  +   +P +
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAE 370

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	284
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.97
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.71
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.71
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.64
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.6
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.59
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.56
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.54
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.52
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.48
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	99.48
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.47
3end_A	307	Light-independent protochlorophyllide reductase ir	99.46
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.45
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.45
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.44
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.44
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.44
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	99.44
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.42
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	99.42
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	99.41
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.41
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.41
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	99.41
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.4
2xxa_A	433	Signal recognition particle protein; protein trans	99.4
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.39
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.39
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	99.39
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	99.38
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.38
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.38
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	99.38
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.38
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	99.37
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	99.37
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.37
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	99.37
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.37
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.37
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.37
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.37
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.37
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	99.36
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.36
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.36
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.36
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.36
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.35
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.35
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.35
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.35
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.35
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.35
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.34
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.34
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.34
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.34
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.34
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.34
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.34
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	99.34
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.33
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	99.33
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.33
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.33
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.33
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.33
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.33
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.32
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.32
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.32
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.32
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.32
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.32
3fwy_A	314	Light-independent protochlorophyllide reductase I	99.31
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.31
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.31
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.31
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.31
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.31
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.31
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	99.31
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.31
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	99.31
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	99.3
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.3
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.3
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.3
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.3
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.3
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.29
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.29
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.29
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.29
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.29
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.29
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.28
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.28
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.28
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.28
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.28
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.28
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	99.27
3cwq_A	209	Para family chromosome partitioning protein; alpha	99.27
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.27
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.27
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.27
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.27
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.27
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.26
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.26
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.26
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.26
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	99.25
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.25
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.25
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.25
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.25
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.25
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.25
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.25
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.25
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.24
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.24
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.24
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.24
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	99.24
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.23
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.23
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.23
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.23
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.23
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.23
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.22
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	99.22
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.22
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.22
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.22
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	99.2
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.2
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.2
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.19
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.19
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.19
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.19
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	99.19
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.19
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	99.19
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.18
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.18
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.18
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	99.18
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.17
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.17
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.17
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.17
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.17
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.17
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.16
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.16
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	99.16
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.16
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.16
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.15
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.15
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	99.15
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.15
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.14
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.14
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.14
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.14
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.13
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.13
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.13
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.13
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.12
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.12
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.12
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	99.12
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.12
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.11
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.11
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.1
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	99.1
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.69
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.09
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.08
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.07
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.06
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.06
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.06
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.06
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	99.06
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.06
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.05
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.05
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.04
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.04
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.04
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.03
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.03
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.03
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.02
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.02
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.02
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.01
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.99
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.98
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	98.98
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	98.97
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	98.97
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	98.96
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.93
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.92
2ged_A	193	SR-beta, signal recognition particle receptor beta	98.9
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	98.9
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	98.9
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.9
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.87
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.87
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	98.85
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.85
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	98.84
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	98.81
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.8
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.78
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	98.76
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	98.75
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.73
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.69
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	98.68
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	98.66
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.63
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.62
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.61
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.61
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.58
3igf_A	374	ALL4481 protein; two-domained protein consisting o	98.58
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.51
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.44
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.4
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.35
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.32
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	98.3
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.27
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	98.12
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	98.1
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.09
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	98.05
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.05
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.04
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	97.98
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.92
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.89
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	97.86
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.81
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	97.77
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.72
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.7
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.67
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.65
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.63
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	97.62
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.6
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.58
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.57
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.54
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.5
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.5
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	97.5
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.49
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.49
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.48
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.48
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.34
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.34
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.32
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.28
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.28
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.26
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.22
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.2
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.13
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.1
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.09
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.07
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.06
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.04
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.03
2og2_A	359	Putative signal recognition particle receptor; nuc	96.99
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.99
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.99
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.98
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.97
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.96
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.95
3bos_A	242	Putative DNA replication factor; P-loop containing	96.94
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.91
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.91
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.89
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.88
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.84
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.84
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	96.83
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.82
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.81
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.8
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.76
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.75
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.73
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.68
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.67
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.66
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.66
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.65
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.65
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.63
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.63
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.63
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.59
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.59
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.58
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.57
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.57
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.56
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.55
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.55
2qgz_A	308	Helicase loader, putative primosome component; str	96.51
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.49
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.49
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.48
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.45
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.45
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.45
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.44
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.43
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.41
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.41
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.41
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	96.41
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.4
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.39
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.39
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.38
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.37
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.37
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.37
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.36
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.35
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.32
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.32
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.29
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.29
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	96.28
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.28
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.27
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.26
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.26
1via_A	175	Shikimate kinase; structural genomics, transferase	96.26
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.25
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.24
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.23
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.23
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.2
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.19
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.19
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.18
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.18
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.17
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.16
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.16
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.16
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.13
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.11
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.11
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.1
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.1
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.1
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.09
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.08
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.07
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.06
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.03
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.02
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.99
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.98
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.96
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.94
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.93
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.93
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.92
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.92
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.85
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.84
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.82
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.79
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.78
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.77
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.76
3io5_A	333	Recombination and repair protein; storage dimer, i	95.76
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.75
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.75
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.75
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.74
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	95.7
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.66
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.66
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.62
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.61
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.61
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.59
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.58
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.57
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.55
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.55
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.55
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.53
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.52
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.51
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.51
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.47
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.47
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.45
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.45
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.44
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.41
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.39
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.36
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.33
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	95.32
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.32
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.29
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.27
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.26
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.22
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.21
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.17
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.15
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.11
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.09
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.08
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.05
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	95.03
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.0
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.99
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	94.98
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.94
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.9
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.89
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.89
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.85
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	94.85
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.82
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.82
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	94.81
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.78
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	94.75
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	94.66
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.65
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	94.64
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	94.63
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	94.63
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.6
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.58
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	94.58
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.53
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.5
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.49
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.48
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	94.45
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.42
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.37
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.36
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.35
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	94.33
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.32
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.3
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	94.22
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.12
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	94.11
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.06
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.06
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.06
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	94.03
1s1m_A	545	CTP synthase; CTP synthetase, UTP:ammonia ligase (	94.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	93.96
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	93.96
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	93.88
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	93.84
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	93.81
2fna_A	357	Conserved hypothetical protein; structural genomic	93.81
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	93.79
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	93.76
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	93.76
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	93.74
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.7
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	93.63
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	93.59

>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=99.97  E-value=2.8e-30  Score=229.97  Aligned_cols=246  Identities=20%  Similarity=0.336  Sum_probs=179.0

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhh
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIY   92 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~   92 (284)
                      .++-+..+++++|.| |||||++.+|+.+++ .|++|++||+|||.+.+++.+..++++..+..+++.+ +++|||.++.
T Consensus         9 ~~~~~~~i~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~   86 (262)
T 1yrb_A            9 HHGMASMIVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMRE-GYGPNGAIVE   86 (262)
T ss_dssp             CTTCCCEEEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCSSCSCCSSCCSEEGGGTCCHHHHHTT-TCCHHHHHHH
T ss_pred             cCCcceEEEEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCCCCccccCCCCCCChhhcccHHHHhhc-cCCCCCcEEe
Confidence            466778889999999 999999999999999 9999999999999998888888888888888888877 8889998888


Q ss_pred             hhHhhhhcHHHHHHHHhhccC-CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           93 CMEHLEDNLDDWLAEELDNYL-DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        93 ~~e~~~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                      +.+...... +++.+.++... +++++|+||||+.+.......+..+.+.+   .. +++++++|+....++..+.....
T Consensus        87 ~~~~~~~~~-~~l~~~l~~~~~~~d~iiiDtpG~~~~~~~~~l~~~~~~~~---~~-~~iv~vvD~~~~~~~~~~~~~~~  161 (262)
T 1yrb_A           87 SYDRLMEKF-NEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVRLMENL---PY-PLVVYISDPEILKKPNDYCFVRF  161 (262)
T ss_dssp             HHHHHHTTH-HHHHHHHHHHHHHCSEEEEECCSSHHHHHHSHHHHHHHHTS---SS-CEEEEEECGGGCCSHHHHHHHHH
T ss_pred             cHHHHhhhH-HHHHHHHHHHhhcCCEEEEeCCCccchhhhhhhHHHHHHHH---hh-ceEEeccchhhhcCHHHHHHHHH
Confidence            776554444 56666665442 47999999999987654444344444434   22 68999999877666666544332


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccchhhh---hhhcCcchHHHHHHhhh-cchhHHHHHHHHHHHHHhccCC-ceEEEEe
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNKKEI---EDYLNPESQFLLSELNQ-HMAPQFAKLNKSLIELVDEYSM-VSFMPLD  246 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~~~l---~~~l~~~~~~l~~~l~~-~~~~~~~~l~~~i~~~l~~~~~-~~~ipiS  246 (284)
                      .......+.++|.++|+||+|+.... +.   .++++ +.+.+.+.+.. ...+++.++  ++++.+++++. ..++|+|
T Consensus       162 ~~~~~~~~~~~p~~iv~NK~D~~~~~-~~~~~~~~l~-~~~~~~~~l~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~S  237 (262)
T 1yrb_A          162 FALLIDLRLGATTIPALNKVDLLSEE-EKERHRKYFE-DIDYLTARLKLDPSMQGLMAY--KMCSMMTEVLPPVRVLYLS  237 (262)
T ss_dssp             HHHHHHHHHTSCEEEEECCGGGCCHH-HHHHHHHHHH-CHHHHHHHHHHCCSHHHHHHH--HHHHHHHHHSCCCCCEECC
T ss_pred             HHHHHhcccCCCeEEEEecccccccc-cHHHHHHHHh-ChHHHHHHHhccccccchhHh--HHHHHHHHhcCcccceEEE
Confidence            22233345678999999999997543 22   22221 22223223211 123345443  67777777765 4899999


Q ss_pred             ccCcccHHHHHHHHHHhcCCCCCC
Q 023298          247 LRKESSIRYVLSQIDNCIQWGEDA  270 (284)
Q Consensus       247 a~~~~~l~~Ll~~I~~~l~~g~d~  270 (284)
                      |++++|+++|++.|.+.+++|||+
T Consensus       238 A~~~~gi~~l~~~i~~~~~~~~~~  261 (262)
T 1yrb_A          238 AKTREGFEDLETLAYEHYCTCGDL  261 (262)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHHC--
T ss_pred             ecCcccHHHHHHHHHHHhccccCC
Confidence            999999999999999999999985

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.71  E-value=1.9e-16  Score=145.55  Aligned_cols=180  Identities=14%  Similarity=0.157  Sum_probs=115.1

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCME   95 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e   95 (284)
                      ..+-.|.++|.+ ||||||...|.      |.++.++.-.||.+...      ++..                       
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~------g~~~~i~s~~~~tT~~~------~~~~-----------------------   52 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLL------GTKVSIISPKAGTTRMR------VLGV-----------------------   52 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHH------TSCCSCCCSSSCCCCSC------EEEE-----------------------
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHh------CCCccccCCCCCceeeE------EEEE-----------------------
Confidence            344568899999 99999999886      34444444444333110      0000                       


Q ss_pred             hhhhcHHHHHHHHhhccC-CCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHHHHHHHHH
Q 023298           96 HLEDNLDDWLAEELDNYL-DDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKFISGCMAS  173 (284)
Q Consensus        96 ~~~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~i~~~l~~  173 (284)
                                    .... +.+++|+||||+.....+...++.|..... .....+++++++|+....+..+.. .+   
T Consensus        53 --------------~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~-~~---  114 (308)
T 3iev_A           53 --------------KNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEE-IY---  114 (308)
T ss_dssp             --------------EEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHH-HH---
T ss_pred             --------------EecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHH-HH---
Confidence                          0011 447899999999874433555666654432 122247899999998654443321 11   


Q ss_pred             HHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCccc
Q 023298          174 LSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESS  252 (284)
Q Consensus       174 l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~  252 (284)
                      +..+.+.+.|+++|+||+|+..+...+.+..                          .++.+.+ .+..++|+||++|.|
T Consensus       115 ~~~l~~~~~pvilV~NK~Dl~~~~~~~~~~~--------------------------~~l~~~~~~~~~i~~vSA~~g~g  168 (308)
T 3iev_A          115 QNFIKPLNKPVIVVINKIDKIGPAKNVLPLI--------------------------DEIHKKHPELTEIVPISALKGAN  168 (308)
T ss_dssp             HHHTGGGCCCEEEEEECGGGSSSGGGGHHHH--------------------------HHHHHHCTTCCCEEECBTTTTBS
T ss_pred             HHHHHhcCCCEEEEEECccCCCCHHHHHHHH--------------------------HHHHHhccCCCeEEEEeCCCCCC
Confidence            2233456899999999999973221333222                          1122334 467899999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCCC
Q 023298          253 IRYVLSQIDNCIQWGEDADLKIK  275 (284)
Q Consensus       253 l~~Ll~~I~~~l~~g~d~~~~~~  275 (284)
                      +++|++.|.+.+++++...+.+.
T Consensus       169 v~~L~~~l~~~l~~~~~~~~~~~  191 (308)
T 3iev_A          169 LDELVKTILKYLPEGEPLFPEDM  191 (308)
T ss_dssp             HHHHHHHHHHHSCBCCCSSCTTC
T ss_pred             HHHHHHHHHHhCccCCCCCCccc
Confidence            99999999999999988776544

>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=99.71  E-value=8.5e-17  Score=150.70  Aligned_cols=198  Identities=13%  Similarity=0.068  Sum_probs=108.4

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHh--hhcCc--ccCchh
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVM--EELGL--GPNGGL   90 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm--~~~~l--gPng~l   90 (284)
                      -.+...+.++|++ |||||++.+|+..++..|++|.+++.||+........   +.+.+.....-  ....+  .|++..
T Consensus        76 ~~~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp~~~~~~g~~---l~d~~~~~~~~~~~~~~i~~~~~~~~  152 (355)
T 3p32_A           76 SGNAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDPSSTRTGGSI---LGDKTRMARLAVHPNAYIRPSPTSGT  152 (355)
T ss_dssp             CCCSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC-------------------CHHHHTCTTEEEECCC--CC
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecCCCCCcccchh---ccchhhHHhhccCCCeeEEECCCCcc
Confidence            3456779999999 9999999999999999999999999999987532210   00100000000  00000  011111


Q ss_pred             hhhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHH
Q 023298           91 IYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGC  170 (284)
Q Consensus        91 ~~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~  170 (284)
                      ..   .+.....+.+ ..++.. +++++||||||.....      .   ..+   ...+++++++|+...... ..+.. 
T Consensus       153 ~~---~~~~~t~d~i-~~~~~~-~~~~iiiDTpGi~~~~------~---~~~---~~aD~vl~V~d~~~~~~~-~~l~~-  213 (355)
T 3p32_A          153 LG---GVTRATRETV-VLLEAA-GFDVILIETVGVGQSE------V---AVA---NMVDTFVLLTLARTGDQL-QGIKK-  213 (355)
T ss_dssp             HH---HHHHHHHHHH-HHHHHT-TCCEEEEEECSCSSHH------H---HHH---TTCSEEEEEEESSTTCTT-TTCCT-
T ss_pred             cc---chhHHHHHHH-HHHhhC-CCCEEEEeCCCCCcHH------H---HHH---HhCCEEEEEECCCCCccH-HHHHH-
Confidence            11   1111111222 222222 6799999999954310      1   112   235789999997543221 11110 


Q ss_pred             HHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-----CC-ceEEE
Q 023298          171 MASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-----SM-VSFMP  244 (284)
Q Consensus       171 l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-----~~-~~~ip  244 (284)
                             ...++|.++|+||+|+.... .......                   .+    .+.+..+     ++ ..+++
T Consensus       214 -------~~~~~p~ivVlNK~Dl~~~~-~~~~~~~-------------------~l----~~~l~~~~~~~~~~~~~vi~  262 (355)
T 3p32_A          214 -------GVLELADIVVVNKADGEHHK-EARLAAR-------------------EL----SAAIRLIYPREALWRPPVLT  262 (355)
T ss_dssp             -------TSGGGCSEEEEECCCGGGHH-HHHHHHH-------------------HH----HHHHHHHSTTCCSCCCCEEE
T ss_pred             -------hHhhcCCEEEEECCCCcChh-HHHHHHH-------------------HH----HHHHhhccccccCCCCceEE
Confidence                   01346999999999986533 2222110                   01    1111111     22 57999


Q ss_pred             EeccCcccHHHHHHHHHHhcCC
Q 023298          245 LDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       245 iSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +||++|+|+++|++.|.+.+++
T Consensus       263 iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          263 MSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             EBGGGTBSHHHHHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999988765

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.64  E-value=1.7e-15  Score=138.99  Aligned_cols=122  Identities=13%  Similarity=0.083  Sum_probs=83.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhc--CCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQL--ELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~--~~p~IlVlN  189 (284)
                      +.+++++||||+..  ......+.+..... .....+++++++|+....+.. ..+..      .+.+.  +.|.++|+|
T Consensus        54 ~~~l~l~DTpG~~~--~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~------~l~~~~~~~p~ilV~N  125 (301)
T 1wf3_A           54 RRQIVFVDTPGLHK--PMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVAR------ALKPLVGKVPILLVGN  125 (301)
T ss_dssp             TEEEEEEECCCCCC--CCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHH------HHGGGTTTSCEEEEEE
T ss_pred             CcEEEEecCccccc--hhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHH------HHHhhcCCCCEEEEEE
Confidence            45789999999886  33444444544432 334467899999997543332 32322      22334  799999999


Q ss_pred             CCccccchhh-hhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          190 KMDLVTNKKE-IEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       190 K~Dll~~~~~-l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      |+|+.... . +.+..                          .++   .++..++|+||++|.|++.|++.|.+.+++++
T Consensus       126 K~Dl~~~~-~~~~~~~--------------------------~~~---~~~~~~~~iSA~~g~gv~~l~~~l~~~l~~~~  175 (301)
T 1wf3_A          126 KLDAAKYP-EEAMKAY--------------------------HEL---LPEAEPRMLSALDERQVAELKADLLALMPEGP  175 (301)
T ss_dssp             CGGGCSSH-HHHHHHH--------------------------HHT---STTSEEEECCTTCHHHHHHHHHHHHTTCCBCC
T ss_pred             CcccCCch-HHHHHHH--------------------------HHh---cCcCcEEEEeCCCCCCHHHHHHHHHHhcccCC
Confidence            99997644 2 21111                          111   45678999999999999999999999999888


Q ss_pred             CCCCC
Q 023298          269 DADLK  273 (284)
Q Consensus       269 d~~~~  273 (284)
                      ...+.
T Consensus       176 ~~y~~  180 (301)
T 1wf3_A          176 FFYPE  180 (301)
T ss_dssp             CSSCT
T ss_pred             CCCCc
Confidence            66543

>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=99.60  E-value=2.7e-15  Score=139.82  Aligned_cols=196  Identities=11%  Similarity=0.045  Sum_probs=108.4

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh-
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM-   94 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~-   94 (284)
                      .+...+.++|++ +||||++.+|+..+...|.+|.+++.||+........   +.+    ..-|++++..|++.+.... 
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~~d~~~~~~~~~i---l~d----~~~~~~~~~~~~~~i~~~~~  126 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSI---LGD----KTRMNDLARAEAAFIRPVPS  126 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC----------------------CTTTTCTTEEEEEECC
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeecCCcCCCCcce---ecc----cchHHhhccCCCceeecCcc
Confidence            455668899999 9999999999999999999999999999886432210   011    1112333444554221100 


Q ss_pred             -HhhhhcHHHHHHHHhhc--cCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           95 -EHLEDNLDDWLAEELDN--YLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        95 -e~~~~~~~~~l~~~l~~--~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                       ..+.....+.+ +.+..  ..+++++|+||||.....      ..    +.  ...+++++++|+....   . +.. +
T Consensus       127 ~~~l~g~~~~~~-~~~~~~~~~~~~i~liDTpG~~~~~------~~----~~--~~aD~vl~Vvd~~~~~---~-~~~-l  188 (341)
T 2p67_A          127 SGHLGGASQRAR-ELMLLCEAAGYDVVIVETVGVGQSE------TE----VA--RMVDCFISLQIAGGGD---D-LQG-I  188 (341)
T ss_dssp             -----CHHHHHH-HHHHHHHHTTCSEEEEEEECCTTHH------HH----HH--TTCSEEEEEECC----------CC-C
T ss_pred             ccccchhHHHHH-HHHHHhhccCCCEEEEeCCCccchH------HH----HH--HhCCEEEEEEeCCccH---H-HHH-H
Confidence             00000010111 11111  126799999999975411      11    11  2357899999985321   1 100 0


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC------CceEEEE
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS------MVSFMPL  245 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~------~~~~ipi  245 (284)
                      .   . ...+.|.++|+||+|+.... ......+                       .+.+.+..++      ...++|+
T Consensus       189 ~---~-~~~~~p~ivv~NK~Dl~~~~-~~~~~~~-----------------------~l~~~l~~~~~~~~~~~~~vi~i  240 (341)
T 2p67_A          189 K---K-GLMEVADLIVINKDDGDNHT-NVAIARH-----------------------MYESALHILRRKYDEWQPRVLTC  240 (341)
T ss_dssp             C---H-HHHHHCSEEEECCCCTTCHH-HHHHHHH-----------------------HHHHHHHHSCCSBTTBCCEEEEC
T ss_pred             H---H-hhhcccCEEEEECCCCCChH-HHHHHHH-----------------------HHHHHHHhccccccCCCCcEEEe
Confidence            0   0 11246899999999986532 2222110                       0111112222      3578999


Q ss_pred             eccCcccHHHHHHHHHHhcC
Q 023298          246 DLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       246 Sa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ||++|+|++.|++.|.+.++
T Consensus       241 SA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          241 SALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             BGGGTBSHHHHHHHHHHHHH
T ss_pred             eCCCCCCHHHHHHHHHHHHH
Confidence            99999999999999998765

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.59  E-value=9.1e-15  Score=133.99  Aligned_cols=126  Identities=12%  Similarity=0.135  Sum_probs=82.3

Q ss_pred             CCCEEEEeCCCCc-ccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQI-ELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~-e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.+++++||||+. ..  +......+..... .....+++++++|+.........+..      .+.+.+.|.++|+||+
T Consensus        55 ~~~i~~iDTpG~~~~~--~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~~~~~~~~i~~------~l~~~~~P~ilvlNK~  126 (301)
T 1ega_A           55 AYQAIYVDTPGLHMEE--KRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLN------KLREGKAPVILAVNKV  126 (301)
T ss_dssp             TEEEEEESSSSCCHHH--HHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCHHHHHHHH------HHHSSSSCEEEEEEST
T ss_pred             CeeEEEEECcCCCccc--hhhHHHHHHHHHHHHHhcCCEEEEEEeCCCCCHHHHHHHH------HHHhcCCCEEEEEECc
Confidence            4478999999986 31  1122222322222 24556889999999763323333322      2234689999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~  271 (284)
                      |+...+..+.+.+                          .++.+.+++..++|+||+++.|++.|++.|.+.+++++...
T Consensus       127 D~~~~~~~~~~~l--------------------------~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l~~~~~~~  180 (301)
T 1ega_A          127 DNVQEKADLLPHL--------------------------QFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEATHHF  180 (301)
T ss_dssp             TTCCCHHHHHHHH--------------------------HHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCCBCCCSS
T ss_pred             ccCccHHHHHHHH--------------------------HHHHHhcCcCceEEEECCCCCCHHHHHHHHHHhCCcCCCCC
Confidence            9875221222221                          22224466678999999999999999999999999987665


Q ss_pred             CC
Q 023298          272 LK  273 (284)
Q Consensus       272 ~~  273 (284)
                      +.
T Consensus       181 ~~  182 (301)
T 1ega_A          181 PE  182 (301)
T ss_dssp             CT
T ss_pred             Cc
Confidence            44

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.56  E-value=4.5e-14  Score=121.52  Aligned_cols=131  Identities=15%  Similarity=0.089  Sum_probs=77.2

Q ss_pred             CCCEEEEeCCCCcccccccchH---HHHH-HHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVL---RNFV-DHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~---~~l~-~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlN  189 (284)
                      +.++.++||||+..........   ..+. ..+......++++|++|+....+....  .+   +..+...+.|+++|+|
T Consensus        78 ~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~--~~---~~~l~~~~~p~i~v~n  152 (223)
T 4dhe_A           78 EPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDR--RM---IEWFAPTGKPIHSLLT  152 (223)
T ss_dssp             SCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHH--HH---HHHHGGGCCCEEEEEE
T ss_pred             CCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHH--HH---HHHHHhcCCCEEEEEe
Confidence            4689999999965432111111   1222 234444445789999999754333221  11   2233457899999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHh--ccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVD--EYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~--~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+|+.... +.....+                   .+...+.....  ......++++||++|.|+++|++.|.+.++..
T Consensus       153 K~Dl~~~~-~~~~~~~-------------------~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          153 KCDKLTRQ-ESINALR-------------------ATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             CGGGSCHH-HHHHHHH-------------------HHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             ccccCChh-hHHHHHH-------------------HHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence            99997644 3322221                   01111111111  12457899999999999999999999998765


Q ss_pred             CC
Q 023298          268 ED  269 (284)
Q Consensus       268 ~d  269 (284)
                      ..
T Consensus       213 ~~  214 (223)
T 4dhe_A          213 AA  214 (223)
T ss_dssp             --
T ss_pred             CC
Confidence            43

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.54  E-value=1.7e-13  Score=111.15  Aligned_cols=111  Identities=9%  Similarity=0.082  Sum_probs=70.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+......   ...+..... .....+++++++|+....+ ....+..+      +.+.+.|+++|+||+|
T Consensus        49 ~~~~l~Dt~G~~~~~~~---~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~------~~~~~~p~ilv~nK~D  119 (161)
T 2dyk_A           49 GRFLLVDTGGLWSGDKW---EKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEY------LRRKGKPVILVATKVD  119 (161)
T ss_dssp             EEEEEEECGGGCSSSSC---CHHHHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHH------HHHHTCCEEEEEECCC
T ss_pred             ceEEEEECCCCCCccch---HHHHHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHH------HHhcCCCEEEEEECcc
Confidence            46899999998763211   111222111 1223468999999976433 22333332      2236789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+.+..++                               ..+++..++++||++|.|++++++.+.+.+|
T Consensus       120 l~~~~~~~~~~-------------------------------~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  161 (161)
T 2dyk_A          120 DPKHELYLGPL-------------------------------YGLGFGDPIPTSSEHARGLEELLEAIWERLP  161 (161)
T ss_dssp             SGGGGGGCGGG-------------------------------GGGSSCSCEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             cccchHhHHHH-------------------------------HhCCCCCeEEEecccCCChHHHHHHHHHhCc
Confidence            87532111111                               1344557999999999999999999988765

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.52  E-value=2.9e-13  Score=113.13  Aligned_cols=123  Identities=20%  Similarity=0.259  Sum_probs=76.5

Q ss_pred             CCCEEEEeCCCCccccccc---chHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHV---PVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~---~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlVl  188 (284)
                      +.++.++||||........   .....+.+. +......+++++++|+....+... .+..      .+...+.|+++|+
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~------~~~~~~~p~i~v~  140 (195)
T 3pqc_A           67 NSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVE------WMKSLNIPFTIVL  140 (195)
T ss_dssp             TTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHH------HHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHH------HHHHcCCCEEEEE
Confidence            4578999999954321110   111222232 333344578999999865433322 2222      2335589999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ||+|+.... +.....                       ..+.+.+..++...++++||++|+|++++++.|.+.+++
T Consensus       141 nK~Dl~~~~-~~~~~~-----------------------~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          141 TKMDKVKMS-ERAKKL-----------------------EEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             ECGGGSCGG-GHHHHH-----------------------HHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             EChhcCChH-HHHHHH-----------------------HHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            999997543 332221                       112333455566789999999999999999999988764

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.48  E-value=3e-13  Score=132.42  Aligned_cols=202  Identities=9%  Similarity=0.045  Sum_probs=108.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCc--ccCchhhhh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGL--GPNGGLIYC   93 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~l--gPng~l~~~   93 (284)
                      .++..|+|+|++ |||||++.+|+.++++.|++|++|+.||+....     ++.  + .  ......++  .+.+.-...
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa-----~~q--L-~--~~~~~~~i~v~~~~~~~dp  168 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGA-----FDQ--L-K--QNATKARIPFYGSYTEMDP  168 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHH-----HHH--H-H--HHHHHHTCCEEECCCCSCH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhH-----HHH--H-H--HHhhccCceEEccCCCCCH
Confidence            457789999999 999999999999999999999999999987531     110  0 0  00011111  000000000


Q ss_pred             hHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH
Q 023298           94 MEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS  173 (284)
Q Consensus        94 ~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~  173 (284)
                      .+.+...+    . .+.. .+++++||||||....  .......+....... .++.+++++|+....+..... .    
T Consensus       169 ~~i~~~al----~-~~~~-~~~DvvIIDTpG~~~~--~~~l~~el~~~~~~i-~pd~vllVvDa~~g~~~~~~a-~----  234 (504)
T 2j37_W          169 VIIASEGV----E-KFKN-ENFEIIIVDTSGRHKQ--EDSLFEEMLQVANAI-QPDNIVYVMDASIGQACEAQA-K----  234 (504)
T ss_dssp             HHHHHHHH----H-HHHH-TTCCEEEEEECCCCTT--CHHHHHHHHHHHHHH-CCSEEEEEEETTCCTTHHHHH-H----
T ss_pred             HHHHHHHH----H-HHHH-CCCcEEEEeCCCCccc--chhHHHHHHHHHhhh-cCceEEEEEeccccccHHHHH-H----
Confidence            11111111    1 1211 2679999999998752  112222232222211 246789999997543322211 1    


Q ss_pred             HHHHHhcCCCE-EEEecCCccccchhhhhhhcCcchHHHHHHhhhc----c-hhHHHHHHHHHHHHHhccCCceEEEEec
Q 023298          174 LSAMVQLELPH-VNILSKMDLVTNKKEIEDYLNPESQFLLSELNQH----M-APQFAKLNKSLIELVDEYSMVSFMPLDL  247 (284)
Q Consensus       174 l~~~~~~~~p~-IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~----~-~~~~~~l~~~i~~~l~~~~~~~~ipiSa  247 (284)
                        .+.. .+|+ ++|+||+|...+........        .....+    . ..          .+.+-..|....++|+
T Consensus       235 --~~~~-~~~i~gvVlNK~D~~~~~g~~l~~~--------~~~g~PI~fig~ge----------~~~dl~~f~~~~~vsa  293 (504)
T 2j37_W          235 --AFKD-KVDVASVIVTKLDGHAKGGGALSAV--------AATKSPIIFIGTGE----------HIDDFEPFKTQPFISK  293 (504)
T ss_dssp             --HHHH-HHCCCCEEEECTTSCCCCTHHHHHH--------HHHCCCEEEEECSS----------STTCEECCTHHHHHHC
T ss_pred             --HHHh-hcCceEEEEeCCccccchHHHHHHH--------HHhCCCeEEecccc----------chhhhhccCcceeeeh
Confidence              1112 2574 99999999864331111111        000000    0 00          0001122344567899


Q ss_pred             cCccc-HHHHHHHHHHh
Q 023298          248 RKESS-IRYVLSQIDNC  263 (284)
Q Consensus       248 ~~~~~-l~~Ll~~I~~~  263 (284)
                      ..|.| +..|++.+.+.
T Consensus       294 l~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          294 LLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CCTTTTTTTTHHHHTTT
T ss_pred             hcCCCcHHHHHHHHHHH
Confidence            99999 99999999887

>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=99.48  E-value=4.5e-14  Score=135.84  Aligned_cols=150  Identities=13%  Similarity=0.115  Sum_probs=85.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCc--ccCchhhhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGL--GPNGGLIYCM   94 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~l--gPng~l~~~~   94 (284)
                      +|..++++|++ |||||++.+|+.+++..|++|++|++|||....-.       .+   ....+..++  .|.+.  ..-
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~-------qL---~~~~~~~gv~v~~~~~--~~~  165 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYE-------QL---KQLAEKIHVPIYGDET--RTK  165 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGG-------SS---HHHHHHSSCCEECCSS--SCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHH-------HH---HHhhhccCcceEecCC--CCC
Confidence            45779999999 99999999999999999999999999999764211       11   111111111  11110  000


Q ss_pred             HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                      +.    . +.+.+.++...+++++||||||....  .......+ ..+.+...++.+++++|+....+   .+. .   .
T Consensus       166 dp----~-~i~~~~l~~~~~~D~vIIDT~G~~~~--~~~l~~~l-~~i~~~~~~d~vllVvda~~g~~---~~~-~---~  230 (432)
T 2v3c_C          166 SP----V-DIVKEGMEKFKKADVLIIDTAGRHKE--EKGLLEEM-KQIKEITNPDEIILVIDGTIGQQ---AGI-Q---A  230 (432)
T ss_dssp             SS----S-TTHHHHHHTTSSCSEEEEECCCSCSS--HHHHHHHH-HHTTSSSCCSEEEEEEEGGGGGG---HHH-H---H
T ss_pred             CH----H-HHHHHHHHHhhCCCEEEEcCCCCccc--cHHHHHHH-HHHHHHhcCcceeEEeeccccHH---HHH-H---H
Confidence            00    0 00112222223679999999997651  11112222 12222234678899999854321   111 1   1


Q ss_pred             HHHHhcCC-C-EEEEecCCcccc
Q 023298          175 SAMVQLEL-P-HVNILSKMDLVT  195 (284)
Q Consensus       175 ~~~~~~~~-p-~IlVlNK~Dll~  195 (284)
                      .. .+... | ..+|+||+|...
T Consensus       231 ~~-~~~~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          231 KA-FKEAVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             HH-HHTTSCSCEEEEEECSSSCS
T ss_pred             HH-HhhcccCCeEEEEeCCCCcc
Confidence            11 12235 6 899999999864

>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=99.47  E-value=1.3e-12  Score=109.71  Aligned_cols=122  Identities=11%  Similarity=0.126  Sum_probs=74.1

Q ss_pred             CCCEEEEeCCCCccccccc---chHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHHHHhcCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHV---PVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSAMVQLELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~---~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~~~~~~~p~IlVl  188 (284)
                      +.++.++||||........   .....+... +......+++++++|+....+.... +..      .+...+.|+++|+
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~------~~~~~~~p~i~v~  141 (195)
T 1svi_A           68 NDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYE------FLKYYGIPVIVIA  141 (195)
T ss_dssp             TTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHH------HHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHH------HHHHcCCCEEEEE
Confidence            3478999999954321111   111122222 3333334789999998765443332 222      2334689999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ||+|+.... ++....+                       .+.+.+.......++++||++|+|++++++.|.+.++
T Consensus       142 nK~Dl~~~~-~~~~~~~-----------------------~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          142 TKADKIPKG-KWDKHAK-----------------------VVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             ECGGGSCGG-GHHHHHH-----------------------HHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             ECcccCChH-HHHHHHH-----------------------HHHHHHcccCCCceEEEEccCCCCHHHHHHHHHHHhc
Confidence            999997644 3322110                       1122222233478999999999999999999988765

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.45  E-value=2.5e-13  Score=130.35  Aligned_cols=116  Identities=11%  Similarity=0.139  Sum_probs=68.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+...  ......++..... ....+++++|++|+....++.+ .+...      +.+.++|+++|+||+
T Consensus        50 ~~~~~l~DT~G~~~~--~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~------l~~~~~pvilv~NK~  121 (436)
T 2hjg_A           50 NYDFNLIDTGGIDIG--DEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKI------LYRTKKPVVLAVNKL  121 (436)
T ss_dssp             SSCCEEEC-----------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH------HTTCCSCEEEEEECC
T ss_pred             CceEEEEECCCCCCc--chhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHH------HHHcCCCEEEEEECc
Confidence            457899999998632  1122333322221 1122468999999976544433 23222      335789999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      |+.....+..++.                               ..++..++++||++|.|+.+|++.|.+.+++.+
T Consensus       122 D~~~~~~~~~~~~-------------------------------~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~~~  167 (436)
T 2hjg_A          122 DNTEMRANIYDFY-------------------------------SLGFGEPYPISGTHGLGLGDLLDAVAEHFKNIP  167 (436)
T ss_dssp             CC-----CCCSSG-------------------------------GGSSCCCEECBTTTTBTHHHHHHHHHHTGGGCC
T ss_pred             cCccchhhHHHHH-------------------------------HcCCCCeEEEeCcCCCChHHHHHHHHHhcCccc
Confidence            9865321111111                               234558899999999999999999999998654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.45  E-value=5.9e-13  Score=114.63  Aligned_cols=180  Identities=10%  Similarity=0.123  Sum_probs=105.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcC----cccCchhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELG----LGPNGGLIY   92 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~----lgPng~l~~   92 (284)
                      +...++|+|++ |||||++.+|+.++... +++.+|+.||+.+   +    |-..       ++..+    ..++|+.. 
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~-~~~~~i~~d~~~~---~----d~~~-------~~~~~~~~~~~~~~~~~-   92 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNE-VKIGAMLGDVVSK---A----DYER-------VRRFGIKAEAISTGKEC-   92 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTT-SCEEEEECSCCCH---H----HHHH-------HHTTTCEEEECCCTTCS-
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccC-CeEEEEecCCCCc---h----hHHH-------HHhCCCcEEEecCCcee-
Confidence            45679999999 99999999999988655 7899999999743   1    1100       01101    01222221 


Q ss_pred             hhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHH
Q 023298           93 CMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMA  172 (284)
Q Consensus        93 ~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~  172 (284)
                      ++.      .+++.+.+....+.+++++||||++..-.+          + ... ...+++++|+......   ....  
T Consensus        93 ~~~------~~~~~~~~~~~~~~d~iiidt~G~~~~~~~----------~-~~~-~~~~i~vvd~~~~~~~---~~~~--  149 (221)
T 2wsm_A           93 HLD------AHMIYHRLKKFSDCDLLLIENVGNLICPVD----------F-DLG-ENYRVVMVSVTEGDDV---VEKH--  149 (221)
T ss_dssp             SCC------HHHHHTTGGGGTTCSEEEEEEEEBSSGGGG----------C-CCS-CSEEEEEEEGGGCTTH---HHHC--
T ss_pred             ecc------cHHHHHHHHhcCCCCEEEEeCCCCCCCCch----------h-ccc-cCcEEEEEeCCCcchh---hhhh--
Confidence            110      122333332222679999999996321111          1 011 2457889998654321   1111  


Q ss_pred             HHHHHHhcCCCEEEEecCCccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCc
Q 023298          173 SLSAMVQLELPHVNILSKMDLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKE  250 (284)
Q Consensus       173 ~l~~~~~~~~p~IlVlNK~Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~  250 (284)
                          ....+.|.++|+||+|+.... .+..+..                           +.+...+ ...++++||++|
T Consensus       150 ----~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~---------------------------~~~~~~~~~~~i~~~Sa~~g  198 (221)
T 2wsm_A          150 ----PEIFRVADLIVINKVALAEAVGADVEKMK---------------------------ADAKLINPRAKIIEMDLKTG  198 (221)
T ss_dssp             ----HHHHHTCSEEEEECGGGHHHHTCCHHHHH---------------------------HHHHHHCTTSEEEECBTTTT
T ss_pred             ----hhhhhcCCEEEEecccCCcchhhHHHHHH---------------------------HHHHHhCCCCeEEEeecCCC
Confidence                112357999999999986421 0111111                           1112222 368999999999


Q ss_pred             ccHHHHHHHHHHhcCCC
Q 023298          251 SSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       251 ~~l~~Ll~~I~~~l~~g  267 (284)
                      +|+++|++.|.+.+...
T Consensus       199 ~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          199 KGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             BTHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHHH
Confidence            99999999998877543

>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=99.44  E-value=6.4e-13  Score=119.96  Aligned_cols=119  Identities=16%  Similarity=0.209  Sum_probs=75.9

Q ss_pred             CCCEEEEeCCCCcccccc---cchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTH---VPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~---~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||+......   ....+.+.+........+++++++|+...   ...    +.....+...+.|+++|+||
T Consensus        49 ~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~---~~~----~~~~~~l~~~~~p~ivv~NK  121 (274)
T 3i8s_A           49 DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNL---ERN----LYLTLQLLELGIPCIVALNM  121 (274)
T ss_dssp             SCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGGH---HHH----HHHHHHHHHHTCCEEEEEEC
T ss_pred             CCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCCh---HHH----HHHHHHHHhcCCCEEEEEEC
Confidence            457899999998764321   23333444443222335789999998642   222    12223445668999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +|+.... .+....    +               .+.       +.++ ..++++||++|.|+++|++.|.+.++..
T Consensus       122 ~Dl~~~~-~~~~~~----~---------------~l~-------~~lg-~~~i~~SA~~g~gi~el~~~i~~~~~~~  170 (274)
T 3i8s_A          122 LDIAEKQ-NIRIEI----D---------------ALS-------ARLG-CPVIPLVSTRGRGIEALKLAIDRYKANE  170 (274)
T ss_dssp             HHHHHHT-TEEECH----H---------------HHH-------HHHT-SCEEECCCGGGHHHHHHHHHHHTCCCCC
T ss_pred             ccchhhh-hHHHHH----H---------------HHH-------HhcC-CCEEEEEcCCCCCHHHHHHHHHHHHhcC
Confidence            9986533 221111    0               111       1223 5899999999999999999999988754

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.44  E-value=1.4e-13  Score=128.63  Aligned_cols=122  Identities=19%  Similarity=0.275  Sum_probs=83.1

Q ss_pred             CCEEEEeCCCCcccc-cccchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHH--hcCCCEEEEec
Q 023298          115 DDYLVFDCPGQIELF-THVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMV--QLELPHVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~-~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~--~~~~p~IlVlN  189 (284)
                      .+++++||||+++.. .+..+...+++++..+   ++++|++|++..  .++...+..+...+..+.  ..++|.++|+|
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~---d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~N  282 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERT---RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVAN  282 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC---CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEE
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHHhc---cEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEE
Confidence            578999999987642 3445567777777653   589999999763  344444444444443332  24799999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC-ceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM-VSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~-~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      |+|+...+..+..+                              .+.++. ..++++||++++|+++|++.|.+.+...+
T Consensus       283 K~Dl~~~~e~~~~l------------------------------~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~~~  332 (342)
T 1lnz_A          283 KMDMPEAAENLEAF------------------------------KEKLTDDYPVFPISAVTREGLRELLFEVANQLENTP  332 (342)
T ss_dssp             CTTSTTHHHHHHHH------------------------------HHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTSCC
T ss_pred             CccCCCCHHHHHHH------------------------------HHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHhhCc
Confidence            99987533111111                              122221 57899999999999999999999997655


Q ss_pred             C
Q 023298          269 D  269 (284)
Q Consensus       269 d  269 (284)
                      .
T Consensus       333 ~  333 (342)
T 1lnz_A          333 E  333 (342)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.44  E-value=2.1e-12  Score=106.26  Aligned_cols=113  Identities=12%  Similarity=0.171  Sum_probs=69.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+.+.   ...   ....+..   .+++++++|+....+.. .+..++..+......+.|+++|+||+|+.
T Consensus        64 ~~~~l~Dt~G~~~~---~~~---~~~~~~~---~d~~i~v~d~~~~~s~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl~  133 (179)
T 1z0f_A           64 IKLQIWDTAGQERF---RAV---TRSYYRG---AAGALMVYDITRRSTYN-HLSSWLTDARNLTNPNTVIILIGNKADLE  133 (179)
T ss_dssp             EEEEEEECTTGGGT---CHH---HHHHHHT---CSEEEEEEETTCHHHHH-THHHHHHHHHHHSCTTCEEEEEEECTTCG
T ss_pred             EEEEEEECCCChHh---hhh---HHHHhcc---CCEEEEEEeCcCHHHHH-HHHHHHHHHHHhcCCCCcEEEEEECcccc
Confidence            36899999996541   111   1222333   36789999986432111 13344443444444678999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ... ....      +                   .+.++...++ ..++++||++|.|++++++.|.+.+
T Consensus       134 ~~~-~~~~------~-------------------~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i  176 (179)
T 1z0f_A          134 AQR-DVTY------E-------------------EAKQFAEENG-LLFLEASAKTGENVEDAFLEAAKKI  176 (179)
T ss_dssp             GGC-CSCH------H-------------------HHHHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccc-ccCH------H-------------------HHHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            432 1100      0                   0011223333 5899999999999999999887765

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=99.44  E-value=4.2e-13  Score=119.32  Aligned_cols=162  Identities=15%  Similarity=0.201  Sum_probs=88.7

Q ss_pred             CceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC---CCCccccccccc---cHHHHh---hhcCccc
Q 023298           18 ALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF---DYPVAMDIRELI---SLEDVM---EELGLGP   86 (284)
Q Consensus        18 ~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~---~~~~~~dir~~i---~~~~vm---~~~~lgP   86 (284)
                      +++++.|+++ | +||||++.+||.+|++.|+||++||+|||++..   .......+.+.+   .+++++   .++.+.|
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~~~~l~~~~~~~l~~~l~~~~~~~~i~~~~~l~vlp   84 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARLGKRVLLVDLDPQGNATSGLGVRAERGVYHLLQGEPLEGLVHPVDGFHLLP   84 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTCHHHHHTTCCCSCCHHHHHTTCCGGGTCEEETTEEEEC
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHCCCCEEEEECCCCcCHHHHhCCCCCCCHHHHHcCCCHHHHccccCCEEEEe
Confidence            3455777754 6 999999999999999999999999999997632   222111121111   122221   2344455


Q ss_pred             CchhhhhhHh-hhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH
Q 023298           87 NGGLIYCMEH-LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK  165 (284)
Q Consensus        87 ng~l~~~~e~-~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~  165 (284)
                      .+.-....+. +.... +.+.+.++. .+++||||||||.....        ....+..+   +.++.++.+.... - .
T Consensus        85 ~~~~~~~~~~~l~~~~-~~l~~~l~~-~~yD~iiiD~pp~~~~~--------~~~~l~~a---D~viiv~~~~~~s-~-~  149 (257)
T 1wcv_1           85 ATPDLVGATVELAGAP-TALREALRD-EGYDLVLLDAPPSLSPL--------TLNALAAA---EGVVVPVQAEYYA-L-E  149 (257)
T ss_dssp             CCTTHHHHHHHHTTCT-THHHHHCCC-TTCSEEEEECCSSCCHH--------HHHHHHHC---SEEEEEEESSTHH-H-H
T ss_pred             CChhHHHHHHHHhhHH-HHHHHHhcc-cCCCEEEEeCCCCCCHH--------HHHHHHHC---CeEEEEecCchHH-H-H
Confidence            5443332221 11110 234555554 47899999999976421        12234343   4566666653221 0 1


Q ss_pred             HHHHHHHHHHHHH---hcCCCEE-EEecCCccc
Q 023298          166 FISGCMASLSAMV---QLELPHV-NILSKMDLV  194 (284)
Q Consensus       166 ~i~~~l~~l~~~~---~~~~p~I-lVlNK~Dll  194 (284)
                      -+...+..+..+.   +.+.+.+ +|+|+.+..
T Consensus       150 ~~~~~~~~l~~~~~~~~~~~~~~gvv~N~~~~~  182 (257)
T 1wcv_1          150 GVAGLLATLEEVRAGLNPRLRLLGILVTMYDGR  182 (257)
T ss_dssp             HHHHHHHHHHHHHHHTCTTCEEEEEEEESBCTT
T ss_pred             HHHHHHHHHHHHHHHhCCCceEEEEEEEeECCC
Confidence            1222223233222   2345664 899999863

>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=99.42  E-value=8.3e-13  Score=118.31  Aligned_cols=115  Identities=18%  Similarity=0.257  Sum_probs=72.6

Q ss_pred             CCCEEEEeCCCCccccccc---chHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHV---PVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~---~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||+.......   ...+.+.+..-.....+++++++|+..   +..+.    .....+...+.|+++|+||
T Consensus        47 ~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~---~~~~~----~l~~~l~~~~~pvilv~NK  119 (256)
T 3iby_A           47 EHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACH---LERHL----YLTSQLFELGKPVVVALNM  119 (256)
T ss_dssp             TEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGG---HHHHH----HHHHHHTTSCSCEEEEEEC
T ss_pred             CeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCC---chhHH----HHHHHHHHcCCCEEEEEEC
Confidence            3478999999987643211   223344443321123578999999964   22221    2233455678999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +|+..++ .+....    +               .+.       +..+ ..++|+||++|.|+++|++.|.+.
T Consensus       120 ~Dl~~~~-~~~~~~----~---------------~l~-------~~lg-~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          120 MDIAEHR-GISIDT----E---------------KLE-------SLLG-CSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             HHHHHHT-TCEECH----H---------------HHH-------HHHC-SCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             hhcCCcC-CcHHHH----H---------------HHH-------HHcC-CCEEEEECCCCCCHHHHHHHHHhh
Confidence            9987543 221111    0               111       1223 589999999999999999999987

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=99.42  E-value=1.3e-12  Score=111.20  Aligned_cols=137  Identities=8%  Similarity=0.102  Sum_probs=79.1

Q ss_pred             eEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           20 VIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        20 ~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      +++.|.|+ | +||||++.+||.+|++.|++|++||+|||.+...|-.   .+.        .++.+.|.+.     +.+
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD~D~~~~~~~~~~---~~~--------~~~~~~~~~~-----~~l   65 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGYNIAVVDTDPQMSLTNWSK---AGK--------AAFDVFTAAS-----EKD   65 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCHHHHHHT---TSC--------CSSEEEECCS-----HHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEECCCCCCHHHHHh---cCC--------CCCcEEecCc-----HHH
Confidence            45667755 6 9999999999999999999999999999998543310   000        0011222211     111


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM  177 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~  177 (284)
                      ...    + +.+.+  ++++|+|||||.....        ....+..+   +.++.++......  .. +...+..+..+
T Consensus        66 ~~~----l-~~l~~--~yD~viiD~~~~~~~~--------~~~~l~~a---d~viiv~~~~~~~--~~-~~~~~~~l~~~  124 (206)
T 4dzz_A           66 VYG----I-RKDLA--DYDFAIVDGAGSLSVI--------TSAAVMVS---DLVIIPVTPSPLD--FS-AAGSVVTVLEA  124 (206)
T ss_dssp             HHT----H-HHHTT--TSSEEEEECCSSSSHH--------HHHHHHHC---SEEEEEECSCTTT--HH-HHHHHHHHHTT
T ss_pred             HHH----H-HHhcC--CCCEEEEECCCCCCHH--------HHHHHHHC---CEEEEEecCCHHH--HH-HHHHHHHHHHH
Confidence            111    1 22332  6899999999976311        22334443   4566666664333  22 22222222211


Q ss_pred             H--hcCCCEEEEecCCcc
Q 023298          178 V--QLELPHVNILSKMDL  193 (284)
Q Consensus       178 ~--~~~~p~IlVlNK~Dl  193 (284)
                      .  +.+.++.+|+||++.
T Consensus       125 ~~~~~~~~~~vv~N~~~~  142 (206)
T 4dzz_A          125 QAYSRKVEARFLITRKIE  142 (206)
T ss_dssp             SCGGGCCEEEEEECSBCT
T ss_pred             HHhCCCCcEEEEEeccCC
Confidence            1  224677999999985

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=99.41  E-value=2.7e-12  Score=112.20  Aligned_cols=157  Identities=13%  Similarity=0.082  Sum_probs=84.7

Q ss_pred             ceEEEEECC-C-CcHHHHHHHHHHHHHhc-CCceEEEecCcC-CCCCCC----CccccccccccH---------HHHh--
Q 023298           19 LVIKCVFSP-P-PNQSTYCSSLYRHCETV-RRTMHIVNLDPA-AENFDY----PVAMDIRELISL---------EDVM--   79 (284)
Q Consensus        19 ~~~~~viG~-~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq-~~~~~~----~~~~dir~~i~~---------~~vm--   79 (284)
                      ++++.|+|+ | +||||++.+||.+|++. |+||++||+||| .+...+    .+...+.+.+.-         +.++  
T Consensus         4 ~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~   83 (245)
T 3ea0_A            4 KRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDISLPFGDLDMYLSGNTHSQDLADISNASDRLDKSLLDTMVQH   83 (245)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEECCTTTCCGGGGTCSSCCSCCHHHHHHTGGGCCHHHHHHHSEE
T ss_pred             CeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEECCCCCCCHHHHhCCCCCCCCHHHHHhhHhhhhHHHHHHHhEe
Confidence            455667765 6 99999999999999998 999999999999 443222    112222222110         0011  


Q ss_pred             --hhcCcccCchhhhhhHhh-hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEec
Q 023298           80 --EELGLGPNGGLIYCMEHL-EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLD  156 (284)
Q Consensus        80 --~~~~lgPng~l~~~~e~~-~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiD  156 (284)
                        .++.+.|.+.-....+.+ ...+.+.+. .+.+  ++++|||||||.....        ....+..   .+.+++++.
T Consensus        84 ~~~~l~~l~~~~~~~~~~~~~~~~l~~~l~-~l~~--~yD~viiD~p~~~~~~--------~~~~l~~---ad~viiv~~  149 (245)
T 3ea0_A           84 ISPSLDLIPSPATFEKIVNIEPERVSDLIH-IAAS--FYDYIIVDFGASIDHV--------GVWVLEH---LDELCIVTT  149 (245)
T ss_dssp             EETTEEEECCCSSHHHHHHCCHHHHHHHHH-HHHH--HCSEEEEEEESSCCTT--------HHHHGGG---CSEEEEEEC
T ss_pred             cCCCeEEEcCCCChHhhhcCCHHHHHHHHH-HHHh--hCCEEEEeCCCCCchH--------HHHHHHH---CCEEEEEec
Confidence              123444543332222211 112211222 2322  6799999999976422        1122333   355666666


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHhcC---CCEEEEecCCccc
Q 023298          157 SQFITDVTKFISGCMASLSAMVQLE---LPHVNILSKMDLV  194 (284)
Q Consensus       157 a~~~~~~~~~i~~~l~~l~~~~~~~---~p~IlVlNK~Dll  194 (284)
                      ..    +.. +......+..+.+.+   ...-+|+|+++.-
T Consensus       150 ~~----~~~-~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~  185 (245)
T 3ea0_A          150 PS----LQS-LRRAGQLLKLCKEFEKPISRIEIILNRADTN  185 (245)
T ss_dssp             SS----HHH-HHHHHHHHHHHHTCSSCCSCEEEEEESTTSC
T ss_pred             Cc----HHH-HHHHHHHHHHHHHhCCCccceEEEEecCCCC
Confidence            53    222 222222233333443   4478999999853

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.41  E-value=5e-12  Score=118.20  Aligned_cols=196  Identities=13%  Similarity=0.109  Sum_probs=101.0

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhH--
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCME--   95 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e--   95 (284)
                      ...+.++|++ |||||+...|+.++...+.++.++..||+.....-       .++.-...|..++..|. +.+....  
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~~~~~~~v~V~~~dp~~~~~~g-------~~l~d~~rm~~~~~~~~-~~v~~~~~~  145 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLAVDPSSCTSGG-------SLLGDKTRMTELSRDMN-AYIRPSPTR  145 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC-----------------------CCSTTCTT-EEEECC---
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhhhcCCeEEEEeecCCCCCcCc-------chhchHHHHHHhcCCCC-EEEEecCCc
Confidence            3458999999 99999999999999989999999999999764210       01101112333332221 1110000  


Q ss_pred             -h---hhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           96 -H---LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        96 -~---~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                       .   ......+-+. .+.. .+.+++++||||...  ..    .    .+.  ...+++++++|+...... ..+..  
T Consensus       146 ~~lgg~tr~~~~~~~-~~~~-~~~~~iliDT~Gi~~--~~----~----~l~--~~~d~vl~V~d~~~~~~~-~~i~~--  208 (349)
T 2www_A          146 GTLGGVTRTTNEAIL-LCEG-AGYDIILIETVGVGQ--SE----F----AVA--DMVDMFVLLLPPAGGDEL-QGIKR--  208 (349)
T ss_dssp             ------CTTHHHHHH-HHHH-TTCSEEEEECCCC----CH----H----HHH--TTCSEEEEEECCC-------------
T ss_pred             cccccchHHHHHHHH-hhcc-CCCCEEEEECCCcch--hh----h----hHH--hhCCEEEEEEcCCcchhH-HHhHH--
Confidence             0   0000101000 1111 267999999999642  11    1    121  224689999998643111 11110  


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHh--ccCCceEEEEeccC
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVD--EYSMVSFMPLDLRK  249 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~--~~~~~~~ipiSa~~  249 (284)
                          .  -.+.|.++|+||+|+.... ......                   ..+...+.....  ......++++||++
T Consensus       209 ----~--il~~~~ivVlNK~Dl~~~~-~~~~~~-------------------~~l~~~l~~~~~~a~~~~~~vi~iSA~~  262 (349)
T 2www_A          209 ----G--IIEMADLVAVTKSDGDLIV-PARRIQ-------------------AEYVSALKLLRKRSQVWKPKVIRISARS  262 (349)
T ss_dssp             --------CCSCSEEEECCCSGGGHH-HHHHHH-------------------HHHHHHHTTCC-----CCCEEEECCTTT
T ss_pred             ----H--HHhcCCEEEEeeecCCCch-hHHHHH-------------------HHHHHHHHhcCccccCCCceEEEEecCC
Confidence                0  1357999999999986432 111111                   001100000000  01135789999999


Q ss_pred             cccHHHHHHHHHHhcC
Q 023298          250 ESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       250 ~~~l~~Ll~~I~~~l~  265 (284)
                      |+|++.|++.|.+.++
T Consensus       263 g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          263 GEGISEMWDKMKDFQD  278 (349)
T ss_dssp             CTTHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999988764

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.41  E-value=2.1e-12  Score=108.14  Aligned_cols=128  Identities=9%  Similarity=0.016  Sum_probs=68.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV-QLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~-~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+.+..   ...   ...+..   .+++++++|+....+... +..++..+.... ..+.|+++|+||+|
T Consensus        59 ~~~~~i~Dt~G~~~~~---~~~---~~~~~~---~d~ii~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~NK~D  128 (187)
T 1zj6_A           59 NTRFLMWDIGGQESLR---SSW---NTYYTN---TEFVIVVVDSTDRERISV-TREELYKMLAHEDLRKAGLLIFANKQD  128 (187)
T ss_dssp             TEEEEEEECCC----C---GGG---HHHHTT---CCEEEEEEETTCTTTHHH-HHHHHHHHHTSGGGTTCEEEEEEECTT
T ss_pred             CEEEEEEECCCCHhHH---HHH---HHHhcC---CCEEEEEEeCCCHHHHHH-HHHHHHHHHhchhhCCCeEEEEEECCC
Confidence            3468999999985421   111   112322   468999999875543332 222222211111 25789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDADL  272 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~~  272 (284)
                      +.... ...+..        +.+..              ..+... ...++++||++|+|++++++.|.+.++..+...+
T Consensus       129 l~~~~-~~~~i~--------~~~~~--------------~~~~~~-~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~~~  184 (187)
T 1zj6_A          129 VKECM-TVAEIS--------QFLKL--------------TSIKDH-QWHIQACCALTGEGLCQGLEWMMSRLKIRLEHHH  184 (187)
T ss_dssp             STTCC-CHHHHH--------HHHTG--------------GGCCSS-CEEEEECBTTTTBTHHHHHHHHHHHHCC------
T ss_pred             CcCCC-CHHHHH--------HHhCh--------------hhhcCC-CcEEEEccCCCCcCHHHHHHHHHHHHHHHhhhhc
Confidence            96532 111111        00000              000111 2589999999999999999999999988887766


Q ss_pred             CCC
Q 023298          273 KIK  275 (284)
Q Consensus       273 ~~~  275 (284)
                      ..|
T Consensus       185 ~~~  187 (187)
T 1zj6_A          185 HHH  187 (187)
T ss_dssp             ---
T ss_pred             cCC
Confidence            543

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=99.41  E-value=8.8e-13  Score=115.07  Aligned_cols=38  Identities=16%  Similarity=0.116  Sum_probs=35.3

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      |.|.|.| +||||++.|||.+|++.|+||++||+|||.+
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~   41 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVDGDPDSC   41 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEEEECTTSC
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCcC
Confidence            5558999 9999999999999999999999999999965

>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=99.40  E-value=3.3e-12  Score=105.22  Aligned_cols=115  Identities=10%  Similarity=0.148  Sum_probs=69.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh----cCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ----LELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~----~~~p~IlVl  188 (284)
                      ..+.++||||+.+..       .+....  ....+++++++|+..   +..+  +..++..+.....    .+.|+++|+
T Consensus        56 ~~~~i~Dt~G~~~~~-------~~~~~~--~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~  123 (177)
T 1wms_A           56 VTMQIWDTAGQERFR-------SLRTPF--YRGSDCCLLTFSVDD---SQSFQNLSNWKKEFIYYADVKEPESFPFVILG  123 (177)
T ss_dssp             EEEEEEECCCCGGGH-------HHHGGG--GTTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEE
T ss_pred             EEEEEEeCCCchhhh-------hhHHHH--HhcCCEEEEEEECcC---HHHHHHHHHHHHHHHHHccccccCCCcEEEEE
Confidence            368999999975421       121111  122467899999863   3222  2333333333332    578999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      ||+|+...+...++.                           .++........++++||++|.|++++++.|.+.+...+
T Consensus       124 nK~Dl~~~~~~~~~~---------------------------~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  176 (177)
T 1wms_A          124 NKIDISERQVSTEEA---------------------------QAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATE  176 (177)
T ss_dssp             ECTTCSSCSSCHHHH---------------------------HHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHTC-
T ss_pred             ECCcccccccCHHHH---------------------------HHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHhhc
Confidence            999986322000000                           11122234568999999999999999999988775443

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=99.40  E-value=2.8e-12  Score=123.34  Aligned_cols=152  Identities=14%  Similarity=0.127  Sum_probs=84.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      .+|+.++++|++ |||||++.+||.+|++. |++|++||+|||.....     +  .+.++.+. .+..+.|.+.-....
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~-----~--ql~~~~~~-~~l~v~~~~~~~dp~  169 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAI-----K--QLETLAEQ-VGVDFFPSDVGQKPV  169 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHH-----H--HHHHHHHH-HTCEECCCCSSSCHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHH-----H--HHHhhccc-CCeeEEeCCCCCCHH
Confidence            357889999999 99999999999999998 99999999999986421     1  11011110 111222221100001


Q ss_pred             HhhhhcHHHHHHHHhhcc--CCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNY--LDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMA  172 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~--~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~  172 (284)
                              +.+.+.++..  .++++|||||||.....  ......+.. +...-.++.+++++|+....+....+     
T Consensus       170 --------~i~~~~l~~~~~~~~D~VIIDTpG~l~~~--~~l~~~L~~-~~~~~~p~~vllVvda~~g~~~~~~~-----  233 (433)
T 2xxa_A          170 --------DIVNAALKEAKLKFYDVLLVDTAGRLHVD--EAMMDEIKQ-VHASINPVETLFVVDAMTGQDAANTA-----  233 (433)
T ss_dssp             --------HHHHHHHHHHHHTTCSEEEEECCCCCTTC--HHHHHHHHH-HHHHSCCSEEEEEEETTBCTTHHHHH-----
T ss_pred             --------HHHHHHHHHHHhCCCCEEEEECCCccccc--HHHHHHHHH-HHHhhcCcceeEEeecchhHHHHHHH-----
Confidence                    1112222211  16799999999976521  122222221 22122356788899986433221111     


Q ss_pred             HHHHHHhcCCC-EEEEecCCcccc
Q 023298          173 SLSAMVQLELP-HVNILSKMDLVT  195 (284)
Q Consensus       173 ~l~~~~~~~~p-~IlVlNK~Dll~  195 (284)
                        ..+ +...+ .-+|+||+|...
T Consensus       234 --~~f-~~~l~i~gvVlnK~D~~~  254 (433)
T 2xxa_A          234 --KAF-NEALPLTGVVLTKVDGDA  254 (433)
T ss_dssp             --HHH-HHHSCCCCEEEECTTSSS
T ss_pred             --HHH-hccCCCeEEEEecCCCCc
Confidence              111 11234 346999999753

>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=99.39  E-value=3e-12  Score=103.70  Aligned_cols=111  Identities=14%  Similarity=0.210  Sum_probs=66.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      ..+.++||||+.+..   .    +.. .+...   +.+++++|+..   +..+  +..++..+.... ..+.|+++|+||
T Consensus        51 ~~~~l~D~~G~~~~~---~----~~~~~~~~~---~~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK  117 (167)
T 1kao_A           51 SVLEILDTAGTEQFA---S----MRDLYIKNG---QGFILVYSLVN---QQSFQDIKPMRDQIIRVKRYEKVPVILVGNK  117 (167)
T ss_dssp             EEEEEEECCCTTCCH---H----HHHHHHHHC---SEEEEEEETTC---HHHHHHHHHHHHHHHHHTTTSCCCEEEEEEC
T ss_pred             EEEEEEECCCchhhH---H----HHHHHhccC---CEEEEEEeCCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence            357899999975421   1    222 23332   56888999863   3322  223332222222 247999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+...+ +.....                  .       .++...++ ..++++||++|.|++++++.|.+.+.
T Consensus       118 ~Dl~~~~-~~~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~  165 (167)
T 1kao_A          118 VDLESER-EVSSSE------------------G-------RALAEEWG-CPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             GGGGGGC-CSCHHH------------------H-------HHHHHHHT-SCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             Ccccccc-cCCHHH------------------H-------HHHHHHhC-CCEEEecCCCCcCHHHHHHHHHHHHh
Confidence            9986533 211000                  0       01112223 47999999999999999999987653

>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=99.39  E-value=3.7e-12  Score=103.53  Aligned_cols=113  Identities=10%  Similarity=0.135  Sum_probs=68.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      .++.++||||+.+..   ....   ..+..   .+++++++|+..   +..+  +..++..+.... ..+.|+++|+||+
T Consensus        51 ~~~~l~D~~G~~~~~---~~~~---~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~  118 (167)
T 1c1y_A           51 CMLEILDTAGTEQFT---AMRD---LYMKN---GQGFALVYSITA---QSTFNDLQDLREQILRVKDTEDVPMILVGNKC  118 (167)
T ss_dssp             EEEEEEEECSSCSST---THHH---HHHHH---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHHCCSCCCEEEEEECT
T ss_pred             EEEEEEECCChHHHH---HHHH---HHhcc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhhCcCCCcEEEEEECc
Confidence            367899999976522   2111   22333   257888898863   3222  222332222222 2479999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+..++ ....-                         .+.++...++...++++||++|.|++++++.|.+.+.
T Consensus       119 Dl~~~~-~~~~~-------------------------~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A          119 DLEDER-VVGKE-------------------------QGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             TCGGGC-CSCHH-------------------------HHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             cccccc-cCCHH-------------------------HHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHHh
Confidence            986533 11000                         0012223344578999999999999999999987653

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=99.39  E-value=4.2e-12  Score=114.84  Aligned_cols=40  Identities=8%  Similarity=0.076  Sum_probs=35.4

Q ss_pred             EEEEEC---CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           21 IKCVFS---PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        21 ~~~viG---~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ++.|++   .| +||||++.+||.+|++.|+||++||+|||++.
T Consensus        36 ~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlliD~D~q~~~   79 (298)
T 2oze_A           36 AIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMIDKDLQATL   79 (298)
T ss_dssp             CEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHH
T ss_pred             EEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEEeCCCCCCH
Confidence            355554   78 99999999999999999999999999999873

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=99.38  E-value=1.4e-12  Score=116.23  Aligned_cols=169  Identities=17%  Similarity=0.156  Sum_probs=86.0

Q ss_pred             hhhccccccc-CceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCc-----------ccccccc-
Q 023298            8 LCKGYMSWLY-ALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPV-----------AMDIREL-   72 (284)
Q Consensus         8 ~~~~~~~~~~-~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~-----------~~dir~~-   72 (284)
                      .++|+.+--. +++++.|+|+ | +||||++.+||.+|+ +|+||++||+|||.+...+-.           ...+.+. 
T Consensus        15 ~~~~~~~~~~~~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~l~~~l   93 (267)
T 3k9g_A           15 QTQGPGSMDNKKPKIITIASIKGGVGKSTSAIILATLLS-KNNKVLLIDMDTQASITSYFYEKIEKLGINFTKFNIYEIL   93 (267)
T ss_dssp             -----------CCEEEEECCSSSSSCHHHHHHHHHHHHT-TTSCEEEEEECTTCHHHHHTHHHHHHTTCCTTTSSHHHHH
T ss_pred             hhcCcccCCCCCCeEEEEEeCCCCchHHHHHHHHHHHHH-CCCCEEEEECCCCCCHHHHhhccccccccCcccccHHHHh
Confidence            3555554432 3455666665 5 999999999999999 999999999999986432110           0011111 


Q ss_pred             ---ccHHHHh----hhcCcccCchhhhhhHhhh-hcHHHHHHHHhhccC-CCCEEEEeCCCCcccccccchHHHHHHHHH
Q 023298           73 ---ISLEDVM----EELGLGPNGGLIYCMEHLE-DNLDDWLAEELDNYL-DDDYLVFDCPGQIELFTHVPVLRNFVDHLK  143 (284)
Q Consensus        73 ---i~~~~vm----~~~~lgPng~l~~~~e~~~-~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~~~~~~~~~~l~~~l~  143 (284)
                         ..+.+++    .++.+.|.+......+... ......+.+.++... +++||||||||.....        ....+.
T Consensus        94 ~~~~~~~~~i~~~~~~l~~lp~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~yD~viiD~pp~~~~~--------~~~~l~  165 (267)
T 3k9g_A           94 KENVDIDSTIINVDNNLDLIPSYLTLHNFSEDKIEHKDFLLKTSLGTLYYKYDYIVIDTNPSLDVT--------LKNALL  165 (267)
T ss_dssp             TTSSCGGGGCEEEETTEEEECCCGGGGGTTTCCCTTGGGHHHHHHHTTCTTCSEEEEEECSSCSHH--------HHHHHT
T ss_pred             cCCCCHHHhhccCCCCEEEEeCChHHHHHHHhhhhhHHHHHHHHHHHhhcCCCEEEEECcCCccHH--------HHHHHH
Confidence               1112221    2344455554433222110 000123444454432 6899999999966422        122343


Q ss_pred             hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhc--CCCEEEEecCCcc
Q 023298          144 SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQL--ELPHVNILSKMDL  193 (284)
Q Consensus       144 ~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~--~~p~IlVlNK~Dl  193 (284)
                      .   .+.++.++.+.... - .-+..+   +..+.+.  +.++.+|+|++..
T Consensus       166 ~---aD~vivv~~~~~~s-~-~~~~~~---~~~l~~~~~~~~~~vv~N~~~~  209 (267)
T 3k9g_A          166 C---SDYVIIPMTAEKWA-V-ESLDLF---NFFVRKLNLFLPIFLIITRFKK  209 (267)
T ss_dssp             T---CSEEEEEEESCTTH-H-HHHHHH---HHHHHTTTCCCCEEEEEEEECT
T ss_pred             H---CCeEEEEeCCChHH-H-HHHHHH---HHHHHHHhccCCEEEEEecccC
Confidence            3   35566666654321 1 111122   2223333  4678899999843

>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=99.38  E-value=1.8e-12  Score=106.90  Aligned_cols=114  Identities=18%  Similarity=0.242  Sum_probs=68.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+...... ...+.+... +...+ .+++++++|+...   ... ..++   ..+.+.+.|+++|.||+|+
T Consensus        50 ~~l~i~Dt~G~~~~~~~-~~~~~~~~~~~~~~~-~~~~i~v~D~~~~---~~~-~~~~---~~~~~~~~p~ilv~nK~Dl  120 (165)
T 2wji_A           50 EKFKVVDLPGVYSLTAN-SIDEIIARDYIINEK-PDLVVNIVDATAL---ERN-LYLT---LQLMEMGANLLLALNKMDL  120 (165)
T ss_dssp             EEEEEEECCCCSCSSSS-SHHHHHHHHHHHHHC-CSEEEEEEETTCH---HHH-HHHH---HHHHHTTCCEEEEEECHHH
T ss_pred             cEEEEEECCCcccCCCc-chhHHHHHHHHhcCC-CCEEEEEecCCch---hHh-HHHH---HHHHhcCCCEEEEEEchHh
Confidence            36789999998763221 122233332 22112 4678999998642   221 1121   2233458999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... ....  +  .+                      ++.+.++ ..++++||++|.|++++++.|.+.+.
T Consensus       121 ~~~~-~~~~--~--~~----------------------~~~~~~~-~~~~~~SA~~~~~v~~l~~~l~~~~~  164 (165)
T 2wji_A          121 AKSL-GIEI--D--VD----------------------KLEKILG-VKVVPLSAAKKMGIEELKKAISIAVK  164 (165)
T ss_dssp             HHHT-TCCC--C--HH----------------------HHHHHHT-SCEEECBGGGTBSHHHHHHHHHHHTT
T ss_pred             cccc-Chhh--H--HH----------------------HHHHHhC-CCEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            6432 2110  0  00                      1112223 57999999999999999999987663

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.38  E-value=3e-12  Score=122.83  Aligned_cols=118  Identities=8%  Similarity=0.077  Sum_probs=74.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+.... .......+.... .....+++++|++|+....+. +..+..++      .+.++|+++|+||+
T Consensus        48 ~~~~~l~DT~G~~~~~-~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l------~~~~~p~ilv~NK~  120 (439)
T 1mky_A           48 GKTFKLVDTCGVFDNP-QDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFL------RKSTVDTILVANKA  120 (439)
T ss_dssp             TEEEEEEECTTTTSSG-GGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHH------HHHTCCEEEEEESC
T ss_pred             CeEEEEEECCCccccc-cchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHH------HHcCCCEEEEEeCC
Confidence            3468999999986421 111222332222 122345789999998754333 33344433      24689999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+.... . ....                          .++ ...++..++++||++|.|+.+|++.|.+.+++.
T Consensus       121 D~~~~~-~-~~~~--------------------------~~~-~~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          121 ENLREF-E-REVK--------------------------PEL-YSLGFGEPIPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             CSHHHH-H-HHTH--------------------------HHH-GGGSSCSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCcccc-H-HHHH--------------------------HHH-HhcCCCCEEEEeccCCCCHHHHHHHHHHhcccc
Confidence            975320 0 0000                          011 234555789999999999999999999988754

>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=99.38  E-value=7.5e-12  Score=113.02  Aligned_cols=159  Identities=16%  Similarity=0.182  Sum_probs=91.2

Q ss_pred             cCceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC----CCCCcccccccc----ccHHHHhh-----h
Q 023298           17 YALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN----FDYPVAMDIREL----ISLEDVME-----E   81 (284)
Q Consensus        17 ~~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~----~~~~~~~dir~~----i~~~~vm~-----~   81 (284)
                      .+++.++|.|+ | +||||++.|||.++++.|+||++||+|++...    +..+....+.++    ..+++++.     +
T Consensus        80 ~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID~D~~~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~  159 (271)
T 3bfv_A           80 SAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLNWSTYQDSIISTEIED  159 (271)
T ss_dssp             CCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCSSSCCHHHHTTCCCSSSHHHHHTTSSCHHHHEEECSSTT
T ss_pred             CCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCccHHHHcCCCCCCCHHHHhCCCCCHHHcEEeCCCCC
Confidence            35677888887 5 99999999999999999999999999998753    222222222221    23444432     3


Q ss_pred             cCcccCchhhhh-hHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCC
Q 023298           82 LGLGPNGGLIYC-MEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQF  159 (284)
Q Consensus        82 ~~lgPng~l~~~-~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~  159 (284)
                      +.+.|.|..... .+++. ..+.+.+. .+++  ++++|||||||......    ...+   ...   .+.+++++.+..
T Consensus       160 l~vl~~g~~~~~~~ell~~~~l~~ll~-~l~~--~yD~VIIDtpp~~~~~d----~~~l---~~~---aD~vilVv~~~~  226 (271)
T 3bfv_A          160 LDVLTSGPIPPNPSELITSRAFANLYD-TLLM--NYNFVIIDTPPVNTVTD----AQLF---SKF---TGNVVYVVNSEN  226 (271)
T ss_dssp             EEEECCCSCCSCHHHHHTSHHHHHHHH-HHHH--HCSEEEEECCCTTTCSH----HHHH---HHH---HCEEEEEEETTS
T ss_pred             EEEEECCCCCCCHHHHhChHHHHHHHH-HHHh--CCCEEEEeCCCCchHHH----HHHH---HHH---CCEEEEEEeCCC
Confidence            344555543221 23222 23322222 3332  67999999999754211    1111   112   245777777643


Q ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCEE-EEecCCcc
Q 023298          160 ITDVTKFISGCMASLSAMVQLELPHV-NILSKMDL  193 (284)
Q Consensus       160 ~~~~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~Dl  193 (284)
                      . +... +   ..++..+.+.+.+.+ +|+|++|.
T Consensus       227 ~-~~~~-~---~~~~~~l~~~~~~~~GvVlN~~~~  256 (271)
T 3bfv_A          227 N-NKDE-V---KKGKELIEATGAKLLGVVLNRMPK  256 (271)
T ss_dssp             C-CHHH-H---HHHHHHHHTTTCEEEEEEEEEECC
T ss_pred             C-cHHH-H---HHHHHHHHhCCCCEEEEEEeCCcC
Confidence            3 2222 1   122334445667766 88999985

>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=99.38  E-value=4.5e-12  Score=104.39  Aligned_cols=114  Identities=10%  Similarity=0.139  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH-HHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL-SAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l-~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.++||||+.+.   ......   .+..   .+++++++|+....+... +..++..+ ......+.|+++|+||+|+
T Consensus        57 ~~~~~~Dt~G~~~~---~~~~~~---~~~~---~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl  126 (181)
T 2fn4_A           57 ARLDILDTAGQEEF---GAMREQ---YMRA---GHGFLLVFAINDRQSFNE-VGKLFTQILRVKDRDDFPVVLVGNKADL  126 (181)
T ss_dssp             EEEEEEECCCTTTT---SCCHHH---HHHH---CSEEEEEEETTCHHHHHH-HHHHHHHHHHHHTSSCCCEEEEEECGGG
T ss_pred             EEEEEEECCCchhh---HHHHHH---HHhh---CCEEEEEEeCCCHHHHHH-HHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            36789999997652   221221   2333   257888899863221111 33333322 2222357899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ...+ ++....                  .       .++....+ ..++++||++|.|++++++.|.+.+.
T Consensus       127 ~~~~-~v~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~gv~~l~~~l~~~~~  171 (181)
T 2fn4_A          127 ESQR-QVPRSE------------------A-------SAFGASHH-VAYFEASAKLRLNVDEAFEQLVRAVR  171 (181)
T ss_dssp             GGGC-CSCHHH------------------H-------HHHHHHTT-CEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             cccc-ccCHHH------------------H-------HHHHHHcC-CeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            6533 221000                  0       01112222 58999999999999999999987764

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=99.37  E-value=4.1e-12  Score=114.67  Aligned_cols=45  Identities=20%  Similarity=0.249  Sum_probs=40.2

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD   62 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~   62 (284)
                      +++++.|.|.| |||||+|.|||.+|++.|+||++||+|||++.+.
T Consensus         1 ~MkvIavs~KGGvGKTT~a~nLA~~La~~G~rVlliD~D~q~~~~~   46 (289)
T 2afh_E            1 AMRQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTR   46 (289)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSSCSSH
T ss_pred             CceEEEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEecCCCCCHHH
Confidence            35667778999 9999999999999999999999999999998653

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=99.37  E-value=3.1e-12  Score=112.76  Aligned_cols=40  Identities=10%  Similarity=0.059  Sum_probs=34.8

Q ss_pred             eEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +++.|+|+ | +||||++.+||.+|++.|+||++||+||+..
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~   44 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFAIGLR   44 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSSC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCcEEEEECCCCCC
Confidence            44666666 5 9999999999999999999999999999554

>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=99.37  E-value=2.1e-12  Score=107.61  Aligned_cols=113  Identities=13%  Similarity=0.202  Sum_probs=66.5

Q ss_pred             CEEEEeCCCCcccccccchHH-HH---HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLR-NF---VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~-~l---~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ++.++||||+.+..  ..... .+   ...+..   .+++++++|+....+....  .++..+......+.|+++|+||+
T Consensus        53 ~~~l~Dt~G~~~~~--~~~~~~~~~~~~~~~~~---ad~~i~v~D~~~~~s~~~~--~~~~~~~~~~~~~~p~ilv~NK~  125 (172)
T 2gj8_A           53 PLHIIDTAGLREAS--DEVERIGIERAWQEIEQ---ADRVLFMVDGTTTDAVDPA--EIWPEFIARLPAKLPITVVRNKA  125 (172)
T ss_dssp             EEEEEECCCCSCCS--SHHHHHHHHHHHHHHHT---CSEEEEEEETTTCCCCSHH--HHCHHHHHHSCTTCCEEEEEECH
T ss_pred             EEEEEECCCcccch--hHHHHHHHHHHHHHHHh---CCEEEEEEECCCCCCHHHH--HHHHHHHHhcccCCCEEEEEECc
Confidence            57899999986521  11111 12   222333   4679999999754332211  12111112222368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      |+....  . .+.                               ......++++||++|+|++++++.|.+.+...+.
T Consensus       126 Dl~~~~--~-~~~-------------------------------~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~~  169 (172)
T 2gj8_A          126 DITGET--L-GMS-------------------------------EVNGHALIRLSARTGEGVDVLRNHLKQSMGFDTN  169 (172)
T ss_dssp             HHHCCC--C-EEE-------------------------------EETTEEEEECCTTTCTTHHHHHHHHHHHC-----
T ss_pred             cCCcch--h-hhh-------------------------------hccCCceEEEeCCCCCCHHHHHHHHHHHhhhccc
Confidence            985421  1 111                               0123679999999999999999999998876543

>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=99.37  E-value=5.3e-12  Score=121.65  Aligned_cols=154  Identities=12%  Similarity=0.102  Sum_probs=85.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEH   96 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~   96 (284)
                      +|..++++|++ |||||++.+||.+|++.|++|++|++||+....       +..+-.+.+   ..++ |    ++....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa-------~eqL~~~~~---~~gv-p----v~~~~~  163 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGA-------YHQLRQLLD---RYHI-E----VFGNPQ  163 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHH-------HHHHHHHHG---GGTC-E----EECCTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhH-------HHHHHHHHH---hcCC-c----EEecCC
Confidence            58889999999 999999999999999999999999999976421       011100100   1111 0    000000


Q ss_pred             hhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           97 LEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        97 ~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                      - ..-.+++.+.++...  ++++|||||||...  ........+........ ++.+++++|+....+... .      .
T Consensus       164 ~-~dp~~i~~~al~~a~~~~~DvVIIDTaGrl~--~d~~lm~el~~i~~~~~-pd~vlLVvDA~~gq~a~~-~------a  232 (443)
T 3dm5_A          164 E-KDAIKLAKEGVDYFKSKGVDIIIVDTAGRHK--EDKALIEEMKQISNVIH-PHEVILVIDGTIGQQAYN-Q------A  232 (443)
T ss_dssp             C-CCHHHHHHHHHHHHHHTTCSEEEEECCCCSS--CCHHHHHHHHHHHHHHC-CSEEEEEEEGGGGGGHHH-H------H
T ss_pred             C-CCHHHHHHHHHHHHHhCCCCEEEEECCCccc--chHHHHHHHHHHHHhhc-CceEEEEEeCCCchhHHH-H------H
Confidence            0 000011112222111  57999999999765  22222222322121222 456899999864322111 1      1


Q ss_pred             HHHHhcCCCEEEEecCCccccch
Q 023298          175 SAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      ..+...-.+..+|+||+|...+.
T Consensus       233 ~~f~~~~~i~gVIlTKlD~~~~g  255 (443)
T 3dm5_A          233 LAFKEATPIGSIIVTKLDGSAKG  255 (443)
T ss_dssp             HHHHHSCTTEEEEEECCSSCSSH
T ss_pred             HHHHhhCCCeEEEEECCCCcccc
Confidence            22233345678999999986543

>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=99.37  E-value=6.5e-12  Score=102.20  Aligned_cols=113  Identities=13%  Similarity=0.148  Sum_probs=68.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+....   ...   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|.||+|
T Consensus        55 ~~~~~~D~~G~~~~~---~~~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D  122 (170)
T 1r2q_A           55 VKFEIWDTAGQERYH---SLA---PMYYRG---AQAAIVVYDITN---EESFARAKNWVKELQRQASPNIVIALSGNKAD  122 (170)
T ss_dssp             EEEEEEEECCSGGGG---GGH---HHHHTT---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             EEEEEEeCCCcHHhh---hhh---HHhccC---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcc
Confidence            468999999975421   111   112322   467899999863   3322  23333332222234689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +.... .... .     .                   ..++...++ ..++++||++|.|++++++.|.+.+++
T Consensus       123 l~~~~-~~~~-~-----~-------------------~~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~i~~~~~~  169 (170)
T 1r2q_A          123 LANKR-AVDF-Q-----E-------------------AQSYADDNS-LLFMETSAKTSMNVNEIFMAIAKKLPK  169 (170)
T ss_dssp             GGGGC-CSCH-H-----H-------------------HHHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHTSCC
T ss_pred             Ccccc-ccCH-H-----H-------------------HHHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            86432 1100 0     0                   011112233 589999999999999999999988765

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.37  E-value=4.8e-12  Score=106.07  Aligned_cols=112  Identities=13%  Similarity=0.205  Sum_probs=69.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+....   ...   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        65 ~~~~i~Dt~G~~~~~---~~~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~D  132 (196)
T 3tkl_A           65 IKLQIWDTAGQERFR---TIT---SSYYRG---AHGIIVVYDVTD---QESFNNVKQWLQEIDRYASENVNKLLVGNKCD  132 (196)
T ss_dssp             EEEEEEEECCSGGGC---TTH---HHHHTT---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEECCCcHhhh---hhH---HHHHhh---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcc
Confidence            367899999975422   111   112323   468999999864   3332  33444433333344789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ ......                         ..++...++ ..++++||++|.|++++++.|.+.+.
T Consensus       133 l~~~~-~~~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~g~gv~~l~~~l~~~i~  178 (196)
T 3tkl_A          133 LTTKK-VVDYTT-------------------------AKEFADSLG-IPFLETSAKNATNVEQSFMTMAAEIK  178 (196)
T ss_dssp             CTTTC-CSCHHH-------------------------HHHHHHHTT-CCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             ccccc-ccCHHH-------------------------HHHHHHHcC-CcEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            87543 221100                         011112233 57999999999999999888877654

>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=99.37  E-value=6.5e-12  Score=102.68  Aligned_cols=118  Identities=9%  Similarity=0.062  Sum_probs=68.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+.....       +...  .....+++++++|+....+.... ..++..+.. ....+.|+++|+||+|+
T Consensus        51 ~~~~~~Dt~G~~~~~~-------~~~~--~~~~~d~ii~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl  120 (171)
T 1upt_A           51 LKFQVWDLGGLTSIRP-------YWRC--YYSNTDAVIYVVDSCDRDRIGIS-KSELVAMLEEEELRKAILVVFANKQDM  120 (171)
T ss_dssp             EEEEEEEECCCGGGGG-------GGGG--GCTTCSEEEEEEETTCCTTHHHH-HHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             EEEEEEECCCChhhhH-------HHHH--HhccCCEEEEEEECCCHHHHHHH-HHHHHHHHhchhhCCCEEEEEEECCCC
Confidence            4689999999754211       1111  11234689999998755433322 222211111 11157899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .... ...++.        ..+..              ......+ ..++++||++|.|++++++.+.+.+.+
T Consensus       121 ~~~~-~~~~~~--------~~~~~--------------~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          121 EQAM-TSSEMA--------NSLGL--------------PALKDRK-WQIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             TTCC-CHHHHH--------HHHTG--------------GGCTTSC-EEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             cCCC-CHHHHH--------HHhCc--------------hhccCCc-eEEEECcCCCCcCHHHHHHHHHHHHhh
Confidence            7542 111111        00100              0011122 479999999999999999999887643

>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=99.37  E-value=8.1e-12  Score=105.31  Aligned_cols=119  Identities=13%  Similarity=0.119  Sum_probs=70.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+....   ...   ...+..   .+++++++|+....+. ..+..++..+......+.|+++|+||+|+.
T Consensus        72 ~~~~i~Dt~G~~~~~---~~~---~~~~~~---~d~iilV~d~~~~~s~-~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~  141 (192)
T 2fg5_A           72 HKFLIWDTAGQERFH---SLA---PMYYRG---SAAAVIVYDITKQDSF-YTLKKWVKELKEHGPENIVMAIAGNKCDLS  141 (192)
T ss_dssp             EEEEEEEECCSGGGG---GGT---HHHHTT---CSEEEEEEETTCTHHH-HHHHHHHHHHHHHSCTTCEEEEEEECGGGG
T ss_pred             EEEEEEcCCCchhhH---hhh---HHhhcc---CCEEEEEEeCCCHHHH-HHHHHHHHHHHHhCCCCCcEEEEEECcccc
Confidence            468999999975422   111   112322   3678999998643211 113334333333222478999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDA  270 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~  270 (284)
                      ..+ ....      +                   .+.++...++ ..++++||+++.|++++++.|.+.++..+..
T Consensus       142 ~~~-~v~~------~-------------------~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~  190 (192)
T 2fg5_A          142 DIR-EVPL------K-------------------DAKEYAESIG-AIVVETSAKNAINIEELFQGISRQIPPLDPH  190 (192)
T ss_dssp             GGC-CSCH------H-------------------HHHHHHHTTT-CEEEECBTTTTBSHHHHHHHHHHTCC-----
T ss_pred             ccc-ccCH------H-------------------HHHHHHHHcC-CEEEEEeCCCCcCHHHHHHHHHHHHHhhCCC
Confidence            422 1100      0                   0012223344 5899999999999999999999998765543

>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=99.37  E-value=2.9e-12  Score=104.34  Aligned_cols=115  Identities=13%  Similarity=0.158  Sum_probs=68.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.+..   ...   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        52 ~~~~~~D~~G~~~~~---~~~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  119 (170)
T 1ek0_A           52 VKFEIWDTAGQERFA---SLA---PXYYRN---AQAALVVYDVTK---PQSFIKARHWVKELHEQASKDIIIALVGNKID  119 (170)
T ss_dssp             EEEEEEEECCSGGGG---GGH---HHHHTT---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             EEEEEEECCCChhhh---hhh---hhhhcc---CcEEEEEEecCC---hHHHHHHHHHHHHHHHhcCCCCcEEEEEECCC
Confidence            368999999975421   111   122333   367899999863   3332  22333332222234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... ........                   ..   .++...++ ..++++||++|.|++++++.|.+.++
T Consensus       120 l~~~~-~~~~v~~~-------------------~~---~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i~  168 (170)
T 1ek0_A          120 XLQEG-GERKVARE-------------------EG---EKLAEEKG-LLFFETSAKTGENVNDVFLGIGEKIP  168 (170)
T ss_dssp             GGGSS-CCCCSCHH-------------------HH---HHHHHHHT-CEEEECCTTTCTTHHHHHHHHHTTSC
T ss_pred             ccccc-cccCCCHH-------------------HH---HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            97542 11111100                   00   11112233 48999999999999999999988764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=99.36  E-value=3.4e-12  Score=113.52  Aligned_cols=42  Identities=19%  Similarity=0.256  Sum_probs=38.2

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      +.+.|.|.| +||||++.|||.+|++.|+||++||+|||++.+
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~~VlliD~D~q~~~~   44 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADST   44 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTSCSS
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCCcEEEEcCCCCCCHH
Confidence            456668999 999999999999999999999999999999864

>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=99.36  E-value=7.1e-12  Score=104.52  Aligned_cols=120  Identities=11%  Similarity=-0.005  Sum_probs=69.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+.+...       +...  .....+++++++|+....+... +..++..+... ...+.|+++|+||+|
T Consensus        61 ~~~~~~~Dt~G~~~~~~-------~~~~--~~~~~d~ii~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~nK~D  130 (186)
T 1ksh_A           61 GFKLNIWDVGGQKSLRS-------YWRN--YFESTDGLIWVVDSADRQRMQD-CQRELQSLLVEERLAGATLLIFANKQD  130 (186)
T ss_dssp             TEEEEEEEECCSHHHHT-------TGGG--GCTTCSEEEEEEETTCGGGHHH-HHHHHHHHHTCGGGTTCEEEEEEECTT
T ss_pred             CEEEEEEECCCCHhHHH-------HHHH--HhcCCCEEEEEEECcCHHHHHH-HHHHHHHHHhChhcCCCcEEEEEeCcc
Confidence            34689999999754211       1111  1223578999999875433222 22222211111 124789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +.... ...+..        +.+..              .... .....++++||++|.|++++++.|.+.+++.
T Consensus       131 l~~~~-~~~~~~--------~~~~~--------------~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          131 LPGAL-SCNAIQ--------EALEL--------------DSIR-SHHWRIQGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             STTCC-CHHHHH--------HHTTG--------------GGCC-SSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CCCCC-CHHHHH--------HHhCh--------------hhcc-CCceEEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            96543 221111        00000              0001 1235799999999999999999999887654

>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=99.36  E-value=9.3e-12  Score=101.25  Aligned_cols=110  Identities=16%  Similarity=0.219  Sum_probs=66.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.+....   .   ...+..   .+++++++|+..   +..+  +..++..+.... .+.|+++|+||+|
T Consensus        54 ~~~~l~Dt~G~~~~~~~---~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~-~~~piilv~nK~D  120 (168)
T 1z2a_A           54 VRLMLWDTAGQEEFDAI---T---KAYYRG---AQACVLVFSTTD---RESFEAISSWREKVVAEV-GDIPTALVQNKID  120 (168)
T ss_dssp             EEEEEECCTTGGGTTCC---C---HHHHTT---CCEEEEEEETTC---HHHHHTHHHHHHHHHHHH-CSCCEEEEEECGG
T ss_pred             EEEEEEcCCCcHhHHHH---H---HHHhcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhC-CCCCEEEEEECcc
Confidence            46899999997653211   1   112322   467899999864   3222  223333222222 4789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +...+ ....-      .                   +.++...++ ..++++||+++.|++++++.|.+.+
T Consensus       121 l~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~  165 (168)
T 1z2a_A          121 LLDDS-CIKNE------E-------------------AEGLAKRLK-LRFYRTSVKEDLNVSEVFKYLAEKH  165 (168)
T ss_dssp             GGGGC-SSCHH------H-------------------HHHHHHHHT-CEEEECBTTTTBSSHHHHHHHHHHH
T ss_pred             cCccc-ccCHH------H-------------------HHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHH
Confidence            87533 11000      0                   011112333 4899999999999999999987754

>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=99.36  E-value=6.3e-12  Score=103.96  Aligned_cols=122  Identities=12%  Similarity=0.080  Sum_probs=66.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HH-HHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--IS-GCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~-~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+........      ..+   ...+++++++|+..   +..+  +. .++..+.... .+.|+++|+||+
T Consensus        56 ~~~~i~Dt~G~~~~~~~~~------~~~---~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~  122 (182)
T 3bwd_D           56 VNLGLWDTAGQEDYNRLRP------LSY---RGADVFILAFSLIS---KASYENVSKKWIPELKHYA-PGVPIVLVGTKL  122 (182)
T ss_dssp             --CEEECCCC-CTTTTTGG------GGG---TTCSEEEEEEETTC---HHHHHHHHHTHHHHHHHHC-TTCCEEEEEECH
T ss_pred             EEEEEEECCCChhhhhhHH------hhc---cCCCEEEEEEECCC---HHHHHHHHHHHHHHHHHhC-CCCCEEEEEech
Confidence            3567999999764221100      112   22468999999863   3333  11 2322222221 278999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+.... ....... ....    +   .       .....++...++...++++||++|.|++++++.|.+.+.
T Consensus       123 Dl~~~~-~~~~~~~-~~~~----v---~-------~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          123 DLRDDK-QFFIDHP-GAVP----I---T-------TVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             HHHTCH-HHHHHC---CCC----C---C-------HHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             hhhcCc-ccccccc-cCCC----C---C-------HHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            997644 2210000 0000    0   0       000112223445568999999999999999999987653

>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=99.36  E-value=5.7e-12  Score=103.58  Aligned_cols=113  Identities=12%  Similarity=0.175  Sum_probs=69.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+.....   ..   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        63 ~~~~~~Dt~G~~~~~~---~~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~D  130 (179)
T 2y8e_A           63 VRLQLWDTAGQERFRS---LI---PSYIRD---STVAVVVYDITN---TNSFHQTSKWIDDVRTERGSDVIIMLVGNKTD  130 (179)
T ss_dssp             EEEEEEEECCSGGGGG---GS---HHHHHT---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHHTTSSEEEEEEECGG
T ss_pred             EEEEEEECCCcHHHHH---HH---HHHhcC---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCc
Confidence            3689999999754221   11   122333   367899999863   3322  33343333333345789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +...+ +.....                  .       .+.....+ ..++++||++|.|++++++.|.+.++.
T Consensus       131 l~~~~-~~~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~  177 (179)
T 2y8e_A          131 LSDKR-QVSTEE------------------G-------ERKAKELN-VMFIETSAKAGYNVKQLFRRVAAALPG  177 (179)
T ss_dssp             GGGGC-CSCHHH------------------H-------HHHHHHHT-CEEEEEBTTTTBSHHHHHHHHHHTCC-
T ss_pred             ccccC-cCCHHH------------------H-------HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            86533 211000                  0       01112223 589999999999999999999987754

>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=99.35  E-value=1.2e-11  Score=99.72  Aligned_cols=111  Identities=13%  Similarity=0.177  Sum_probs=66.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK~  191 (284)
                      .++.++||||+.+.   .....   ..+..   .+.+++++|+..   +..+  +..++..+..... .+.|+++|+||+
T Consensus        51 ~~~~~~D~~G~~~~---~~~~~---~~~~~---~~~~i~v~d~~~---~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~  118 (166)
T 2ce2_X           51 CLLDILDTAGQEEY---SAMRD---QYMRT---GEGFLCVFAINN---TKSFEDIHQYREQIKRVKDSDDVPMVLVGNKS  118 (166)
T ss_dssp             EEEEEEECCCCSSC---CHHHH---HHHHH---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHHTCSCCCEEEEEECT
T ss_pred             EEEEEEECCCchhh---hHHHH---Hhhcc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCcEEEEEEch
Confidence            36789999997642   11111   12333   256888888753   3322  2333333222222 379999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+.... ...+..                          .++...++ ..++++||++|.|++++++.|.+.+.
T Consensus       119 Dl~~~~-~~~~~~--------------------------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X          119 DLAART-VESRQA--------------------------QDLARSYG-IPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             TCSCCC-SCHHHH--------------------------HHHHHHHT-CCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             hhhhcc-cCHHHH--------------------------HHHHHHcC-CeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            987532 111100                          11112233 47999999999999999999987654

>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=99.35  E-value=4.7e-12  Score=104.57  Aligned_cols=111  Identities=14%  Similarity=0.225  Sum_probs=66.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++.++||||+....       .+.. .+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+
T Consensus        60 ~~~~~~Dt~G~~~~~-------~~~~~~~~~---~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~  126 (180)
T 2g6b_A           60 VKLQMWDTAGQERFR-------SVTHAYYRD---AHALLLLYDVTN---KASFDNIQAWLTEIHEYAQHDVALMLLGNKV  126 (180)
T ss_dssp             EEEEEEECCCC---------------CCGGG---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECC
T ss_pred             EEEEEEeCCCcHHHH-------HHHHHHccC---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhCCCCCcEEEEEECc
Confidence            367899999965411       1111 1222   467899999863   3322  3334333333333578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...+ .+....                  .       .++...++ ..++++||+++.|++++++.|.+.+.
T Consensus       127 Dl~~~~-~~~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~  173 (180)
T 2g6b_A          127 DSAHER-VVKRED------------------G-------EKLAKEYG-LPFMETSAKTGLNVDLAFTAIAKELK  173 (180)
T ss_dssp             STTSCC-CSCHHH------------------H-------HHHHHHHT-CCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccCccc-ccCHHH------------------H-------HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            997533 211000                  0       01112233 47999999999999999999987764

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.35  E-value=1.6e-11  Score=106.59  Aligned_cols=123  Identities=11%  Similarity=0.151  Sum_probs=69.0

Q ss_pred             CCEEEEeCCCCcccccccc--hHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhc--CCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVP--VLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQL--ELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~--~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~--~~p~IlVlNK  190 (284)
                      .++.++||||+.+......  .....+..+.  ...+++++++|+....+..  .......+..+...  +.|+++|+||
T Consensus        76 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~--~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~l~~~~~~~piilv~nK  151 (228)
T 2qu8_A           76 NKYQIIDTPGLLDRAFENRNTIEMTTITALA--HINGVILFIIDISEQCGLT--IKEQINLFYSIKSVFSNKSIVIGFNK  151 (228)
T ss_dssp             EEEEEEECTTTTTSCGGGCCHHHHHHHHHHH--TSSEEEEEEEETTCTTSSC--HHHHHHHHHHHHTCC-CCCEEEEEEC
T ss_pred             CeEEEEECCCCcCcccchhhhHHHHHHHHhh--ccccEEEEEEecccccCcc--hHHHHHHHHHHHHhhcCCcEEEEEeC
Confidence            4689999999864211111  0111122221  2346899999997542211  11111112223333  7899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+...+ ++.....                      ..+.++....+ ...++++||++|+|++++++.|.+.+
T Consensus       152 ~Dl~~~~-~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i  203 (228)
T 2qu8_A          152 IDKCNMD-SLSIDNK----------------------LLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITACELL  203 (228)
T ss_dssp             GGGCC---CCCHHHH----------------------HHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cccCCch-hhHHHHH----------------------HHHHHHHHhcCCCceEEEEecccCCCHHHHHHHHHHHH
Confidence            9997543 2211100                      00112223332 36899999999999999999988765

>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=99.35  E-value=7.7e-12  Score=112.02  Aligned_cols=116  Identities=10%  Similarity=0.076  Sum_probs=73.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+....... ..+.+.+.+-.....+++++++|+....   ...    .....+...+.|+++|+||+|+
T Consensus        51 ~~~~~l~DtpG~~~~~~~~-~~e~v~~~~~~~~~~d~ii~V~D~t~~~---~~~----~~~~~l~~~~~pvilv~NK~Dl  122 (258)
T 3a1s_A           51 GYTINLIDLPGTYSLGYSS-IDEKIARDYLLKGDADLVILVADSVNPE---QSL----YLLLEILEMEKKVILAMTAIDE  122 (258)
T ss_dssp             TEEEEEEECCCCSSCCSSS-HHHHHHHHHHHHSCCSEEEEEEETTSCH---HHH----HHHHHHHTTTCCEEEEEECHHH
T ss_pred             CeEEEEEECCCcCccCCCC-HHHHHHHHHHhhcCCCEEEEEeCCCchh---hHH----HHHHHHHhcCCCEEEEEECcCC
Confidence            3478999999987643322 2333434332112357899999997542   211    1123344578999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ..++ .+..    +..               ++       ...++ ..++++||++|.|+++|++.|.+..+
T Consensus       123 ~~~~-~i~~----~~~---------------~l-------~~~lg-~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          123 AKKT-GMKI----DRY---------------EL-------QKHLG-IPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             HHHT-TCCB----CHH---------------HH-------HHHHC-SCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCcc-chHH----HHH---------------HH-------HHHcC-CCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            6533 2211    000               11       12223 58999999999999999999998765

>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=99.35  E-value=4.5e-12  Score=103.36  Aligned_cols=112  Identities=14%  Similarity=0.180  Sum_probs=68.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+....   ...   ...+..   .+++++++|+..   +..+  +..++..+........|+++|.||+|
T Consensus        55 ~~~~~~Dt~G~~~~~---~~~---~~~~~~---~~~~i~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~D  122 (170)
T 1z0j_A           55 HKFLIWDTAGLERFR---ALA---PMYYRG---SAAAIIVYDITK---EETFSTLKNWVRELRQHGPPSIVVAIAGNKCD  122 (170)
T ss_dssp             EEEEEEEECCSGGGG---GGT---HHHHTT---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTSEEEEEEECTT
T ss_pred             EEEEEEcCCCchhhh---ccc---HhhCcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhCCCCCcEEEEEECCc
Confidence            468999999975421   111   112322   367899999863   3222  23343333333234678999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ +...-.                         ..++...++ ..++++||++|.|++++++.|.+.++
T Consensus       123 l~~~~-~v~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          123 LTDVR-EVMERD-------------------------AKDYADSIH-AIFVETSAKNAININELFIEISRRIP  168 (170)
T ss_dssp             CGGGC-CSCHHH-------------------------HHHHHHHTT-CEEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             ccccc-ccCHHH-------------------------HHHHHHHcC-CEEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            97533 211000                         011112333 58999999999999999999988775

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.35  E-value=9e-12  Score=104.67  Aligned_cols=119  Identities=13%  Similarity=0.161  Sum_probs=69.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh--------cCCCEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ--------LELPHV  185 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~--------~~~p~I  185 (284)
                      ...+.++||||+.....       +...  .....+++++++|+....+-.. +..++..+.....        .+.|++
T Consensus        62 ~~~~~i~Dt~G~~~~~~-------~~~~--~~~~~d~ii~v~D~~~~~s~~~-~~~~~~~~~~~~~~~~~~~~~~~~pii  131 (199)
T 4bas_A           62 RVAFTVFDMGGAKKFRG-------LWET--YYDNIDAVIFVVDSSDHLRLCV-VKSEIQAMLKHEDIRRELPGGGRVPFL  131 (199)
T ss_dssp             TEEEEEEEECCSGGGGG-------GGGG--GCTTCSEEEEEEETTCGGGHHH-HHHHHHHHHTSHHHHSBCTTSCBCCEE
T ss_pred             CEEEEEEECCCCHhHHH-------HHHH--HHhcCCEEEEEEECCcHHHHHH-HHHHHHHHHhChhhhhcccccCCCCEE
Confidence            45789999999865221       1111  1223578999999974432222 2222222111111        278999


Q ss_pred             EEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          186 NILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       186 lVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+||+|+.... ...++.        +.+.             +..+... ....++++||++|+|++++++.|.+.+.
T Consensus       132 lv~NK~Dl~~~~-~~~~~~--------~~~~-------------~~~~~~~-~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  188 (199)
T 4bas_A          132 FFANKMDAAGAK-TAAELV--------EILD-------------LTTLMGD-HPFVIFASNGLKGTGVHEGFSWLQETAS  188 (199)
T ss_dssp             EEEECTTSTTCC-CHHHHH--------HHHT-------------HHHHHTT-SCEEEEECBTTTTBTHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCCC-CHHHHH--------HHhc-------------chhhccC-CeeEEEEeeCCCccCHHHHHHHHHHHHH
Confidence            999999997643 222221        0010             0011122 2368999999999999999999987754

>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=99.34  E-value=1.4e-11  Score=101.81  Aligned_cols=115  Identities=13%  Similarity=0.184  Sum_probs=68.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+....   ...   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        61 ~~~~i~Dt~G~~~~~---~~~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~D  128 (181)
T 2efe_B           61 VKFEIWDTAGQERYH---SLA---PMYYRG---AAAAIIVFDVTN---QASFERAKKWVQELQAQGNPNMVMALAGNKSD  128 (181)
T ss_dssp             EEEEEEECCCSGGGG---GGT---HHHHTT---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEeCCCChhhh---hhh---HHHhcc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCc
Confidence            468999999975421   111   112322   367899999863   3332  33333332222223789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      +...+ ++..-                         .+.++...++ ..++++||++|.|++++++.|.+.+..-+
T Consensus       129 l~~~~-~~~~~-------------------------~~~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  177 (181)
T 2efe_B          129 LLDAR-KVTAE-------------------------DAQTYAQENG-LFFMETSAKTATNVKEIFYEIARRLPRVQ  177 (181)
T ss_dssp             CTTTC-CSCHH-------------------------HHHHHHHHTT-CEEEECCSSSCTTHHHHHHHHHHTCC---
T ss_pred             ccccc-cCCHH-------------------------HHHHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            96533 21100                         0011122333 57999999999999999999999886543

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.34  E-value=1.4e-11  Score=100.32  Aligned_cols=113  Identities=9%  Similarity=0.104  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh--cCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ--LELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~--~~~p~IlVlNK  190 (284)
                      ..+.++||||+.+..   .   .....+..   .+++++++|+..   +..+  +..++..+.....  .+.|+++|+||
T Consensus        51 ~~~~~~Dt~G~~~~~---~---~~~~~~~~---~~~~i~v~d~~~---~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK  118 (172)
T 2erx_A           51 CTLQITDTTGSHQFP---A---MQRLSISK---GHAFILVYSITS---RQSLEELKPIYEQICEIKGDVESIPIMLVGNK  118 (172)
T ss_dssp             EEEEEEECCSCSSCH---H---HHHHHHHH---CSEEEEEEETTC---HHHHHTTHHHHHHHHHHHC---CCCEEEEEEC
T ss_pred             EEEEEEECCCchhhH---H---HHHHhccc---CCEEEEEEECcC---HHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEc
Confidence            367999999976421   1   11122333   357889999863   3222  2222222222211  36899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +|+...+ ++....                  .       .++...++ ..++++||++|.|++++++.|.+.+..
T Consensus       119 ~Dl~~~~-~v~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~~  167 (172)
T 2erx_A          119 CDESPSR-EVQSSE------------------A-------EALARTWK-CAFMETSAKLNHNVKELFQELLNLEKR  167 (172)
T ss_dssp             GGGGGGC-CSCHHH------------------H-------HHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHTCCS
T ss_pred             ccccccc-ccCHHH------------------H-------HHHHHHhC-CeEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            9986543 221100                  0       01112223 479999999999999999999987753

>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=99.34  E-value=9.9e-12  Score=100.72  Aligned_cols=110  Identities=13%  Similarity=0.206  Sum_probs=65.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK  190 (284)
                      .++.++||||+.+.   ..    +.. .+..   .+++++++|+..   +..+  +..++..+..... .+.|+++|+||
T Consensus        52 ~~~~l~D~~G~~~~---~~----~~~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK  118 (168)
T 1u8z_A           52 VQIDILDTAGQEDY---AA----IRDNYFRS---GEGFLCVFSITE---MESFAATADFREQILRVKEDENVPFLLVGNK  118 (168)
T ss_dssp             EEEEEEECCC---C---HH----HHHHHHHH---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHHCCTTSCEEEEEEC
T ss_pred             EEEEEEECCCcchh---HH----HHHHHhhc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCcEEEEEEC
Confidence            36889999997541   11    222 2333   357888999863   3332  2333333222222 37899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+...+ +...      +.                   +.+....++ ..++++||++|.|++++++.+.+.+
T Consensus       119 ~Dl~~~~-~~~~------~~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i  165 (168)
T 1u8z_A          119 SDLEDKR-QVSV------EE-------------------AKNRADQWN-VNYVETSAKTRANVDKVFFDLMREI  165 (168)
T ss_dssp             GGGGGGC-CSCH------HH-------------------HHHHHHHHT-CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccccccC-ccCH------HH-------------------HHHHHHHcC-CeEEEeCCCCCCCHHHHHHHHHHHH
Confidence            9986533 2100      00                   011122333 4799999999999999999988765

>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=99.34  E-value=2.3e-11  Score=99.04  Aligned_cols=112  Identities=15%  Similarity=0.169  Sum_probs=67.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.+....   .   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        52 ~~~~l~D~~G~~~~~~~---~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~D  119 (170)
T 1g16_A           52 VKLQIWDTAGQERFRTI---T---TAYYRG---AMGIILVYDITD---ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD  119 (170)
T ss_dssp             EEEEEECCTTGGGTSCC---C---HHHHTT---EEEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEeCCCChhhhhh---H---HHHhcc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcc
Confidence            36789999997542211   1   112322   468999999863   3222  23333333333334789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +..+. ...+..                          .++...++ ..++++||++|.|++++++.|.+.+.+
T Consensus       120 l~~~~-~~~~~~--------------------------~~~~~~~~-~~~~~~Sa~~~~gv~~l~~~l~~~~~~  165 (170)
T 1g16_A          120 METRV-VTADQG--------------------------EALAKELG-IPFIESSAKNDDNVNEIFFTLAKLIQE  165 (170)
T ss_dssp             CTTCC-SCHHHH--------------------------HHHHHHHT-CCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCcCc-cCHHHH--------------------------HHHHHHcC-CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            84322 100000                          11112233 479999999999999999999887653

>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=99.34  E-value=1.8e-11  Score=99.93  Aligned_cols=112  Identities=13%  Similarity=0.136  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.+...       +...  .....+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        55 ~~l~i~Dt~G~~~~~~-------~~~~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  122 (170)
T 1z08_A           55 VNLAIWDTAGQERFHA-------LGPI--YYRDSNGAILVYDITD---EDSFQKVKNWVKELRKMLGNEICLCIVGNKID  122 (170)
T ss_dssp             EEEEEEECCCC--------------CC--SSTTCSEEEEEEETTC---HHHHHHHHHHHHHHHHHHGGGSEEEEEEECGG
T ss_pred             EEEEEEECCCcHhhhh-------hHHH--HhccCCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCeEEEEEECcc
Confidence            3678999999654211       1111  1123468899999863   3322  33444444444445789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +..++ ....      +                   ...++....+ ..++++||++|.|++++++.|.+.+.
T Consensus       123 l~~~~-~~~~------~-------------------~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~  168 (170)
T 1z08_A          123 LEKER-HVSI------Q-------------------EAESYAESVG-AKHYHTSAKQNKGIEELFLDLCKRMI  168 (170)
T ss_dssp             GGGGC-CSCH------H-------------------HHHHHHHHTT-CEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             ccccc-ccCH------H-------------------HHHHHHHHcC-CeEEEecCCCCCCHHHHHHHHHHHHh
Confidence            96532 1110      0                   0011122333 58899999999999999999987654

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.34  E-value=4.6e-12  Score=122.13  Aligned_cols=161  Identities=12%  Similarity=0.153  Sum_probs=88.7

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      +..|+++|.+ |||||+...|..      ++...+.-.|+.+.-..       .           .              
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~------~~~~~v~~~~g~t~~~~-------~-----------~--------------   64 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAG------ERISIVEDTPGVTRDRI-------Y-----------S--------------   64 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEE------EEEC-----------CE-------E-----------E--------------
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC------CCCcccCCCCCcceeEE-------E-----------E--------------
Confidence            4459999999 999999998854      44444443343321000       0           0              


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHH-hcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDV-TKFISGCMASLS  175 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~  175 (284)
                                .++. .+..+.++||||+..  .......++..... .....++++|++|+....++ +..+..+     
T Consensus        65 ----------~~~~-~~~~~~liDT~G~~~--~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~-----  126 (456)
T 4dcu_A           65 ----------SAEW-LNYDFNLIDTGGIDI--GDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKI-----  126 (456)
T ss_dssp             ----------ECTT-CSSCCEEECCCC--------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHH-----
T ss_pred             ----------EEEE-CCceEEEEECCCCCC--cchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHH-----
Confidence                      0010 145789999999753  22222333333221 11224689999998754333 3334333     


Q ss_pred             HHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHH
Q 023298          176 AMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRY  255 (284)
Q Consensus       176 ~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~  255 (284)
                       +.+.++|+++|+||+|+........++.                               ..++...+++||++|.|+.+
T Consensus       127 -l~~~~~pvilV~NK~D~~~~~~~~~e~~-------------------------------~lg~~~~~~iSA~~g~gv~~  174 (456)
T 4dcu_A          127 -LYRTKKPVVLAVNKLDNTEMRANIYDFY-------------------------------SLGFGEPYPISGTHGLGLGD  174 (456)
T ss_dssp             -HTTCCSCEEEEEECC---------CCSG-------------------------------GGSSSSEEECCTTTCTTHHH
T ss_pred             -HHHcCCCEEEEEECccchhhhhhHHHHH-------------------------------HcCCCceEEeecccccchHH
Confidence             3357899999999999864321112221                               23455678999999999999


Q ss_pred             HHHHHHHhcCCC
Q 023298          256 VLSQIDNCIQWG  267 (284)
Q Consensus       256 Ll~~I~~~l~~g  267 (284)
                      |++.+.+.++..
T Consensus       175 L~~~i~~~l~~~  186 (456)
T 4dcu_A          175 LLDAVAEHFKNI  186 (456)
T ss_dssp             HHHHHHTTGGGS
T ss_pred             HHHHHHhhcccc
Confidence            999999887643

>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=99.34  E-value=2.2e-11  Score=100.29  Aligned_cols=113  Identities=17%  Similarity=0.183  Sum_probs=63.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh----cCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ----LELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~----~~~p~IlVl  188 (284)
                      .++.++||||+....   .    +...  .....+++++++|+..   +..+  +..++..+.....    .+.|+++|+
T Consensus        58 ~~~~l~Dt~G~~~~~---~----~~~~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~  125 (182)
T 1ky3_A           58 ATMQVWDTAGQERFQ---S----LGVA--FYRGADCCVLVYDVTN---ASSFENIKSWRDEFLVHANVNSPETFPFVILG  125 (182)
T ss_dssp             EEEEEECCC-----------------C--CSTTCCEEEEEEETTC---HHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEE
T ss_pred             EEEEEEECCCChHhh---h----hhHH--HhhcCCEEEEEEECCC---hHHHHHHHHHHHHHHHHhcccCcCCCcEEEEE
Confidence            367999999965411   1    1111  1223468999999863   3322  3333333333222    578999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ||+|+...+ ......                        .+.++........++++||++|.|++++++.|.+.+
T Consensus       126 nK~Dl~~~~-~~v~~~------------------------~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  176 (182)
T 1ky3_A          126 NKIDAEESK-KIVSEK------------------------SAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA  176 (182)
T ss_dssp             ECTTSCGGG-CCSCHH------------------------HHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             ECCcccccc-ccCCHH------------------------HHHHHHHhcCCCeEEEEecCCCCCHHHHHHHHHHHH
Confidence            999986432 110000                        001111223457899999999999999999987754

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=99.34  E-value=9.9e-12  Score=110.82  Aligned_cols=158  Identities=12%  Similarity=-0.001  Sum_probs=84.0

Q ss_pred             ceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC----CCCCcc------ccccccccHHHHhhhcCccc
Q 023298           19 LVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN----FDYPVA------MDIRELISLEDVMEELGLGP   86 (284)
Q Consensus        19 ~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~----~~~~~~------~dir~~i~~~~vm~~~~lgP   86 (284)
                      ++++.|+|. | +||||++.|||.+|++.|+||++||+|||++.    +.....      -.+....   +...+..+.|
T Consensus        18 ~~vI~v~s~kGGvGKTT~a~nLA~~la~~G~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~~~~~~~---~~~~~l~vlp   94 (262)
T 2ph1_A           18 KSRIAVMSGKGGVGKSTVTALLAVHYARQGKKVGILDADFLGPSIPILFGLRNARIAVSAEGLEPVL---TQKYGIKVMS   94 (262)
T ss_dssp             SCEEEEECSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCSSCCHHHHHTTCCSCCCEEETTEEECEE---CTTTCCEEEC
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCCCCHHHHhcCCCccccccccCccccc---cCCCCeEEEe
Confidence            345666655 6 99999999999999999999999999999853    222111      0011110   0011223334


Q ss_pred             CchhhhhhHh-hh---hcHHHHHHHHhhcc--CCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC
Q 023298           87 NGGLIYCMEH-LE---DNLDDWLAEELDNY--LDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI  160 (284)
Q Consensus        87 ng~l~~~~e~-~~---~~~~~~l~~~l~~~--~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~  160 (284)
                      .+......+. +.   ....+.+++.++..  .+++||||||||.....     .... ..+..+   +.++.++.....
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~ViID~pp~~~~~-----~~~~-~~~~~a---D~viiv~~~~~~  165 (262)
T 2ph1_A           95 MQFLLPKENTPVIWRGPLIAGMIREFLGRVAWGELDHLLIDLPPGTGDA-----PLTV-MQDAKP---TGVVVVSTPQEL  165 (262)
T ss_dssp             GGGGSTTCSSCCCCCSHHHHHHHHHHHHSBCCCSCSEEEEECCSSSSSH-----HHHH-HHHHCC---SEEEEEECSSSC
T ss_pred             ccccCCCcccchhhcCchHHHHHHHHHHHhhccCCCEEEEECcCCCchH-----HHHH-HhhccC---CeEEEEecCccc
Confidence            3332211110 00   01113344444432  26899999999976421     0001 112122   445556655432


Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCCEE-EEecCCcc
Q 023298          161 TDVTKFISGCMASLSAMVQLELPHV-NILSKMDL  193 (284)
Q Consensus       161 ~~~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~Dl  193 (284)
                       +...    ....+..+.+.+.+.+ +|+|+.|.
T Consensus       166 -s~~~----~~~~~~~l~~~~~~~~gvV~N~~~~  194 (262)
T 2ph1_A          166 -TAVI----VEKAINMAEETNTSVLGLVENMSYF  194 (262)
T ss_dssp             -CHHH----HHHHHHHHHTTTCCEEEEEETTCCE
T ss_pred             -hHHH----HHHHHHHHHhCCCCEEEEEECCCcc
Confidence             2222    2222333445677887 89999885

>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=99.33  E-value=1.3e-11  Score=102.42  Aligned_cols=111  Identities=14%  Similarity=0.172  Sum_probs=65.4

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~D  192 (284)
                      .+.++||||+.+..   ....   ..+..   .+++++++|+..   +..+  +..++..+.... ..+.|+++|+||+|
T Consensus        53 ~~~i~Dt~G~~~~~---~~~~---~~~~~---~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~D  120 (189)
T 4dsu_A           53 LLDILDTAGQEEYS---AMRD---QYMRT---GEGFLCVFAINN---TKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCD  120 (189)
T ss_dssp             EEEEEECCCC---C---TTHH---HHHHH---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTT
T ss_pred             EEEEEECCCcHHHH---HHHH---HHHhc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCcEEEEEECcc
Confidence            56789999976522   2111   12333   257888898863   3332  333333222222 24789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +.... ...+..                          .++...++ ..++++||++|.|++++++.|.+.+..
T Consensus       121 l~~~~-~~~~~~--------------------------~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~l~~~~~~  166 (189)
T 4dsu_A          121 LPSRT-VDTKQA--------------------------QDLARSYG-IPFIETSAKTRQGVDDAFYTLVREIRK  166 (189)
T ss_dssp             SSSCS-SCHHHH--------------------------HHHHHHHT-CCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             Ccccc-cCHHHH--------------------------HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            86432 111111                          11112233 579999999999999999999887653

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=99.33  E-value=2.1e-11  Score=106.08  Aligned_cols=156  Identities=15%  Similarity=0.200  Sum_probs=81.8

Q ss_pred             eEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC----CCCCcc-ccccccc----cHHHHh-----hhcC
Q 023298           20 VIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN----FDYPVA-MDIRELI----SLEDVM-----EELG   83 (284)
Q Consensus        20 ~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~----~~~~~~-~dir~~i----~~~~vm-----~~~~   83 (284)
                      +.+.|+|+ | +||||++.+||.+|++.|+||++||+|||...    +..+.. ..+.+.+    .+++.+     .+..
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~i~~~~~~~l~   82 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDNVY   82 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTTEE
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHHhcCCeEEEEeCCCCCCChhHhcCCCCCCCCHHHHhcCCCCHHHHhhcCCCCCEE
Confidence            34666665 5 99999999999999999999999999997542    111111 1111111    122222     1223


Q ss_pred             cccCchhhhhhHhh-hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC
Q 023298           84 LGPNGGLIYCMEHL-EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD  162 (284)
Q Consensus        84 lgPng~l~~~~e~~-~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~  162 (284)
                      +.|........+.. ...+.+.+ +.+.+  ++++|+|||||.....        ....+..   .+.+++++...    
T Consensus        83 ~lp~~~~~~~~~~~~~~~l~~~l-~~l~~--~yD~viiD~~~~~~~~--------~~~~~~~---ad~vi~v~~~~----  144 (237)
T 1g3q_A           83 VLPGAVDWEHVLKADPRKLPEVI-KSLKD--KFDFILIDCPAGLQLD--------AMSAMLS---GEEALLVTNPE----  144 (237)
T ss_dssp             EECCCCSHHHHHHCCGGGHHHHH-HTTGG--GCSEEEEECCSSSSHH--------HHHHHTT---CSEEEEEECSC----
T ss_pred             EEeCCCccchhhhcCHHHHHHHH-HHHHh--cCCEEEEECCCCcCHH--------HHHHHHH---CCeEEEEecCC----
Confidence            34422111111111 22231222 23332  6899999999965411        1222333   34566666653    


Q ss_pred             HHHHHHHHHHHHHHHHhcCC-CEEEEecCCccc
Q 023298          163 VTKFISGCMASLSAMVQLEL-PHVNILSKMDLV  194 (284)
Q Consensus       163 ~~~~i~~~l~~l~~~~~~~~-p~IlVlNK~Dll  194 (284)
                      ... +......+..+.+.+. ..-+|+||++..
T Consensus       145 ~~~-~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  176 (237)
T 1g3q_A          145 ISC-LTDTMKVGIVLKKAGLAILGFVLNRYGRS  176 (237)
T ss_dssp             HHH-HHHHHHHHHHHHHTTCEEEEEEEEEETSC
T ss_pred             ccc-HHHHHHHHHHHHhCCCceEEEEEecCCcc
Confidence            222 2222222333334443 456789999853

>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=99.33  E-value=9.1e-12  Score=112.63  Aligned_cols=117  Identities=11%  Similarity=0.134  Sum_probs=72.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+....... ..+.+.+..-.....+++++++|+...   ....    .....+...+.|+++|+||+|+.
T Consensus        49 ~~l~l~DtpG~~~~~~~~-~~e~v~~~~~~~~~~d~vi~V~D~t~~---e~~~----~~~~~l~~~~~p~ilv~NK~Dl~  120 (272)
T 3b1v_A           49 KDLEIQDLPGIYSMSPYS-PEAKVARDYLLSQRADSILNVVDATNL---ERNL----YLTTQLIETGIPVTIALNMIDVL  120 (272)
T ss_dssp             TTEEEEECCCCSCSSCSS-HHHHHHHHHHHTTCCSEEEEEEEGGGH---HHHH----HHHHHHHHTCSCEEEEEECHHHH
T ss_pred             CeEEEEECCCcCccCCCC-hHHHHHHHHHhcCCCCEEEEEecCCch---HhHH----HHHHHHHhcCCCEEEEEEChhhC
Confidence            478999999987643222 233343333221235789999998642   2221    11223345789999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      .+. .+..    +..               .|.       +.++ ..++++||++|.|+++|++.|.+.+...
T Consensus       121 ~~~-~~~~----~~~---------------~l~-------~~lg-~~vi~~SA~~g~gi~el~~~i~~~~~~~  165 (272)
T 3b1v_A          121 DGQ-GKKI----NVD---------------KLS-------YHLG-VPVVATSALKQTGVDQVVKKAAHTTTST  165 (272)
T ss_dssp             HHT-TCCC----CHH---------------HHH-------HHHT-SCEEECBTTTTBSHHHHHHHHHHSCTTT
T ss_pred             CcC-CcHH----HHH---------------HHH-------HHcC-CCEEEEEccCCCCHHHHHHHHHHHHhhc
Confidence            433 2211    100               111       1122 5799999999999999999999887543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.33  E-value=6.3e-12  Score=106.16  Aligned_cols=112  Identities=13%  Similarity=0.141  Sum_probs=69.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+...   ..   .....+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        75 ~~l~l~Dt~G~~~~---~~---~~~~~~~~---~d~iilV~D~~~---~~s~~~~~~~~~~i~~~~~~~~piilV~NK~D  142 (192)
T 2il1_A           75 IRLQIWDTAGQERF---NS---ITSAYYRS---AKGIILVYDITK---KETFDDLPKWMKMIDKYASEDAELLLVGNKLD  142 (192)
T ss_dssp             EEEEEEEECCSGGG---HH---HHHHHHHH---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             EEEEEEeCCCcHHH---HH---HHHHHhcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcc
Confidence            36899999996541   11   11222333   357899999864   3332  33333333333334789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +...+ ++..-                         .+.++...+....++++||++|.|++++++.|.+.+
T Consensus       143 l~~~~-~v~~~-------------------------~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i  188 (192)
T 2il1_A          143 CETDR-EITRQ-------------------------QGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI  188 (192)
T ss_dssp             GGGGC-CSCHH-------------------------HHHHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             ccccc-ccCHH-------------------------HHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            86532 21100                         001122333457899999999999999999987654

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.33  E-value=3.3e-11  Score=112.10  Aligned_cols=199  Identities=9%  Similarity=0.060  Sum_probs=107.7

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcc----cCch
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLG----PNGG   89 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lg----Png~   89 (284)
                      ...+..++.++|++ |||||+...|+.++...+.++.++..||+.....-.. ..++..+  ..+....++-    |...
T Consensus        51 ~~~~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~~d~~~~~~~~~~-~~~~~~i--~~v~q~~~~~~~~~~~~~  127 (337)
T 2qm8_A           51 QTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSI-LGDKTRM--ARLAIDRNAFIRPSPSSG  127 (337)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCS-SCCGGGS--TTGGGCTTEEEECCCCCS
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEEEcCcccccccch-HHHhhhh--eeeccCcccccccCcccc
Confidence            34556679999999 9999999999999988889999999999764321000 0111111  0010111110    1100


Q ss_pred             hhhhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHH
Q 023298           90 LIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISG  169 (284)
Q Consensus        90 l~~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~  169 (284)
                      -+.+  ......+..  ..++. .+.+++||||||..+.  .    .    .+.  ...+++++++|+....+. ..+..
T Consensus       128 ~l~G--~tr~~~e~~--~~~~~-~~~~~iliDT~Gi~~~--~----~----~v~--~~~d~vl~v~d~~~~~~~-~~i~~  189 (337)
T 2qm8_A          128 TLGG--VAAKTRETM--LLCEA-AGFDVILVETVGVGQS--E----T----AVA--DLTDFFLVLMLPGAGDEL-QGIKK  189 (337)
T ss_dssp             SHHH--HHHHHHHHH--HHHHH-TTCCEEEEEECSSSSC--H----H----HHH--TTSSEEEEEECSCC-------CCT
T ss_pred             cccc--hHHHHHHHH--HHHhc-CCCCEEEEECCCCCcc--h----h----hHH--hhCCEEEEEEcCCCcccH-HHHHH
Confidence            0000  000111011  01221 2679999999997651  1    0    121  224678899987522110 00100


Q ss_pred             HHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC------CceEE
Q 023298          170 CMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS------MVSFM  243 (284)
Q Consensus       170 ~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~------~~~~i  243 (284)
                            ..  .+.|.++|+||+|+...........                       ..+...+....      ..+++
T Consensus       190 ------~i--~~~~~ivvlNK~Dl~~~~~~s~~~~-----------------------~~l~~a~~l~~~~~~~~~~~vl  238 (337)
T 2qm8_A          190 ------GI--FELADMIAVNKADDGDGERRASAAA-----------------------SEYRAALHILTPPSATWTPPVV  238 (337)
T ss_dssp             ------TH--HHHCSEEEEECCSTTCCHHHHHHHH-----------------------HHHHHHHTTBCCSBTTBCCCEE
T ss_pred             ------HH--hccccEEEEEchhccCchhHHHHHH-----------------------HHHHHHHHhccccccCCCCCEE
Confidence                  00  1347799999999764330111111                       01111111111      35789


Q ss_pred             EEeccCcccHHHHHHHHHHhcC
Q 023298          244 PLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       244 piSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ++||+++.|+++|++.|.+..+
T Consensus       239 ~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          239 TISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             EEBTTTTBSHHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHHH
Confidence            9999999999999999998765

>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=99.33  E-value=1.2e-11  Score=111.01  Aligned_cols=118  Identities=19%  Similarity=0.263  Sum_probs=73.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcC-CCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLE-LPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~D  192 (284)
                      +.++.++||||+...... .....+.+..-.....+++++++|+...   ....    .....+...+ .|+++|+||+|
T Consensus        49 ~~~~~l~DtpG~~~~~~~-~~~~~~~~~~~~~~~~d~vi~v~D~~~~---~~~~----~~~~~~~~~~~~p~ilv~NK~D  120 (271)
T 3k53_A           49 EKEFLVVDLPGIYSLTAH-SIDELIARNFILDGNADVIVDIVDSTCL---MRNL----FLTLELFEMEVKNIILVLNKFD  120 (271)
T ss_dssp             TEEEEEEECCCCSCCCSS-CHHHHHHHHHHHTTCCSEEEEEEEGGGH---HHHH----HHHHHHHHTTCCSEEEEEECHH
T ss_pred             CceEEEEeCCCccccccC-CHHHHHHHHhhhccCCcEEEEEecCCcc---hhhH----HHHHHHHhcCCCCEEEEEEChh
Confidence            346899999998764332 2223333333222235789999998643   1111    1122334556 99999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +..++ ......    .               .+    .   +.++ ..++|+||++|.|++++++.|.+.+...
T Consensus       121 l~~~~-~~~~~~----~---------------~l----~---~~lg-~~~~~~Sa~~g~gi~~l~~~i~~~~~~~  167 (271)
T 3k53_A          121 LLKKK-GAKIDI----K---------------KM----R---KELG-VPVIPTNAKKGEGVEELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHH-TCCCCH----H---------------HH----H---HHHS-SCEEECBGGGTBTHHHHHHHHHHHHHTC
T ss_pred             cCccc-ccHHHH----H---------------HH----H---HHcC-CcEEEEEeCCCCCHHHHHHHHHHHHhcc
Confidence            86533 211100    0               11    1   1222 6799999999999999999999887654

>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=99.33  E-value=2.7e-11  Score=101.32  Aligned_cols=113  Identities=15%  Similarity=0.165  Sum_probs=63.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ-LELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~-~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+.+..       .+....  ....+++++++|+....+... +..++..+..... .+.|+++|+||+|+
T Consensus        69 ~~~~l~Dt~G~~~~~-------~~~~~~--~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~~p~ilv~nK~Dl  138 (190)
T 3con_A           69 CLLDILDTAGQEEYS-------AMRDQY--MRTGEGFLCVFAINNSKSFAD-INLYREQIKRVKDSDDVPMVLVGNKCDL  138 (190)
T ss_dssp             EEEEEEECCC--------------------CTTCSEEEEEEETTCHHHHHH-HHHHHHHHHHHHTCSCCCEEEEEECTTC
T ss_pred             EEEEEEECCChHHHH-------HHHHHh--hCcCCEEEEEEECcCHHHHHH-HHHHHHHHHHHhCCCCCeEEEEEECCcC
Confidence            468999999975421       111111  122467888999863321111 2333333322222 47899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ..+.....+.                           .++.+.++ ..++++||+++.|++++++.|.+.+.
T Consensus       139 ~~~~~~~~~~---------------------------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~  182 (190)
T 3con_A          139 PTRTVDTKQA---------------------------HELAKSYG-IPFIETSAKTRQGVEDAFYTLVREIR  182 (190)
T ss_dssp             SCCCSCHHHH---------------------------HHHHHHHT-CCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CcccCCHHHH---------------------------HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            6522000000                           11223334 37999999999999999999887654

>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=99.32  E-value=1.7e-11  Score=101.38  Aligned_cols=110  Identities=12%  Similarity=0.190  Sum_probs=67.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK  190 (284)
                      .++.++||||+.+..       .+.. .+..   .+++++++|+..   +..+  +..++..+..... .+.|+++|+||
T Consensus        66 ~~~~l~Dt~G~~~~~-------~~~~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK  132 (187)
T 2a9k_A           66 VQIDILDTAGQEDYA-------AIRDNYFRS---GEGFLCVFSITE---MESFAATADFREQILRVKEDENVPFLLVGNK  132 (187)
T ss_dssp             EEEEEEECCCTTCCH-------HHHHHHHHH---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHHCCTTCCEEEEEEC
T ss_pred             EEEEEEECCCCcccH-------HHHHHHhcc---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence            368899999976421       1222 2333   357888999863   3332  3333333323222 37899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.... .....                         .+.++...++ ..++++||+++.|++++++.|.+.+
T Consensus       133 ~Dl~~~~-~~~~~-------------------------~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i  179 (187)
T 2a9k_A          133 SDLEDKR-QVSVE-------------------------EAKNRAEQWN-VNYVETSAKTRANVDKVFFDLMREI  179 (187)
T ss_dssp             GGGGGGC-CSCHH-------------------------HHHHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccccccC-ccCHH-------------------------HHHHHHHHcC-CeEEEeCCCCCCCHHHHHHHHHHHH
Confidence            9986532 11000                         0012223344 4899999999999999999988765

>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=99.32  E-value=2.8e-11  Score=101.60  Aligned_cols=112  Identities=7%  Similarity=0.126  Sum_probs=67.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh--cCCCEEEEec
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ--LELPHVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~--~~~p~IlVlN  189 (284)
                      ..+.++||||+....       .+.. .+..   .+++++++|+..   +..+  +..++..+.....  .+.|+++|+|
T Consensus        56 ~~~~l~Dt~G~~~~~-------~~~~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~~piilv~n  122 (199)
T 2gf0_A           56 CTLQITDTTGSHQFP-------AMQRLSISK---GHAFILVFSVTS---KQSLEELGPIYKLIVQIKGSVEDIPVMLVGN  122 (199)
T ss_dssp             EEEEEEECCGGGSCH-------HHHHHHHHH---CSEEEEEEETTC---HHHHHTTHHHHHHHHHHHSCGGGSCEEEEEE
T ss_pred             EEEEEEeCCChHHhH-------HHHHHhhcc---CCEEEEEEECcC---HHHHHHHHHHHHHHHHHhcCCCCCCEEEEEE
Confidence            367999999975421       1222 2333   357888999863   3222  2222222222221  3689999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+|+..+.......                           .++...++ ..++++||++|.|++++++.|.+.+..-
T Consensus       123 K~Dl~~~~~~~~~~---------------------------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  172 (199)
T 2gf0_A          123 KCDETQREVDTREA---------------------------QAVAQEWK-CAFMETSAKMNYNVKELFQELLTLETRR  172 (199)
T ss_dssp             CTTCSSCSSCHHHH---------------------------HHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHHCSSS
T ss_pred             CccCCccccCHHHH---------------------------HHHHHHhC-CeEEEEecCCCCCHHHHHHHHHHHHhhh
Confidence            99986522000000                           01112233 4799999999999999999999987653

>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=99.32  E-value=2.1e-11  Score=101.73  Aligned_cols=113  Identities=14%  Similarity=0.118  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH--HHHHHHHHHHHHH--HhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT--KFISGCMASLSAM--VQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~--~~i~~~l~~l~~~--~~~~~p~IlVlNK  190 (284)
                      .++.++||||+....   .    +.+..  ....+++++++|+.......  ..+..+...+...  ...+.|+++|.||
T Consensus        74 ~~~~i~Dt~G~~~~~---~----~~~~~--~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK  144 (198)
T 3t1o_A           74 TRFHLYTVPGQVFYN---A----SRKLI--LRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNK  144 (198)
T ss_dssp             EEEEEEECCSCCSCS---H----HHHHH--TTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEEC
T ss_pred             eEEEEEeCCChHHHH---H----HHHHH--HhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEc
Confidence            468999999976421   1    21211  12246899999996321111  1111111111111  1147899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.... ...+                           +.+....++...++++||++|.|++++++.|.+.+
T Consensus       145 ~Dl~~~~-~~~~---------------------------~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i  190 (198)
T 3t1o_A          145 RDLPDAL-PVEM---------------------------VRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLV  190 (198)
T ss_dssp             TTSTTCC-CHHH---------------------------HHHHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHH
T ss_pred             hhccccc-CHHH---------------------------HHHHHHhcCCceEEEEecCCCcCHHHHHHHHHHHH
Confidence            9986431 1111                           12233455656899999999999999999887754

>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=99.32  E-value=2.2e-11  Score=98.92  Aligned_cols=118  Identities=14%  Similarity=0.101  Sum_probs=67.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~D  192 (284)
                      +..+.++||||+...       ..+....  ....+++++++|+....+... +..++..+.. ....+.|+++|.||+|
T Consensus        43 ~~~~~i~Dt~G~~~~-------~~~~~~~--~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~nK~D  112 (164)
T 1r8s_A           43 NISFTVWDVGGQDKI-------RPLWRHY--FQNTQGLIFVVDSNDRERVNE-AREELMRMLAEDELRDAVLLVFANKQD  112 (164)
T ss_dssp             SCEEEEEECCCCGGG-------HHHHHHH--TTTCSEEEEEEETTCGGGHHH-HHHHHHHHHTCGGGTTCEEEEEEECTT
T ss_pred             CEEEEEEEcCCChhh-------HHHHHHH--hccCCEEEEEEECCCHHHHHH-HHHHHHHHHhchhhcCCeEEEEEECcC
Confidence            457899999998541       1122222  122468899999864422222 2222221111 1123789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... ...++.        +.+..              ..... ....++++||++|.|++++++.|.+.+.
T Consensus       113 l~~~~-~~~~~~--------~~~~~--------------~~~~~-~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  161 (164)
T 1r8s_A          113 LPNAM-NAAEIT--------DKLGL--------------HSLRH-RNWYIQATCATSGDGLYEGLDWLSNQLR  161 (164)
T ss_dssp             STTCC-CHHHHH--------HHTTG--------------GGCSS-CCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             CcCCC-CHHHHH--------HHhCc--------------ccccC-ccEEEEEcccCCCcCHHHHHHHHHHHHh
Confidence            96532 111111        00000              00011 1246999999999999999999988764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.32  E-value=2e-11  Score=101.88  Aligned_cols=108  Identities=11%  Similarity=0.253  Sum_probs=64.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.+..   ...   ...+..   .+++++++|+..   +..+  +..++..+.  ...+.|+++|+||+|
T Consensus        93 ~~~~i~Dt~G~~~~~---~~~---~~~~~~---~d~~i~v~D~~~---~~s~~~~~~~~~~i~--~~~~~piilv~NK~D  158 (208)
T 3clv_A           93 IKFDIWDTAGQERYA---SIV---PLYYRG---ATCAIVVFDISN---SNTLDRAKTWVNQLK--ISSNYIIILVANKID  158 (208)
T ss_dssp             EEEEEEECTTGGGCT---TTH---HHHHTT---CSEEEEEEETTC---HHHHHHHHHHHHHHH--HHSCCEEEEEEECTT
T ss_pred             eEEEEEECCCcHHHH---HHH---HHHhcC---CCEEEEEEECCC---HHHHHHHHHHHHHHH--hhCCCcEEEEEECCC
Confidence            578999999965422   111   122323   468999999863   3332  222322221  224589999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                       .... ...  .    +                   .+.++....+ ..++++||++|.|++++++.|.+.+
T Consensus       159 -~~~~-~~~--~----~-------------------~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~  202 (208)
T 3clv_A          159 -KNKF-QVD--I----L-------------------EVQKYAQDNN-LLFIQTSAKTGTNIKNIFYMLAEEI  202 (208)
T ss_dssp             -CC-C-CSC--H----H-------------------HHHHHHHHTT-CEEEEECTTTCTTHHHHHHHHHHHH
T ss_pred             -cccc-cCC--H----H-------------------HHHHHHHHcC-CcEEEEecCCCCCHHHHHHHHHHHH
Confidence             3321 110  0    0                   0012223344 4899999999999999999987654

>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=99.32  E-value=1.3e-11  Score=102.27  Aligned_cols=130  Identities=11%  Similarity=0.079  Sum_probs=72.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+......       ...  .....+++++++|+....+.......++..+.... .+.|+++|+||+|+.
T Consensus        53 ~~~~i~Dt~G~~~~~~~-------~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~  122 (186)
T 1mh1_A           53 VNLGLWDTAGQEDYDRL-------RPL--SYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLR  122 (186)
T ss_dssp             EEEEEECCCCSGGGTTT-------GGG--GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHH
T ss_pred             EEEEEEECCCCHhHHHH-------HHH--hccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhC-CCCCEEEEeEccccc
Confidence            35779999998652211       011  12234689999998632211111112222222211 278999999999997


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      ... ...+.+.        +.....- .    .....++...++...++++||++|.|++++++.|.+.+.+.+
T Consensus       123 ~~~-~~~~~~~--------~~~~~~v-~----~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  182 (186)
T 1mh1_A          123 DDK-DTIEKLK--------EKKLTPI-T----YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP  182 (186)
T ss_dssp             TCH-HHHHHHH--------HTTCCCC-C----HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSCCC
T ss_pred             ccc-hhhhhhc--------ccccccC-C----HHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHhccc
Confidence            643 2211110        0000000 0    001122334456668999999999999999999999887654

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=99.31  E-value=1.9e-11  Score=112.84  Aligned_cols=45  Identities=16%  Similarity=0.173  Sum_probs=40.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .+-++|.|.|.| |||||++.|||..|++.|+||++||+|||++.+
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkVllID~Dpq~~s~   91 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRVLQIGCDPKHDST   91 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEESSSCCTT
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHCCCeEEEEecCCCCccc
Confidence            456778899999 999999999999999999999999999999854

>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=99.31  E-value=2e-11  Score=103.27  Aligned_cols=113  Identities=12%  Similarity=0.134  Sum_probs=67.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh----cCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ----LELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~----~~~p~IlVl  188 (284)
                      ..+.++||||+........      ..+   ...+++++++|+..   +..+  +..++..+.....    .+.|+++|+
T Consensus        57 ~~~~l~Dt~G~~~~~~~~~------~~~---~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~  124 (207)
T 1vg8_A           57 VTMQIWDTAGQERFQSLGV------AFY---RGADCCVLVFDVTA---PNTFKTLDSWRDEFLIQASPRDPENFPFVVLG  124 (207)
T ss_dssp             EEEEEEEECSSGGGSCSCC------GGG---TTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEE
T ss_pred             EEEEEEeCCCcHHHHHhHH------HHH---hCCcEEEEEEECCC---HHHHHHHHHHHHHHHHhcccccCCCCcEEEEE
Confidence            3689999999755321110      112   22468999999863   3222  2233332222221    468999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ||+|+.... ...+..                          .++........++++||++|.|++++++.|.+.+..
T Consensus       125 nK~Dl~~~~-~~~~~~--------------------------~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  175 (207)
T 1vg8_A          125 NKIDLENRQ-VATKRA--------------------------QAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALK  175 (207)
T ss_dssp             ECTTSSCCC-SCHHHH--------------------------HHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             ECCCCcccc-cCHHHH--------------------------HHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            999986322 111000                          111122334689999999999999999999877654

>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=99.31  E-value=8.7e-12  Score=104.57  Aligned_cols=113  Identities=13%  Similarity=0.272  Sum_probs=65.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      .++.++||||+....      ..+... +..   .+++++++|+..   +..+  +..++..+.... ..+.|+++|+||
T Consensus        69 ~~~~l~Dt~G~~~~~------~~~~~~~~~~---~d~iilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK  136 (189)
T 1z06_A           69 IKIQLWDTAGQERFR------KSMVQHYYRN---VHAVVFVYDMTN---MASFHSLPAWIEECKQHLLANDIPRILVGNK  136 (189)
T ss_dssp             EEEEEEECCCSHHHH------TTTHHHHHTT---CCEEEEEEETTC---HHHHHTHHHHHHHHHHHCCCSCCCEEEEEEC
T ss_pred             EEEEEEECCCchhhh------hhhhHHHhcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence            368999999965411      012222 322   468999999863   3332  333333333322 357899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCc---ccHHHHHHHHHHhcCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKE---SSIRYVLSQIDNCIQW  266 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~---~~l~~Ll~~I~~~l~~  266 (284)
                      +|+.... ++..-.                         ..++...++ ..++++||+++   +|+++++..|.+.+++
T Consensus       137 ~Dl~~~~-~v~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          137 CDLRSAI-QVPTDL-------------------------AQKFADTHS-MPLFETSAKNPNDNDHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             TTCGGGC-CSCHHH-------------------------HHHHHHHTT-CCEEECCSSSGGGGSCHHHHHHHHC-----
T ss_pred             ccccccc-eeCHHH-------------------------HHHHHHHcC-CEEEEEeCCcCCcccCHHHHHHHHHHHHhh
Confidence            9986532 111000                         011112333 48999999999   9999999998877654

>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=99.31  E-value=5.9e-12  Score=102.88  Aligned_cols=111  Identities=17%  Similarity=0.130  Sum_probs=63.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      .++.++||||+.....      .+... +..   .+++++++|+..   +..+  +..++..+.... ..+.|+++|.||
T Consensus        51 ~~~~i~D~~g~~~~~~------~~~~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK  118 (169)
T 3q85_A           51 VTLIVYDIWEQGDAGG------WLQDHCLQT---GDAFLIVFSVTD---RRSFSKVPETLLRLRAGRPHHDLPVILVGNK  118 (169)
T ss_dssp             EEEEEECCCCC--------------CHHHHH---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHSTTSCCCEEEEEEC
T ss_pred             EEEEEEECCCccccch------hhhhhhhcc---CCEEEEEEECCC---hHHHHHHHHHHHHHHhcccCCCCCEEEEeeC
Confidence            4678999999865211      01111 223   357888999863   3332  223332222211 137899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.... ....-.                         ..++...++ ..++++||++|.|++++++.+.+.+
T Consensus       119 ~Dl~~~~-~~~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~~i  165 (169)
T 3q85_A          119 SDLARSR-EVSLEE-------------------------GRHLAGTLS-CKHIETSAALHHNTRELFEGAVRQI  165 (169)
T ss_dssp             TTCGGGC-CSCHHH-------------------------HHHHHHHTT-CEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             cchhhcc-cCCHHH-------------------------HHHHHHHcC-CcEEEecCccCCCHHHHHHHHHHHH
Confidence            9986433 111000                         011223334 4899999999999999999988764

>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=99.31  E-value=1.1e-11  Score=102.64  Aligned_cols=117  Identities=15%  Similarity=0.017  Sum_probs=64.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+.......       .  ......+++++++|+....+... +..++..+... ...+.|+++|+||+|+
T Consensus        62 ~~~~i~Dt~G~~~~~~~~-------~--~~~~~~d~ii~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~nK~Dl  131 (183)
T 1moz_A           62 LKLNVWDLGGQTSIRPYW-------R--CYYADTAAVIFVVDSTDKDRMST-ASKELHLMLQEEELQDAALLVFANKQDQ  131 (183)
T ss_dssp             EEEEEEEEC----CCTTG-------G--GTTTTEEEEEEEEETTCTTTHHH-HHHHHHHHTTSSTTSSCEEEEEEECTTS
T ss_pred             EEEEEEECCCCHhHHHHH-------H--HHhccCCEEEEEEECCCHHHHHH-HHHHHHHHHcChhhCCCeEEEEEECCCC
Confidence            467899999986522110       0  01123578999999875433332 22222211111 1357899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... ...+..        +.+..              .. .......++++||++|+|++++++.|.+.++
T Consensus       132 ~~~~-~~~~i~--------~~~~~--------------~~-~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  179 (183)
T 1moz_A          132 PGAL-SASEVS--------KELNL--------------VE-LKDRSWSIVASSAIKGEGITEGLDWLIDVIK  179 (183)
T ss_dssp             TTCC-CHHHHH--------HHTTT--------------TT-CCSSCEEEEEEBGGGTBTHHHHHHHHHHHHH
T ss_pred             CCCC-CHHHHH--------HHhCc--------------cc-ccCCceEEEEccCCCCcCHHHHHHHHHHHHH
Confidence            6532 111111        00000              00 0111247999999999999999999987653

>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=99.31  E-value=2.8e-11  Score=101.66  Aligned_cols=118  Identities=12%  Similarity=0.135  Sum_probs=68.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~  191 (284)
                      ..++.++||||+.+..       .+.. .+..   .+++++++|+....+... +..++..+... ...+.|+++|+||+
T Consensus        66 ~~~~~l~Dt~G~~~~~-------~~~~~~~~~---~d~ii~v~D~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~NK~  134 (188)
T 1zd9_A           66 NVTIKLWDIGGQPRFR-------SMWERYCRG---VSAIVYMVDAADQEKIEA-SKNELHNLLDKPQLQGIPVLVLGNKR  134 (188)
T ss_dssp             TEEEEEEEECCSHHHH-------TTHHHHHTT---CSEEEEEEETTCGGGHHH-HHHHHHHHHTCGGGTTCCEEEEEECT
T ss_pred             CEEEEEEECCCCHhHH-------HHHHHHHcc---CCEEEEEEECCCHHHHHH-HHHHHHHHHhCcccCCCCEEEEEECC
Confidence            3468999999975421       1122 2322   468999999864432222 22222211111 12578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+.... +..++.        +.+..              .. .......++++||++|.|++++++.|.+.+..
T Consensus       135 Dl~~~~-~~~~~~--------~~~~~--------------~~-~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          135 DLPGAL-DEKELI--------EKMNL--------------SA-IQDREICCYSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             TSTTCC-CHHHHH--------HHTTG--------------GG-CCSSCEEEEECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             CCccCC-CHHHHH--------HHhCh--------------hh-hccCCeeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            996532 111111        11110              00 01123578999999999999999999987754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.31  E-value=2.1e-11  Score=101.69  Aligned_cols=117  Identities=18%  Similarity=0.201  Sum_probs=70.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+...... .....+... +...+ .+++++++|+...   .. ...+   +..+...+.|.++|.||+|+
T Consensus        54 ~~~~l~Dt~G~~~~~~~-~~~~~~~~~~~~~~~-~~~~i~v~d~~~~---~~-~~~~---~~~~~~~~~piilv~nK~Dl  124 (188)
T 2wjg_A           54 EKFKVVDLPGVYSLTAN-SIDEIIARDYIINEK-PDLVVNIVDATAL---ER-NLYL---TLQLMEMGANLLLALNKMDL  124 (188)
T ss_dssp             EEEEEEECCCCSCCSSS-SHHHHHHHHHHHHHC-CSEEEEEEEGGGH---HH-HHHH---HHHHHTTTCCEEEEEECHHH
T ss_pred             cEEEEEECCCcCccccc-cHHHHHHHHHHhccC-CCEEEEEecchhH---HH-HHHH---HHHHHhcCCCEEEEEEhhhc
Confidence            46789999998763221 112223222 22112 3578999998532   21 1111   22334468999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      .... .+....                          .++.+.++ ..++++||+++.|++++++.|.+.+....
T Consensus       125 ~~~~-~~~~~~--------------------------~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          125 AKSL-GIEIDV--------------------------DKLEKILG-VKVVPLSAAKKMGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             HHHT-TCCCCH--------------------------HHHHHHHT-SCEEECBGGGTBSHHHHHHHHHHHHTTC-
T ss_pred             cccc-cchHHH--------------------------HHHHHHhC-CCeEEEEecCCCCHHHHHHHHHHHHHhcc
Confidence            6432 221100                          01112223 57999999999999999999999988765

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=99.31  E-value=1e-11  Score=113.60  Aligned_cols=159  Identities=14%  Similarity=0.120  Sum_probs=89.0

Q ss_pred             CceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC----CCCCcccccccc----ccHHHHhh-----hc
Q 023298           18 ALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN----FDYPVAMDIREL----ISLEDVME-----EL   82 (284)
Q Consensus        18 ~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~----~~~~~~~dir~~----i~~~~vm~-----~~   82 (284)
                      ++++++|+|+ | +||||++.|||..|++.|+||++||+||+...    +..+....+.+.    ..+++++.     ++
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~r~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~l  182 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGGF  182 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEECCTTTCCHHHHTTCCCSSSHHHHHTTSSCHHHHCEEETTTTE
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEECCCCCccHHHHcCCCCCCCHHHHCcCCCCHHHhhhccCCCCE
Confidence            4577889987 5 99999999999999999999999999997542    222222222222    23444432     33


Q ss_pred             CcccCchhhhh-hHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC
Q 023298           83 GLGPNGGLIYC-MEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI  160 (284)
Q Consensus        83 ~lgPng~l~~~-~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~  160 (284)
                      .+.|.|..... .+++. ..+.+.+. .+++  ++++|||||||.....     ...   .+.  ...+.+++++.....
T Consensus       183 ~vl~~g~~~~~~~ell~~~~l~~ll~-~l~~--~yD~VIIDtpp~~~~~-----d~~---~l~--~~ad~vilV~~~~~~  249 (299)
T 3cio_A          183 DVITRGQVPPNPSELLMRDRMRQLLE-WAND--HYDLVIVDTPPMLAVS-----DAA---VVG--RSVGTSLLVARFGLN  249 (299)
T ss_dssp             EEECCCSCCSCHHHHHTSHHHHHHHH-HHHH--HCSEEEEECCCTTTCT-----HHH---HHG--GGCSEEEEEEETTTS
T ss_pred             EEEECCCCCCCHHHHhCHHHHHHHHH-HHHh--CCCEEEEcCCCCchhH-----HHH---HHH--HHCCEEEEEEcCCCC
Confidence            44454433221 22222 23322222 3332  6799999999976421     010   121  123567777766543


Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCCEE-EEecCCccc
Q 023298          161 TDVTKFISGCMASLSAMVQLELPHV-NILSKMDLV  194 (284)
Q Consensus       161 ~~~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~Dll  194 (284)
                      .. .. +.   .++..+.+.+.+.+ +|+|++|.-
T Consensus       250 ~~-~~-~~---~~~~~l~~~~~~~~GvVlN~~~~~  279 (299)
T 3cio_A          250 TA-KE-VS---LSMQRLEQAGVNIKGAILNGVIKR  279 (299)
T ss_dssp             CT-TH-HH---HHHHHHHHTTCCCCCEEEEECCCC
T ss_pred             hH-HH-HH---HHHHHHHhCCCCeEEEEEeCCccC
Confidence            21 11 11   12233334555544 789999853

>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=99.31  E-value=2.6e-11  Score=102.77  Aligned_cols=118  Identities=14%  Similarity=0.149  Sum_probs=66.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+...   ..   .....+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        77 ~~l~i~Dt~G~~~~---~~---~~~~~~~~---~d~iilv~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~NK~D  144 (199)
T 2p5s_A           77 TVLQLWDTAGQERF---RS---IAKSYFRK---ADGVLLLYDVTC---EKSFLNIREWVDMIEDAAHETVPIMLVGNKAD  144 (199)
T ss_dssp             EEEEEEECTTCTTC---HH---HHHHHHHH---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHC---CCEEEEEECGG
T ss_pred             EEEEEEECCCCcch---hh---hHHHHHhh---CCEEEEEEECCC---hHHHHHHHHHHHHHHHhcCCCCCEEEEEECcc
Confidence            36789999997541   11   11223433   357899999863   3222  33333333333334789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... .......-..                ...   .++...++ ..++++||++|.|+++++..|.+.+.
T Consensus       145 l~~~~-~~~~~~~v~~----------------~~~---~~~~~~~~-~~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          145 IRDTA-ATEGQKCVPG----------------HFG---EKLAMTYG-ALFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             GHHHH-HHTTCCCCCH----------------HHH---HHHHHHHT-CEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             ccccc-ccccccccCH----------------HHH---HHHHHHcC-CeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            86422 1111100000                000   11112233 48999999999999999999887654

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=99.31  E-value=9.7e-12  Score=113.30  Aligned_cols=159  Identities=13%  Similarity=0.122  Sum_probs=89.4

Q ss_pred             CceEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC----CCCcccccccc----ccHHHHh-----hhc
Q 023298           18 ALVIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF----DYPVAMDIREL----ISLEDVM-----EEL   82 (284)
Q Consensus        18 ~~~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~----~~~~~~dir~~----i~~~~vm-----~~~   82 (284)
                      ++++++|+|+ | +||||++.|||..|++.|+||++||+||+....    ..+....+.++    ..+++++     .++
T Consensus        91 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~l  170 (286)
T 3la6_A           91 QNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSEILIGQGDITTAAKPTSIAKF  170 (286)
T ss_dssp             TCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEEECCTTTCCHHHHHTCCCTTCHHHHHHTSSCTTTTCEECSSTTE
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeccCCCCCHHHHhCCCCCCCHHHHccCCCCHHHheeccCCCCE
Confidence            4567888887 5 999999999999999999999999999996532    22211112111    1122222     233


Q ss_pred             CcccCchhhhh-hHhhh-hcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC
Q 023298           83 GLGPNGGLIYC-MEHLE-DNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI  160 (284)
Q Consensus        83 ~lgPng~l~~~-~e~~~-~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~  160 (284)
                      .+.|.|..... .+++. ..+.+.+. .+.+  ++++|||||||......          ........+.+++++.+...
T Consensus       171 ~vl~~g~~~~~~~ell~~~~l~~ll~-~l~~--~yD~VIIDtpp~~~~~d----------a~~l~~~aD~vllVv~~~~~  237 (286)
T 3la6_A          171 DLIPRGQVPPNPSELLMSERFAELVN-WASK--NYDLVLIDTPPILAVTD----------AAIVGRHVGTTLMVARYAVN  237 (286)
T ss_dssp             EEECCCSCCSCHHHHHTSHHHHHHHH-HHHH--HCSEEEEECCCTTTCTH----------HHHHTTTCSEEEEEEETTTS
T ss_pred             EEEeCCCCCCCHHHHhchHHHHHHHH-HHHh--CCCEEEEcCCCCcchHH----------HHHHHHHCCeEEEEEeCCCC
Confidence            44455443221 23222 23322222 3332  67999999999764211          11112234667888876533


Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCC-EEEEecCCccc
Q 023298          161 TDVTKFISGCMASLSAMVQLELP-HVNILSKMDLV  194 (284)
Q Consensus       161 ~~~~~~i~~~l~~l~~~~~~~~p-~IlVlNK~Dll  194 (284)
                      . ... +   ..++..+.+.+.+ .-+|+||++.-
T Consensus       238 ~-~~~-~---~~~~~~l~~~g~~~~GvVlN~v~~~  267 (286)
T 3la6_A          238 T-LKE-V---ETSLSRFEQNGIPVKGVILNSIFRR  267 (286)
T ss_dssp             B-HHH-H---HHHHHHHHHTTCCCCEEEEEEECCC
T ss_pred             c-HHH-H---HHHHHHHHhCCCCEEEEEEcCcccc
Confidence            2 111 1   1223344455554 45889999863

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=99.30  E-value=4.1e-11  Score=106.11  Aligned_cols=39  Identities=18%  Similarity=0.117  Sum_probs=33.7

Q ss_pred             EEEEEC-CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           21 IKCVFS-PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        21 ~~~viG-~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+.|++ .| +||||++.+||.+|++.|++|++||+||+..
T Consensus         4 ~I~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~   44 (263)
T 1hyq_A            4 TITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMA   44 (263)
T ss_dssp             EEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSSS
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHhCCCcEEEEECCCCCC
Confidence            455554 56 9999999999999999999999999999754

>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=99.30  E-value=3.2e-11  Score=100.25  Aligned_cols=112  Identities=14%  Similarity=0.194  Sum_probs=67.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK~  191 (284)
                      .++.++||||+...       ..+....  ....+++++++|+..   +..+  +..++..+..... .+.|+++|+||+
T Consensus        70 ~~~~l~Dt~G~~~~-------~~~~~~~--~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~  137 (195)
T 3bc1_A           70 IHLQLWDTAGLERF-------RSLTTAF--FRDAMGFLLLFDLTN---EQSFLNVRNWISQLQMHAYSENPDIVLCGNKS  137 (195)
T ss_dssp             EEEEEEEECCSGGG-------HHHHHHT--TTTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHSSSSSCCEEEEEECT
T ss_pred             EEEEEEeCCCcHHH-------HHHHHHH--HcCCCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECc
Confidence            46899999997431       1121211  122468999999863   3332  2233332222222 578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...+ ....      +.                   +.++...++ ..++++||+++.|++++++.|.+.+.
T Consensus       138 Dl~~~~-~~~~------~~-------------------~~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~~~~  184 (195)
T 3bc1_A          138 DLEDQR-AVKE------EE-------------------ARELAEKYG-IPYFETSAANGTNISHAIEMLLDLIM  184 (195)
T ss_dssp             TCGGGC-CSCH------HH-------------------HHHHHHHHT-CCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccccc-ccCH------HH-------------------HHHHHHHcC-CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            986532 1100      00                   011112233 47999999999999999999887653

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.30  E-value=1.8e-11  Score=116.18  Aligned_cols=117  Identities=18%  Similarity=0.264  Sum_probs=74.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCC-EEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELP-HVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p-~IlVlNK~D  192 (284)
                      +.++.++||||+...      ...+...+..   .+++++++|+.....+...  .+   +..+...+.| .++|+||+|
T Consensus        74 ~~~~~iiDtpG~~~f------~~~~~~~~~~---aD~~ilVvda~~g~~~qt~--~~---l~~~~~~~ip~iivviNK~D  139 (405)
T 2c78_A           74 KRHYSHVDCPGHADY------IKNMITGAAQ---MDGAILVVSAADGPMPQTR--EH---ILLARQVGVPYIVVFMNKVD  139 (405)
T ss_dssp             SCEEEEEECCCSGGG------HHHHHHHHTT---CSSEEEEEETTTCCCHHHH--HH---HHHHHHTTCCCEEEEEECGG
T ss_pred             CeEEEEEECCChHHH------HHHHHHHHHH---CCEEEEEEECCCCCcHHHH--HH---HHHHHHcCCCEEEEEEECcc
Confidence            468999999997641      2333444433   4678999999754333221  11   1223346889 789999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCccc----------------
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESS----------------  252 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~----------------  252 (284)
                      +..++..++..                       ...+.+++..+++    ..++|+||++|.|                
T Consensus       140 l~~~~~~~~~~-----------------------~~~~~~~l~~~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~  196 (405)
T 2c78_A          140 MVDDPELLDLV-----------------------EMEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWV  196 (405)
T ss_dssp             GCCCHHHHHHH-----------------------HHHHHHHHHHTTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHH
T ss_pred             ccCcHHHHHHH-----------------------HHHHHHHHHHhcccccCCCEEEccHHHhhhhhccccccccCCCccc
Confidence            97533111111                       1122334455554    6799999999988                


Q ss_pred             --HHHHHHHHHHhcCCC
Q 023298          253 --IRYVLSQIDNCIQWG  267 (284)
Q Consensus       253 --l~~Ll~~I~~~l~~g  267 (284)
                        +..|++.|.+.+|..
T Consensus       197 ~~i~~Ll~~l~~~lp~p  213 (405)
T 2c78_A          197 DKIWELLDAIDEYIPTP  213 (405)
T ss_dssp             HHHHHHHHHHHHHSCCC
T ss_pred             ccHHHHHHHHHhhcCCC
Confidence              889999999988753

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.30  E-value=1.3e-11  Score=105.09  Aligned_cols=112  Identities=12%  Similarity=0.138  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+......   .   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        74 ~~l~l~Dt~G~~~~~~~---~---~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  141 (200)
T 2o52_A           74 VKLQIWDTAGQERFRSV---T---RSYYRG---AAGALLVYDITS---RETYNSLAAWLTDARTLASPNIVVILCGNKKD  141 (200)
T ss_dssp             EEEEEECCTTHHHHSCC---C---HHHHTT---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHTCTTCEEEEEEECGG
T ss_pred             eEEEEEcCCCcHhHHHH---H---HHHhcc---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCC
Confidence            46899999996542110   0   112322   467899999863   3332  33343333333335789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... .+.. .     .                   ..++....+ ..++++||++|.|+++++..|.+.+.
T Consensus       142 l~~~~-~v~~-~-----~-------------------~~~~~~~~~-~~~~~~SA~~g~gi~~l~~~l~~~i~  187 (200)
T 2o52_A          142 LDPER-EVTF-L-----E-------------------ASRFAQENE-LMFLETSALTGENVEEAFLKCARTIL  187 (200)
T ss_dssp             GGGGC-CSCH-H-----H-------------------HHHHHHHTT-CEEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             ccccc-ccCH-H-----H-------------------HHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            86432 1110 0     0                   011112233 58999999999999999998877653

>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=99.30  E-value=2.4e-11  Score=103.28  Aligned_cols=112  Identities=15%  Similarity=0.167  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+......   .   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        69 ~~~~l~Dt~G~~~~~~~---~---~~~~~~---~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~D  136 (213)
T 3cph_A           69 VKLQLWDTAGQERFRTI---T---TAYYRG---AMGIILVYDVTD---ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD  136 (213)
T ss_dssp             EEEEEECCTTGGGGTCC---C---HHHHTT---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHTTTCSEEEEEEECTT
T ss_pred             EEEEEEeCCCcHHHHHH---H---HHHhcc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCC
Confidence            46899999997542211   1   112322   468899999863   3222  23333333333334789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +.... ...+..                          .++...++ ..++++||++|.|+++++..|.+.+.+
T Consensus       137 l~~~~-~~~~~~--------------------------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~~  182 (213)
T 3cph_A          137 METRV-VTADQG--------------------------EALAKELG-IPFIESSAKNDDNVNEIFFTLAKLIQE  182 (213)
T ss_dssp             CSSCC-SCHHHH--------------------------HHHHHHHT-CCEEECBTTTTBSSHHHHHHHHHHHHH
T ss_pred             Ccccc-cCHHHH--------------------------HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            84322 100000                          11112233 479999999999999999998877654

>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=99.30  E-value=2.3e-11  Score=102.22  Aligned_cols=111  Identities=13%  Similarity=0.146  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.....   ..   ...+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        70 ~~~~i~Dt~G~~~~~~---~~---~~~~~~---~d~ii~v~d~~~---~~s~~~~~~~l~~i~~~~~~~~piilv~nK~D  137 (191)
T 2a5j_A           70 IKLQIWDTAGQESFRS---IT---RSYYRG---AAGALLVYDITR---RETFNHLTSWLEDARQHSSSNMVIMLIGNKSD  137 (191)
T ss_dssp             EEEEEECCTTGGGTSC---CC---HHHHTT---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEECCCchhhhh---hH---HHHhcc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcc
Confidence            3679999999754221   11   112322   467899999863   3332  33343333332234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +...+ .+...      .                   ..++...++ ..++++||+++.|++++++.|.+.+
T Consensus       138 l~~~~-~v~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i  182 (191)
T 2a5j_A          138 LESRR-DVKRE------E-------------------GEAFAREHG-LIFMETSAKTACNVEEAFINTAKEI  182 (191)
T ss_dssp             CGGGC-CSCHH------H-------------------HHHHHHHHT-CEEEEECTTTCTTHHHHHHHHHHHH
T ss_pred             cCCcc-ccCHH------H-------------------HHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            86532 21100      0                   011112233 4899999999999999999887654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.29  E-value=3.7e-12  Score=106.68  Aligned_cols=119  Identities=10%  Similarity=-0.011  Sum_probs=68.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+........         ......+++++++|+....+.... ..++..+.. ....+.|+++|+||+|
T Consensus        65 ~~~~~~~Dt~G~~~~~~~~~---------~~~~~~d~ii~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~nK~D  134 (189)
T 2x77_A           65 NISFEVWDLGGQTGVRPYWR---------CYFSDTDAVIYVVDSTDRDRMGVA-KHELYALLDEDELRKSLLLIFANKQD  134 (189)
T ss_dssp             TEEEEEEEECCSSSSCCCCS---------SSSTTCCEEEEEEETTCCTTHHHH-HHHHHHHHTCSTTTTCEEEEEEECTT
T ss_pred             CEEEEEEECCCCHhHHHHHH---------HHhhcCCEEEEEEeCCCHHHHHHH-HHHHHHHHhhhhcCCCeEEEEEECCC
Confidence            34789999999864221100         011234789999999755433322 122211111 0113789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +.... ...++.        +.+..              ...... ...++++||++++|++++++.|.+.+++
T Consensus       135 l~~~~-~~~~~~--------~~~~~--------------~~~~~~-~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  184 (189)
T 2x77_A          135 LPDAA-SEAEIA--------EQLGV--------------SSIMNR-TWTIVKSSSKTGDGLVEGMDWLVERLRE  184 (189)
T ss_dssp             STTCC-CHHHHH--------HHTTG--------------GGCCSS-CEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CcCCC-CHHHHH--------HHhCh--------------hhccCC-ceEEEEccCCCccCHHHHHHHHHHHHHh
Confidence            97542 111111        00000              000111 2479999999999999999999887643

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.29  E-value=6.5e-11  Score=97.42  Aligned_cols=114  Identities=14%  Similarity=0.180  Sum_probs=68.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+........         ......+++++++|+.....+..+     ..+......+.|+++|+||+|+.
T Consensus        55 ~~~~l~Dt~G~~~~~~~~~---------~~~~~~d~~i~v~d~~~~~~~~~~-----~~l~~~~~~~~p~ilv~nK~Dl~  120 (178)
T 2lkc_A           55 KKITFLDTPGHEAFTTMRA---------RGAQVTDIVILVVAADDGVMPQTV-----EAINHAKAANVPIIVAINKMDKP  120 (178)
T ss_dssp             EEEEESCCCSSSSSSCSCC---------SSCCCCCEEEEEEETTCCCCHHHH-----HHHHHHGGGSCCEEEEEETTTSS
T ss_pred             ceEEEEECCCCHHHHHHHH---------HHHhhCCEEEEEEECCCCCcHHHH-----HHHHHHHhCCCCEEEEEECccCC
Confidence            4678999999765322110         112335689999998654334332     11223345689999999999997


Q ss_pred             cch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          195 TNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       195 ~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ... .++...++        +..               .+...++ ...++++||++|.|++++++.|.+.+.
T Consensus       121 ~~~~~~~~~~~~--------~~~---------------~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~  170 (178)
T 2lkc_A          121 EANPDRVMQELM--------EYN---------------LVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSE  170 (178)
T ss_dssp             CSCHHHHHHHHT--------TTT---------------CCBTTTTSSEEEEECCSSSSHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHH--------hcC---------------cChhHcCCcccEEEEecCCCCCHHHHHHHHHHhhh
Confidence            531 01111110        000               0001122 258999999999999999999887654

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.29  E-value=1.2e-11  Score=106.11  Aligned_cols=120  Identities=14%  Similarity=0.168  Sum_probs=72.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+......   ..   ..+..   .+++++++|+....+... +..++..+......+.|+++|+||+|+.
T Consensus        61 ~~~~l~Dt~G~~~~~~~---~~---~~~~~---~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~  130 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAVL---KD---VYYIG---ASGAILFFDVTSRITCQN-LARWVKEFQAVVGNEAPIVVCANKIDIK  130 (218)
T ss_dssp             EEEEEEEECSGGGTSCC---CH---HHHTT---CSEEEEEEETTCHHHHHT-HHHHHHHHHHHHCSSSCEEEEEECTTCC
T ss_pred             EEEEEEecCCchhhchH---HH---HHhhc---CCEEEEEEeCCCHHHHHH-HHHHHHHHHHhcCCCCCEEEEEECCCCc
Confidence            35899999997542211   11   11222   467899999864321111 3344444444445578999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~  271 (284)
                      ... ++....                         ..+..... ...++++||++|.|++++++.|.+.+.......
T Consensus       131 ~~~-~~~~~~-------------------------~~~~~~~~-~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~~~  180 (218)
T 4djt_A          131 NRQ-KISKKL-------------------------VMEVLKGK-NYEYFEISAKTAHNFGLPFLHLARIFTGRPDLI  180 (218)
T ss_dssp             -----CCHHH-------------------------HHHHTTTC-CCEEEEEBTTTTBTTTHHHHHHHHHHHCCTTCC
T ss_pred             ccc-ccCHHH-------------------------HHHHHHHc-CCcEEEEecCCCCCHHHHHHHHHHHHhcccccc
Confidence            543 211100                         01111222 367999999999999999999999887765544

>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=99.29  E-value=3.1e-11  Score=101.16  Aligned_cols=112  Identities=13%  Similarity=0.137  Sum_probs=67.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+......   .   ...+   ...+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        71 ~~~~l~Dt~G~~~~~~~---~---~~~~---~~~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~D  138 (189)
T 2gf9_A           71 IKLQIWDTAGQERYRTI---T---TAYY---RGAMGFLLMYDIAN---QESFAAVQDWATQIKTYSWDNAQVILVGNKCD  138 (189)
T ss_dssp             EEEEEEECCSCCSSCCS---G---GGGG---TTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEeCCCcHHHhhh---H---HHhc---cCCCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcc
Confidence            46899999997542111   0   0112   22468899999863   3332  33333332222224789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ ....-                         .+.++.+.++ ..++++||++|.|++++++.|.+.+.
T Consensus       139 l~~~~-~~~~~-------------------------~~~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~l~~~i~  184 (189)
T 2gf9_A          139 LEDER-VVPAE-------------------------DGRRLADDLG-FEFFEASAKENINVKQVFERLVDVIC  184 (189)
T ss_dssp             CGGGC-CSCHH-------------------------HHHHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             ccccc-CCCHH-------------------------HHHHHHHHcC-CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            86532 11100                         0011112333 48999999999999999999987664

>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=99.29  E-value=2.2e-11  Score=103.47  Aligned_cols=113  Identities=12%  Similarity=0.128  Sum_probs=68.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+........      ..+   ...+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        57 ~~~~l~Dt~G~~~~~~~~~------~~~---~~~d~vilv~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~D  124 (206)
T 2bcg_Y           57 VKLQIWDTAGQERFRTITS------SYY---RGSHGIIIVYDVTD---QESFNGVKMWLQEIDRYATSTVLKLLVGNKCD  124 (206)
T ss_dssp             EEEEEECCTTTTTTTCCCG------GGG---TTCSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEeCCChHHHHHHHH------Hhc---cCCCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCC
Confidence            3689999999764221100      112   22468999999863   3332  33343333333334689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +...+ .+..-      .                   ..++...++ ..++++||++|.|+++++..|.+.+..
T Consensus       125 l~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~l~~~i~~  171 (206)
T 2bcg_Y          125 LKDKR-VVEYD------V-------------------AKEFADANK-MPFLETSALDSTNVEDAFLTMARQIKE  171 (206)
T ss_dssp             CTTTC-CSCHH------H-------------------HHHHHHHTT-CCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             Ccccc-ccCHH------H-------------------HHHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            96533 11100      0                   011112333 579999999999999999988876543

>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=99.29  E-value=4.1e-11  Score=101.15  Aligned_cols=111  Identities=12%  Similarity=0.193  Sum_probs=67.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      .++.++||||+.+..   .    +.. .+..   .+++++++|+..   +..+  +..++..+.... ..+.|+++|+||
T Consensus        62 ~~~~l~Dt~G~~~~~---~----~~~~~~~~---~~~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK  128 (206)
T 2bov_A           62 VQIDILDTAGQEDYA---A----IRDNYFRS---GEGFLCVFSITE---MESFAATADFREQILRVKEDENVPFLLVGNK  128 (206)
T ss_dssp             EEEEEEECCCTTCCH---H----HHHHHHHH---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHTTCSCCCEEEEEEC
T ss_pred             EEEEEEcCCChhhhH---H----HHHHHHhh---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEec
Confidence            368899999975421   1    222 2333   357888999863   3332  223333222222 237899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+.... ++..      +.                   +.++...++ ..++++||++|.|++++++.|.+.+.
T Consensus       129 ~Dl~~~~-~~~~------~~-------------------~~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~l~~~i~  176 (206)
T 2bov_A          129 SDLEDKR-QVSV------EE-------------------AKNRAEQWN-VNYVETSAKTRANVDKVFFDLMREIR  176 (206)
T ss_dssp             TTCGGGC-CSCH------HH-------------------HHHHHHHHT-CEEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             cCccccc-cccH------HH-------------------HHHHHHHhC-CeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            9986533 1100      00                   011122334 47999999999999999998887654

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.28  E-value=3.2e-11  Score=102.74  Aligned_cols=112  Identities=14%  Similarity=0.220  Sum_probs=69.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++.++||||+...       ..+.. .+..   .+++++++|+..   +..+  +..++..+......+.|+++|.||+
T Consensus        78 ~~l~i~Dt~G~~~~-------~~~~~~~~~~---~d~iilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~NK~  144 (201)
T 2hup_A           78 VKLQIWDTAGQERF-------RTITQSYYRS---ANGAILAYDITK---RSSFLSVPHWIEDVRKYAGSNIVQLLIGNKS  144 (201)
T ss_dssp             EEEEEECCTTCGGG-------HHHHHHHHTT---CSEEEEEEETTB---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECT
T ss_pred             EEEEEEECCCcHhH-------HHHHHHHHhh---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECC
Confidence            47899999997541       11222 2322   467899999863   3332  2333333322223568999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...+ .+..      +                   .+.++....+...++++||++|+|++++++.|.+.+.
T Consensus       145 Dl~~~~-~v~~------~-------------------~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  192 (201)
T 2hup_A          145 DLSELR-EVSL------A-------------------EAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELI  192 (201)
T ss_dssp             TCGGGC-CSCH------H-------------------HHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             cccccc-ccCH------H-------------------HHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            986432 1100      0                   0112223455558999999999999999999887664

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.28  E-value=3.3e-11  Score=103.28  Aligned_cols=112  Identities=11%  Similarity=0.190  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+...       ..+...  .....+++++++|+..   +..+  +..++..+......+.|+++|.||+|
T Consensus        75 ~~l~l~Dt~G~~~~-------~~~~~~--~~~~~d~~i~v~D~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~NK~D  142 (201)
T 2ew1_A           75 VKLQIWDTAGQERF-------RSITQS--YYRSANALILTYDITC---EESFRCLPEWLREIEQYASNKVITVLVGNKID  142 (201)
T ss_dssp             EEEEEEEECCSGGG-------HHHHGG--GSTTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             EEEEEEECCCcHHH-------HHHHHH--HHhcCCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCC
Confidence            36899999997431       111111  1223468999999863   3333  33444433333345789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... ++....                  .       .++....+ ..++++||++|+|+++++..|.+.+.
T Consensus       143 l~~~~-~v~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~g~gv~~l~~~l~~~i~  188 (201)
T 2ew1_A          143 LAERR-EVSQQR------------------A-------EEFSEAQD-MYYLETSAKESDNVEKLFLDLACRLI  188 (201)
T ss_dssp             GGGGC-SSCHHH------------------H-------HHHHHHHT-CCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             Ccccc-ccCHHH------------------H-------HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            86432 211000                  0       01111222 57999999999999999998877654

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.28  E-value=2.5e-11  Score=102.99  Aligned_cols=115  Identities=17%  Similarity=0.135  Sum_probs=67.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK  190 (284)
                      ...+.++||||+.+......      ..+   ...+++++++|+..   +..+  +..++..+... ...+.|+++|+||
T Consensus        71 ~~~~~l~Dt~G~~~~~~~~~------~~~---~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK  138 (201)
T 3oes_A           71 EFHLHLVDTAGQDEYSILPY------SFI---IGVHGYVLVYSVTS---LHSFQVIESLYQKLHEGHGKTRVPVVLVGNK  138 (201)
T ss_dssp             CEEEEEEEECCCCTTCCCCG------GGT---TTCCEEEEEEETTC---HHHHHHHHHHHHHHHC-----CCCEEEEEEC
T ss_pred             EEEEEEEECCCccchHHHHH------HHH---hcCCEEEEEEeCCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence            34678999999765321100      012   22468899999863   3332  23333222211 1237899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +|+.... .+....                  .       .++...++ ..++++||++|.|++++++.|.+.+..-
T Consensus       139 ~Dl~~~~-~v~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  188 (201)
T 3oes_A          139 ADLSPER-EVQAVE------------------G-------KKLAESWG-ATFMESSARENQLTQGIFTKVIQEIARV  188 (201)
T ss_dssp             TTCGGGC-CSCHHH------------------H-------HHHHHHHT-CEEEECCTTCHHHHHHHHHHHHHHHHHC
T ss_pred             ccCcccc-ccCHHH------------------H-------HHHHHHhC-CeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            9986533 221100                  0       11112233 4899999999999999999998876543

>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=99.28  E-value=1.9e-11  Score=101.61  Aligned_cols=112  Identities=13%  Similarity=0.125  Sum_probs=68.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+....       .+...  .....+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        59 ~~~~l~Dt~G~~~~~-------~~~~~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piilv~nK~D  126 (186)
T 2bme_A           59 VKLQIWDTAGQERFR-------SVTRS--YYRGAAGALLVYDITS---RETYNALTNWLTDARMLASQNIVIILCGNKKD  126 (186)
T ss_dssp             EEEEEEEECCSGGGH-------HHHHT--TSTTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             EEEEEEeCCCcHHHH-------HHHHH--HHhcCCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcc
Confidence            367899999965411       11111  1223568999999864   3332  33444433333345789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... .... .     .                   ..++....+ ..++++||++|+|++++++.|.+.+.
T Consensus       127 l~~~~-~~~~-~-----~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~  172 (186)
T 2bme_A          127 LDADR-EVTF-L-----E-------------------ASRFAQENE-LMFLETSALTGENVEEAFVQCARKIL  172 (186)
T ss_dssp             GGGGC-CSCH-H-----H-------------------HHHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccccc-ccCH-H-----H-------------------HHHHHHHcC-CEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            86432 1110 0     0                   011112233 58999999999999999998877654

>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=99.28  E-value=1.3e-11  Score=103.60  Aligned_cols=111  Identities=11%  Similarity=0.143  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+...   .....   ..+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        74 ~~~~i~Dt~G~~~~---~~~~~---~~~~~---~d~vi~v~D~~~---~~s~~~~~~~l~~i~~~~~~~~piilv~nK~D  141 (193)
T 2oil_A           74 VKAQIWDTAGLERY---RAITS---AYYRG---AVGALLVFDLTK---HQTYAVVERWLKELYDHAEATIVVMLVGNKSD  141 (193)
T ss_dssp             EEEEEEEESCCCTT---CTTHH---HHHTT---CCEEEEEEETTC---HHHHHTHHHHHHHHHTTSCTTCEEEEEEECGG
T ss_pred             EEEEEEeCCCchhh---hhhhH---HHhcc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCeEEEEEECCC
Confidence            46799999997542   12111   12322   467899999863   3332  23333322222234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +...+ ....-      .                   ..++....+ ..++++||++|.|++++++.|.+.+
T Consensus       142 l~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i  186 (193)
T 2oil_A          142 LSQAR-EVPTE------E-------------------ARMFAENNG-LLFLETSALDSTNVELAFETVLKEI  186 (193)
T ss_dssp             GGGGC-CSCHH------H-------------------HHHHHHHTT-CEEEEECTTTCTTHHHHHHHHHHHH
T ss_pred             ccccc-ccCHH------H-------------------HHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            96532 11000      0                   011112333 5899999999999999999887654

>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=99.28  E-value=2e-11  Score=101.95  Aligned_cols=117  Identities=9%  Similarity=0.146  Sum_probs=70.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      .++.++||||+....   ...   ...+..   .+++++++|+..   +..+  +..++..+.... ..+.|+++|+||+
T Consensus        64 ~~~~i~Dt~G~~~~~---~~~---~~~~~~---~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~  131 (195)
T 1x3s_A           64 AKLAIWDTAGQERFR---TLT---PSYYRG---AQGVILVYDVTR---RDTFVKLDNWLNELETYCTRNDIVNMLVGNKI  131 (195)
T ss_dssp             EEEEEEEECSSGGGC---CSH---HHHHTT---CCEEEEEEETTC---HHHHHTHHHHHHHHTTCCSCSCCEEEEEEECT
T ss_pred             EEEEEEeCCCchhhh---hhh---HHHhcc---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCcCCCcEEEEEECC
Confidence            468999999976422   111   122323   468999999863   3332  223332222111 1468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~  271 (284)
                      |+....  +...      .                   ..++...++ ..++++||+++.|++++++.|.+.+...+...
T Consensus       132 Dl~~~~--~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~~  183 (195)
T 1x3s_A          132 DKENRE--VDRN------E-------------------GLKFARKHS-MLFIEASAKTCDGVQCAFEELVEKIIQTPGLW  183 (195)
T ss_dssp             TSSSCC--SCHH------H-------------------HHHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHHHTSGGGT
T ss_pred             cCcccc--cCHH------H-------------------HHHHHHHcC-CEEEEecCCCCCCHHHHHHHHHHHHHhhhhhh
Confidence            984322  1000      0                   011112333 57999999999999999999999887665443

>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=99.27  E-value=4.6e-11  Score=109.46  Aligned_cols=42  Identities=10%  Similarity=0.017  Sum_probs=39.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +.+++++|++ |||||++.+||.+++..|++|+++|.|++...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~  140 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPA  140 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHH
Confidence            6778899999 99999999999999999999999999998763

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=99.27  E-value=2.4e-11  Score=105.14  Aligned_cols=127  Identities=11%  Similarity=0.028  Sum_probs=75.0

Q ss_pred             EEEE-CCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           22 KCVF-SPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        22 ~~vi-G~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      +.|+ +.| +||||++.+||.+|++.| +|++||+|||++...|-.   ..+            + |. .++.+     .
T Consensus         3 I~v~s~KGGvGKTT~a~~LA~~la~~g-~VlliD~D~q~~~~~~~~---~~~------------l-~~-~vi~~-----~   59 (209)
T 3cwq_A            3 ITVASFKGGVGKTTTAVHLSAYLALQG-ETLLIDGDPNRSATGWGK---RGS------------L-PF-KVVDE-----R   59 (209)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHTTS-CEEEEEECTTCHHHHHHH---HSC------------C-SS-EEEEG-----G
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHhcC-CEEEEECCCCCCHHHHhc---CCC------------C-Cc-ceeCH-----H
Confidence            4444 557 999999999999999999 999999999986543310   000            1 11 11110     0


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCC-cccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQ-IELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV  178 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~-~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~  178 (284)
                      .    +. .+.+  +++||+|||||. ....        ....+..+   +.++..+.+.    +.. +......+..+.
T Consensus        60 ~----l~-~l~~--~yD~viiD~p~~~~~~~--------~~~~l~~a---D~viiv~~~~----~~~-~~~~~~~~~~l~  116 (209)
T 3cwq_A           60 Q----AA-KYAP--KYQNIVIDTQARPEDED--------LEALADGC---DLLVIPSTPD----ALA-LDALMLTIETLQ  116 (209)
T ss_dssp             G----HH-HHGG--GCSEEEEEEECCCSSSH--------HHHHHHTS---SEEEEEECSS----HHH-HHHHHHHHHHHH
T ss_pred             H----HH-Hhhh--cCCEEEEeCCCCcCcHH--------HHHHHHHC---CEEEEEecCC----chh-HHHHHHHHHHHH
Confidence            1    22 2332  679999999997 4311        12234343   4566666652    222 222222233333


Q ss_pred             hc-CCCEEEEecCCccc
Q 023298          179 QL-ELPHVNILSKMDLV  194 (284)
Q Consensus       179 ~~-~~p~IlVlNK~Dll  194 (284)
                      +. +.+..+|+|+++..
T Consensus       117 ~~~~~~~~vv~N~~~~~  133 (209)
T 3cwq_A          117 KLGNNRFRILLTIIPPY  133 (209)
T ss_dssp             HTCSSSEEEEECSBCCT
T ss_pred             hccCCCEEEEEEecCCc
Confidence            32 67889999999864

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.27  E-value=1e-10  Score=110.96  Aligned_cols=115  Identities=12%  Similarity=0.145  Sum_probs=73.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcC-CCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLE-LPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~D  192 (284)
                      ..+.++||||+..      ....+...+..   .+++++++|+.... .+...  ..+.   .+...+ +|.|+|+||+|
T Consensus        75 ~~~~iiDtPGh~~------~~~~~~~~~~~---~D~~ilVvda~~~~~~~qt~--~~~~---~~~~~~~~~iivviNK~D  140 (403)
T 3sjy_A           75 RRISFIDAPGHEV------LMATMLSGAAL---MDGAILVVAANEPFPQPQTR--EHFV---ALGIIGVKNLIIVQNKVD  140 (403)
T ss_dssp             EEEEEEECCCCGG------GHHHHHHHHTT---CSEEEEEEETTSCSSCHHHH--HHHH---HHHHHTCCCEEEEEECGG
T ss_pred             ceEEEEECCCcHH------HHHHHHHHHhh---CCEEEEEEECCCCCCcHHHH--HHHH---HHHHcCCCCEEEEEECcc
Confidence            5789999999533      23334444433   46899999998643 33322  1111   112233 58999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--CceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--MVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +...+ +.....+                       .+.+.+..+.  ...++|+||++|+|++.|++.|.+.++.-
T Consensus       141 l~~~~-~~~~~~~-----------------------~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~~  193 (403)
T 3sjy_A          141 VVSKE-EALSQYR-----------------------QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKTP  193 (403)
T ss_dssp             GSCHH-HHHHHHH-----------------------HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             ccchH-HHHHHHH-----------------------HHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhCCCC
Confidence            97644 3322211                       1223333333  35799999999999999999999987653

>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=99.27  E-value=4.8e-11  Score=99.02  Aligned_cols=110  Identities=12%  Similarity=0.195  Sum_probs=66.9

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK~D  192 (284)
                      .+.++||||+.+..   ....   ..+..   .+++++++|+..   +..+  +..++..+... ...+.|+++|.||+|
T Consensus        67 ~l~i~Dt~G~~~~~---~~~~---~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~D  134 (183)
T 3kkq_A           67 ILDVLDTAGQEEFS---AMRE---QYMRT---GDGFLIVYSVTD---KASFEHVDRFHQLILRVKDRESFPMILVANKVD  134 (183)
T ss_dssp             EEEEEECCSCGGGC---SSHH---HHHHH---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTT
T ss_pred             EEEEEECCCchhhH---HHHH---HHHhc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCC
Confidence            35679999976522   2122   12333   357889999863   3333  33333333222 235789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEecc-CcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLR-KESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~-~~~~l~~Ll~~I~~~l  264 (284)
                      +...+ ....-                         .+.++...++ ..++++||+ ++.|++++++.|.+.+
T Consensus       135 l~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~~~Sa~~~~~~v~~l~~~l~~~i  180 (183)
T 3kkq_A          135 LMHLR-KVTRD-------------------------QGKEMATKYN-IPYIETSAKDPPLNVDKTFHDLVRVI  180 (183)
T ss_dssp             CSTTC-CSCHH-------------------------HHHHHHHHHT-CCEEEEBCSSSCBSHHHHHHHHHHHH
T ss_pred             chhcc-CcCHH-------------------------HHHHHHHHhC-CeEEEeccCCCCCCHHHHHHHHHHHH
Confidence            86532 11100                         0011223334 679999999 9999999999998765

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.27  E-value=5.6e-11  Score=112.67  Aligned_cols=116  Identities=16%  Similarity=0.234  Sum_probs=72.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCC-EEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELP-HVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p-~IlVlNK~D  192 (284)
                      +.++.|+||||+.. |     ...+   .......+++++++|+.....+...-  .   +..+...+.| .|+|+||+|
T Consensus        65 ~~~~~iiDtpG~~~-f-----~~~~---~~~~~~aD~~ilVvda~~g~~~qt~e--~---l~~~~~~~vp~iivviNK~D  130 (397)
T 1d2e_A           65 ARHYAHTDCPGHAD-Y-----VKNM---ITGTAPLDGCILVVAANDGPMPQTRE--H---LLLARQIGVEHVVVYVNKAD  130 (397)
T ss_dssp             SCEEEEEECSSHHH-H-----HHHH---HHTSSCCSEEEEEEETTTCSCHHHHH--H---HHHHHHTTCCCEEEEEECGG
T ss_pred             CeEEEEEECCChHH-H-----HHHH---HhhHhhCCEEEEEEECCCCCCHHHHH--H---HHHHHHcCCCeEEEEEECcc
Confidence            46899999999643 1     1112   22233457899999997653333221  1   1122346889 579999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCccc----------HHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESS----------IRYVLS  258 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~----------l~~Ll~  258 (284)
                      +..++ +..+.                      ....+.+++..+++    ..++|+||++|.|          +..|++
T Consensus       131 l~~~~-~~~~~----------------------~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~  187 (397)
T 1d2e_A          131 AVQDS-EMVEL----------------------VELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLD  187 (397)
T ss_dssp             GCSCH-HHHHH----------------------HHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHH
T ss_pred             cCCCH-HHHHH----------------------HHHHHHHHHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHH
Confidence            97533 11111                      11122334455553    5899999999874          899999


Q ss_pred             HHHHhcCC
Q 023298          259 QIDNCIQW  266 (284)
Q Consensus       259 ~I~~~l~~  266 (284)
                      .|.+.+|.
T Consensus       188 ~l~~~~p~  195 (397)
T 1d2e_A          188 AVDTYIPV  195 (397)
T ss_dssp             HHHHHSCC
T ss_pred             HHHHhCCC
Confidence            99998874

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.27  E-value=2.9e-11  Score=103.30  Aligned_cols=122  Identities=11%  Similarity=0.094  Sum_probs=69.6

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHH---HHHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFIS---GCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~---~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .+.++||||+......       ...  .....+++++++|+..   +..+-.   .++..+... ..+.|+++|+||+|
T Consensus        79 ~l~i~Dt~G~~~~~~~-------~~~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~D  145 (204)
T 4gzl_A           79 NLGLWDTAGLEDYDRL-------RPL--SYPQTDVFLICFSLVS---PASFENVRAKWYPEVRHH-CPNTPIILVGTKLD  145 (204)
T ss_dssp             EEEEEEECCSGGGTTT-------GGG--GCTTCSEEEEEEETTC---HHHHHHHHHTHHHHHHHH-CSSCCEEEEEECHH
T ss_pred             EEEEEECCCchhhHHH-------HHH--HhccCCEEEEEEECCC---HHHHHHHHHHHHHHHHHh-CCCCCEEEEEechh
Confidence            5669999998542211       010  1223478999999863   333321   222221111 13799999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +.... ...+...        +...... .    .....++...++...++++||++|+|++++++.|.+.+
T Consensus       146 l~~~~-~~~~~~~--------~~~~~~v-~----~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          146 LRDDK-DTIEKLK--------EKKLTPI-T----YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             HHTCH-HHHHHHH--------HTTCCCC-C----HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             hccch-hhhhhhh--------ccccccc-c----HHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            97654 2221110        0000000 0    01112333556777899999999999999999987753

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.27  E-value=2.1e-11  Score=100.34  Aligned_cols=111  Identities=10%  Similarity=0.109  Sum_probs=66.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+........      ..+   ...+++++++|+..   +..+  +..++..+... ..+.|+++|+||+|
T Consensus        58 ~~~~i~Dt~G~~~~~~~~~------~~~---~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~-~~~~p~ilv~nK~D  124 (181)
T 3tw8_B           58 VKLQIWDTAGQERFRTITS------TYY---RGTHGVIVVYDVTS---AESFVNVKRWLHEINQN-CDDVCRILVGNKND  124 (181)
T ss_dssp             EEEEEEEETTGGGCSSCCG------GGG---TTCSEEEEEEETTC---HHHHHHHHHHHHHHHHH-CTTSEEEEEEECTT
T ss_pred             EEEEEEcCCCchhhhhhHH------HHh---ccCCEEEEEEECCC---HHHHHHHHHHHHHHHHh-CCCCCEEEEEECCC
Confidence            4689999999654321111      112   22468999999864   3333  22333322221 13689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ ......                  .       .+.....+ ..++++||++|.|++++++.|.+.+.
T Consensus       125 l~~~~-~~~~~~------------------~-------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~  170 (181)
T 3tw8_B          125 DPERK-VVETED------------------A-------YKFAGQMG-IQLFETSAKENVNVEEMFNCITELVL  170 (181)
T ss_dssp             CGGGC-CSCHHH------------------H-------HHHHHHHT-CCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             Cchhc-ccCHHH------------------H-------HHHHHHcC-CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            86533 111000                  0       11112223 48999999999999999999887653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.26  E-value=1.8e-10  Score=94.69  Aligned_cols=114  Identities=13%  Similarity=0.086  Sum_probs=68.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh--cCCC-EEEEec
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ--LELP-HVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~--~~~p-~IlVlN  189 (284)
                      .++.++||||+....   ....   ..+..   .+++++++|+..   +..+  +..++..+.....  .+.| +++|.|
T Consensus        56 ~~~~~~Dt~G~~~~~---~~~~---~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~n  123 (178)
T 2hxs_A           56 VTLQIWDIGGQTIGG---KMLD---KYIYG---AQGVLLVYDITN---YQSFENLEDWYTVVKKVSEESETQPLVALVGN  123 (178)
T ss_dssp             EEEEEEECTTCCTTC---TTHH---HHHTT---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEE
T ss_pred             EEEEEEECCCCcccc---chhh---HHHhh---CCEEEEEEECCC---HHHHHHHHHHHHHHHHHhcccCCCCeEEEEEE
Confidence            468999999976521   1111   12333   467999999863   3332  3333333322221  2567 789999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+|+...+ .+..-      .                   ..++...++ ..++++||++|.|++++++.|.+.+..-
T Consensus       124 K~Dl~~~~-~~~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          124 KIDLEHMR-TIKPE------K-------------------HLRFCQENG-FSSHFVSAKTGDSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             CGGGGGGC-SSCHH------H-------------------HHHHHHHHT-CEEEEECTTTCTTHHHHHHHHHHHHTTC
T ss_pred             cccccccc-ccCHH------H-------------------HHHHHHHcC-CcEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            99986432 11000      0                   011112233 4799999999999999999998877543

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.26  E-value=5.4e-11  Score=101.08  Aligned_cols=122  Identities=11%  Similarity=0.128  Sum_probs=68.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH---HHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI---SGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i---~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+........       .  .....+++++++|+..   +..+-   ..++..+... ..+.|+++|+||+
T Consensus        73 ~~l~i~Dt~G~~~~~~~~~-------~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~  139 (201)
T 2gco_A           73 VELALWDTAGQEDYDRLRP-------L--SYPDTDVILMCFSIDS---PDSLENIPEKWTPEVKHF-CPNVPIILVGNKK  139 (201)
T ss_dssp             EEEEEECCCCSGGGTTTGG-------G--GCTTCSEEEEEEETTC---HHHHHHHHHTHHHHHHHH-STTCCEEEEEECG
T ss_pred             EEEEEEECCCchhHHHHHH-------H--hcCCCCEEEEEEECCC---HHHHHHHHHHHHHHHHHh-CCCCCEEEEEecH
Confidence            3678999999754221111       0  1222468899999863   33321   1222221111 1278999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhh-hcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELN-QHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~-~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ...+.+.        ++. ....      .....++...++...++++||++|.|++++++.|.+.+
T Consensus       140 Dl~~~~-~~~~~~~--------~~~~~~v~------~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~  198 (201)
T 2gco_A          140 DLRQDE-HTRRELA--------KMKQEPVR------SEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAG  198 (201)
T ss_dssp             GGTTCH-HHHHHHH--------TTTCCCCC------HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HhhcCc-cchhhhc--------ccccCcCC------HHHHHHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHH
Confidence            997643 2211110        000 0000      00112233445666899999999999999999987653

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.26  E-value=8.5e-12  Score=110.66  Aligned_cols=133  Identities=11%  Similarity=0.127  Sum_probs=75.1

Q ss_pred             CCCEEEEeCCCCccccccc-chHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEec-C
Q 023298          114 DDDYLVFDCPGQIELFTHV-PVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILS-K  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~-~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlN-K  190 (284)
                      +.++.|+||||+....... ...+.+.+.+. .....+++++++|+.........+...+.... -.....|.++|+| |
T Consensus        70 ~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~-~~~~~~~~i~vv~nK  148 (260)
T 2xtp_A           70 NREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIF-GEDAMGHTIVLFTHK  148 (260)
T ss_dssp             TEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHH-CGGGGGGEEEEEECG
T ss_pred             CCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHh-CchhhccEEEEEEcc
Confidence            4578999999987643211 11223344332 23345789999999764333333333322100 0112578899998 9


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-----CceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-----MVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-----~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+...  .+..++...           ..       ..+.+++...+     +.. +|+||+++.|+++|+..|.+.++
T Consensus       149 ~Dl~~~--~~~~~i~~~-----------~~-------~~~~~~~~~~~~~~~~~~~-~~~SA~~~~gv~~l~~~i~~~~~  207 (260)
T 2xtp_A          149 EDLNGG--SLMDYMHDS-----------DN-------KALSKLVAACGGRICAFNN-RAEGSNQDDQVKELMDCIEDLLM  207 (260)
T ss_dssp             GGGTTC--CHHHHHHHC-----------CC-------HHHHHHHHHTTTCEEECCT-TCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCc--cHHHHHHhc-----------ch-------HHHHHHHHHhCCeEEEecC-cccccccHHHHHHHHHHHHHHHH
Confidence            999742  233332100           00       00111222222     222 89999999999999999999887


Q ss_pred             CCC
Q 023298          266 WGE  268 (284)
Q Consensus       266 ~g~  268 (284)
                      .++
T Consensus       208 ~~~  210 (260)
T 2xtp_A          208 EKN  210 (260)
T ss_dssp             HTT
T ss_pred             hCC
Confidence            755

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.26  E-value=3.9e-11  Score=100.61  Aligned_cols=114  Identities=17%  Similarity=0.149  Sum_probs=66.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh---cCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ---LELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~---~~~p~IlVl  188 (284)
                      +.++.++||||+.+....   .   ...+..   .+++++++|+..   +..+  +..++..+.....   .+.|+++|+
T Consensus        66 ~~~~~l~Dt~G~~~~~~~---~---~~~~~~---~d~ii~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~piilv~  133 (190)
T 2h57_A           66 SLSFTVFDMSGQGRYRNL---W---EHYYKE---GQAIIFVIDSSD---RLRMVVAKEELDTLLNHPDIKHRRIPILFFA  133 (190)
T ss_dssp             SCEEEEEEECCSTTTGGG---G---GGGGGG---CSEEEEEEETTC---HHHHHHHHHHHHHHHHSTTTTTSCCCEEEEE
T ss_pred             CEEEEEEECCCCHHHHHH---H---HHHHhc---CCEEEEEEECCC---HHHHHHHHHHHHHHHhChhhccCCCeEEEEE
Confidence            357899999997652211   0   011222   468999999863   3322  2222222111111   478999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ||+|+.... ...+..        +.+.                 +..+  ....++++||++|+|++++++.|.+.+.
T Consensus       134 nK~Dl~~~~-~~~~~~--------~~~~-----------------~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  186 (190)
T 2h57_A          134 NKMDLRDAV-TSVKVS--------QLLC-----------------LENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQ  186 (190)
T ss_dssp             ECTTSTTCC-CHHHHH--------HHHT-----------------GGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             eCcCcccCC-CHHHHH--------HHhC-----------------hhhccCCceEEEEccCCCCcCHHHHHHHHHHHHH
Confidence            999996532 111111        0000                 0111  1357999999999999999999988764

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=99.25  E-value=1e-09  Score=102.44  Aligned_cols=43  Identities=14%  Similarity=-0.035  Sum_probs=38.3

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ..++++++-|.| +||||++.+||.++++.|+||++||+|||.+
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~~~~   67 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVSTDPAHS   67 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEECCTTCH
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEeCCCCCC
Confidence            345667777888 9999999999999999999999999999875

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.25  E-value=2.2e-11  Score=117.41  Aligned_cols=120  Identities=11%  Similarity=0.151  Sum_probs=73.4

Q ss_pred             CCCEEEEeCCCCccccccc--chHHHH---HHHHHhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHHHhcCCCEEEE
Q 023298          114 DDDYLVFDCPGQIELFTHV--PVLRNF---VDHLKSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAMVQLELPHVNI  187 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~--~~~~~l---~~~l~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~~~~~~p~IlV  187 (284)
                      +.++.++||||+.......  ......   ...+..   .+++++++|+..... .+..+..      .+...++|.|+|
T Consensus       242 ~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~---ad~~llviD~~~~~~~~~~~~~~------~~~~~~~~~ilv  312 (456)
T 4dcu_A          242 QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDR---SEVVAVVLDGEEGIIEQDKRIAG------YAHEAGKAVVIV  312 (456)
T ss_dssp             TEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHH---CSEEEEEEETTTCCCHHHHHHHH------HHHHTTCEEEEE
T ss_pred             CceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhh---CCEEEEEEeCCCCcCHHHHHHHH------HHHHcCCCEEEE
Confidence            3468999999964321000  001112   223433   368899999975433 2332322      233578999999


Q ss_pred             ecCCccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          188 LSKMDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       188 lNK~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +||+|+..++. ..+++                       ...+.+.+...+...++++||++|.|+++|++.|.+.+.
T Consensus       313 ~NK~Dl~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~  368 (456)
T 4dcu_A          313 VNKWDAVDKDESTMKEF-----------------------EENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASE  368 (456)
T ss_dssp             EECGGGSCCCSSHHHHH-----------------------HHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             EEChhcCCCchHHHHHH-----------------------HHHHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            99999975331 11111                       112233334455688999999999999999999988764

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.25  E-value=3.2e-11  Score=116.01  Aligned_cols=110  Identities=13%  Similarity=0.191  Sum_probs=64.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-------HHHHHHHHHHHHHHHHhcCCC-EE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-------VTKFISGCMASLSAMVQLELP-HV  185 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-------~~~~i~~~l~~l~~~~~~~~p-~I  185 (284)
                      ++++.|+||||+..      ....+...+..   .+++++++|+.....       +...     ..+......+.| .|
T Consensus        94 ~~~~~iiDTPGh~~------f~~~~~~~~~~---aD~~ilVVDa~~g~~e~~~~~~~qt~-----e~l~~~~~~~v~~iI  159 (439)
T 3j2k_7           94 KKHFTILDAPGHKS------FVPNMIGGASQ---ADLAVLVISARKGEFETGFEKGGQTR-----EHAMLAKTAGVKHLI  159 (439)
T ss_pred             CeEEEEEECCChHH------HHHHHHhhHhh---CCEEEEEEECCCCccccccCCCchHH-----HHHHHHHHcCCCeEE
Confidence            56899999999643      23334444433   478999999975321       1111     111223356788 89


Q ss_pred             EEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC-----ceEEEEeccCcccHHHHH
Q 023298          186 NILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM-----VSFMPLDLRKESSIRYVL  257 (284)
Q Consensus       186 lVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~-----~~~ipiSa~~~~~l~~Ll  257 (284)
                      +|+||+|+...+ .-+..                   +......+.+++...++     ..|+|+||++|+|+.++.
T Consensus       160 vviNK~Dl~~~~-~~~~~-------------------~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~  216 (439)
T 3j2k_7          160 VLINKMDDPTVN-WSNER-------------------YEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQS  216 (439)
T ss_pred             EEeecCCCcccc-hHHHH-------------------HHHHHHHHHHHHHHhcccccCCeeEEEeeccCCccccccc
Confidence            999999986422 00000                   11111222334444443     579999999999999843

>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=99.25  E-value=9.6e-11  Score=98.90  Aligned_cols=120  Identities=13%  Similarity=0.077  Sum_probs=66.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+.....       +...  .....+++++++|+....+-.. +..++..+... ...+.|+++|.||+|+
T Consensus        67 ~~~~i~Dt~G~~~~~~-------~~~~--~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~NK~Dl  136 (190)
T 1m2o_B           67 IKFTTFDLGGHIQARR-------LWKD--YFPEVNGIVFLVDAADPERFDE-ARVELDALFNIAELKDVPFVILGNKIDA  136 (190)
T ss_dssp             EEEEEEECCCSGGGTT-------SGGG--GCTTCCEEEEEEETTCGGGHHH-HHHHHHHHHTCGGGTTCCEEEEEECTTS
T ss_pred             EEEEEEECCCCHHHHH-------HHHH--HHhcCCEEEEEEECCChHHHHH-HHHHHHHHHcchhhcCCCEEEEEECCCC
Confidence            4678999999865211       1011  1122468999999874432222 22222221111 1257899999999998


Q ss_pred             ccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          194 VTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      ....  .++.+++.           .......        ..+.......++++||++|+|++++++.|.+.
T Consensus       137 ~~~~~~~~~~~~~~-----------~~~~~~~--------~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          137 PNAVSEAELRSALG-----------LLNTTGS--------QRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTCCCHHHHHHHTT-----------CSSCCC-----------CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             cCCCCHHHHHHHhC-----------Ccccccc--------ccccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence            6421  01111111           0000000        00112234679999999999999999988764

>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=99.25  E-value=2.7e-11  Score=102.53  Aligned_cols=110  Identities=10%  Similarity=0.174  Sum_probs=66.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+...       ..+.. .+..   .+++++++|+..   +..+  +..++..+......+.|+++|+||+
T Consensus        57 ~~~~l~Dt~G~~~~-------~~~~~~~~~~---~d~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~  123 (203)
T 1zbd_A           57 IKLQIWDTAGLERY-------RTITTAYYRG---AMGFILMYDITN---EESFNAVQDWSTQIKTYSWDNAQVLLVGNKC  123 (203)
T ss_dssp             EEEEEEEECCSGGG-------HHHHHTTGGG---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCSSCEEEEEEECT
T ss_pred             EEEEEEECCCchhh-------cchHHHhhcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECc
Confidence            46899999997541       11211 1222   467999999863   3332  3334333333222478999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+...+ ....-                  ..       .++...++ ..++++||++|.|++++++.|.+.+
T Consensus       124 Dl~~~~-~~~~~------------------~~-------~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i  169 (203)
T 1zbd_A          124 DMEDER-VVSSE------------------RG-------RQLADHLG-FEFFEASAKDNINVKQTFERLVDVI  169 (203)
T ss_dssp             TCTTSC-CSCHH------------------HH-------HHHHHHHT-CEEEECBTTTTBSSHHHHHHHHHHH
T ss_pred             ccCccc-ccCHH------------------HH-------HHHHHHCC-CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            986533 11100                  00       11112333 4899999999999999888777654

>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=99.25  E-value=4.4e-11  Score=99.05  Aligned_cols=114  Identities=15%  Similarity=0.083  Sum_probs=66.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK~  191 (284)
                      .++.++||||+........      ..+   ...+++++++|...   +..+  +..++..+... ...+.|+++|.||+
T Consensus        54 ~~~~l~Dt~G~~~~~~~~~------~~~---~~~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~  121 (181)
T 3t5g_A           54 YHLQLVDTAGQDEYSIFPQ------TYS---IDINGYILVYSVTS---IKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKK  121 (181)
T ss_dssp             EEEEEEECCCCCTTCCCCG------GGT---TTCSEEEEEEETTC---HHHHHHHHHHHHHHHHHC----CCEEEEEECT
T ss_pred             EEEEEEeCCCchhhhHHHH------HHH---hcCCEEEEEEECCC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECc
Confidence            3678999999765321111      011   12467889999863   3332  33333322222 23478999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+.... .+..-                         ...++...++ ..++++||++|.|++++++.+.+.+..-
T Consensus       122 Dl~~~~-~~~~~-------------------------~~~~~~~~~~-~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  170 (181)
T 3t5g_A          122 DLHMER-VISYE-------------------------EGKALAESWN-AAFLESSAKENQTAVDVFRRIILEAEKM  170 (181)
T ss_dssp             TCTTTC-CSCHH-------------------------HHHHHHHHTT-CEEEECCTTSHHHHHHHHHHHHHHHHTC
T ss_pred             cchhcc-eecHH-------------------------HHHHHHHHhC-CcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            986432 11100                         0011223333 4799999999999999999998876543

>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=99.25  E-value=1.3e-10  Score=98.02  Aligned_cols=110  Identities=14%  Similarity=0.105  Sum_probs=67.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+..    ...   ....+..   .+++++++|+..   +..+  +..++..+.... ..+.|+++|.||+
T Consensus        76 ~~~~l~Dt~G~~~----~~~---~~~~~~~---~d~iilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~  142 (196)
T 2atv_A           76 VSMEILDTAGQED----TIQ---REGHMRW---GEGFVLVYDITD---RGSFEEVLPLKNILDEIKKPKNVTLILVGNKA  142 (196)
T ss_dssp             EEEEEEECCCCCC----CHH---HHHHHHH---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHHTTSCCCEEEEEECG
T ss_pred             EEEEEEECCCCCc----ccc---hhhhhcc---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhhCCCCCcEEEEEECc
Confidence            4678999999865    111   1122333   257899999863   3332  233333333332 2578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc-cHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~-~l~~Ll~~I~~~l  264 (284)
                      |+...+ ++...      .            .       .++...++ ..++++||++|. |++++++.|.+.+
T Consensus       143 Dl~~~~-~v~~~------~------------~-------~~~~~~~~-~~~~~~Sa~~g~~gi~~l~~~l~~~i  189 (196)
T 2atv_A          143 DLDHSR-QVSTE------E------------G-------EKLATELA-CAFYECSACTGEGNITEIFYELCREV  189 (196)
T ss_dssp             GGGGGC-CSCHH------H------------H-------HHHHHHHT-SEEEECCTTTCTTCHHHHHHHHHHHH
T ss_pred             cccccc-ccCHH------H------------H-------HHHHHHhC-CeEEEECCCcCCcCHHHHHHHHHHHH
Confidence            986532 11100      0            0       01112223 589999999999 9999999987765

>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=99.25  E-value=8.3e-11  Score=97.10  Aligned_cols=109  Identities=10%  Similarity=0.116  Sum_probs=65.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh---cCCCEEEEec
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ---LELPHVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~---~~~p~IlVlN  189 (284)
                      ..+.++||||+..        .   ..+..   .+++++++|+.   ++..+  +..++..+.....   .+.|+++|.|
T Consensus        54 ~~l~i~Dt~G~~~--------~---~~~~~---~d~~ilv~D~~---~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~n  116 (178)
T 2iwr_A           54 HLVLIREEAGAPD--------A---KFSGW---ADAVIFVFSLE---DENSFQAVSRLHGQLSSLRGEGRGGLALALVGT  116 (178)
T ss_dssp             EEEEEEECSSSCC--------H---HHHHH---CSEEEEEEETT---CHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEE
T ss_pred             EEEEEEECCCCch--------h---HHHHh---CCEEEEEEECc---CHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEE
Confidence            3578899999764        1   12333   35789999986   34333  2232222222222   3689999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+|+.......  ...   +                   .+.++...++...++++||++|.|++++++.|.+.+
T Consensus       117 K~Dl~~~~~~~--v~~---~-------------------~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~  167 (178)
T 2iwr_A          117 QDRISASSPRV--VGD---A-------------------RARALXADMKRCSYYETXATYGLNVDRVFQEVAQKV  167 (178)
T ss_dssp             CTTCBTTBCCC--SCH---H-------------------HHHHHHHHHSSEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             CccccccccCc--CCH---H-------------------HHHHHHHhhcCCeEEEEeccccCCHHHHHHHHHHHH
Confidence            99985211000  000   0                   001112333446899999999999999999887654

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.25  E-value=1.8e-11  Score=119.15  Aligned_cols=116  Identities=10%  Similarity=0.056  Sum_probs=64.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+.+.  . .....+  ..........+++++++|+....+... +......+..+ . ++|+|+|+||+
T Consensus       280 g~~l~liDT~G~~~~--~-~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~-~~~~~~~l~~l-~-~~piIvV~NK~  353 (476)
T 3gee_A          280 KTMFRLTDTAGLREA--G-EEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDE-LTEIRELKAAH-P-AAKFLTVANKL  353 (476)
T ss_dssp             TEEEEEEC-----------------------CCCSSCSEEEEEEETTTCSSGGG-HHHHHHHHHHC-T-TSEEEEEEECT
T ss_pred             CeEEEEEECCCCCcc--h-hHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhh-hHHHHHHHHhc-C-CCCEEEEEECc
Confidence            447899999998651  1 111111  222323344688999999986544321 11111111111 2 78999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+.... ....          +++                   .+.++..++++||++|+|+++|++.|.+.++
T Consensus       354 Dl~~~~-~~~~----------~~l-------------------~~~~~~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          354 DRAANA-DALI----------RAI-------------------ADGTGTEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             TSCTTT-HHHH----------HHH-------------------HHHHTSCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             CCCCcc-chhH----------HHH-------------------HhcCCCceEEEEECCCCCHHHHHHHHHHHHh
Confidence            997544 2210          000                   1112367999999999999999999999987

>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=99.24  E-value=2.1e-11  Score=102.53  Aligned_cols=111  Identities=12%  Similarity=0.181  Sum_probs=67.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ...+.++||||+...       ..+.. .+..   .+++++++|+..   +..+  +..++..+......+.|+++|.||
T Consensus        71 ~~~~~i~Dt~G~~~~-------~~~~~~~~~~---~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK  137 (191)
T 3dz8_A           71 RVKLQIWDTAGQERY-------RTITTAYYRG---AMGFILMYDITN---EESFNAVQDWATQIKTYSWDNAQVILVGNK  137 (191)
T ss_dssp             TEEEEEECHHHHHHC-------HHHHHHHHTT---CCEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEEC
T ss_pred             EEEEEEEeCCChHHH-------HHHHHHHHcc---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEEC
Confidence            346899999995431       11222 2322   467899999863   3332  333433333333357899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+...+ ......                         ..++...++ ..++++||++|.|++++++.|.+.+
T Consensus       138 ~Dl~~~~-~~~~~~-------------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i  184 (191)
T 3dz8_A          138 CDMEEER-VVPTEK-------------------------GQLLAEQLG-FDFFEASAKENISVRQAFERLVDAI  184 (191)
T ss_dssp             TTCGGGC-CSCHHH-------------------------HHHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CCCcccc-ccCHHH-------------------------HHHHHHHcC-CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            9986432 111000                         011112233 4899999999999999999887765

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.24  E-value=5.9e-11  Score=102.59  Aligned_cols=114  Identities=13%  Similarity=0.068  Sum_probs=66.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+......       ....  ....+++++++|+..   +..+  +..++..+......+.|+++|+||+|
T Consensus        62 ~~~~i~Dt~G~~~~~~~-------~~~~--~~~~d~vilV~D~~~---~~s~~~~~~~l~~i~~~~~~~~piilv~nK~D  129 (223)
T 3cpj_B           62 IKAQIWDTAGQERYRAI-------TSAY--YRGAVGALIVYDISK---SSSYENCNHWLSELRENADDNVAVGLIGNKSD  129 (223)
T ss_dssp             EEEEEECCTTTTTTTCC-------CGGG--TTTCCEEEEEEC-CC---HHHHHHHHHHHHHHHHHCC--CEEEEEECCGG
T ss_pred             EEEEEEECCCccchhhh-------HHHH--hccCCEEEEEEeCCC---HHHHHHHHHHHHHHHHhCCCCCeEEEEEECcc
Confidence            36799999997542111       0111  122467899999863   3332  33333333222234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +.... ++...      .                   ..++...++ ..++++||+++.|++++++.|.+.+...
T Consensus       130 l~~~~-~v~~~------~-------------------~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  177 (223)
T 3cpj_B          130 LAHLR-AVPTE------E-------------------SKTFAQENQ-LLFTETSALNSENVDKAFEELINTIYQK  177 (223)
T ss_dssp             GGGGC-CSCHH------H-------------------HHHHHHHTT-CEEEECCCC-CCCHHHHHHHHHHHHTTC
T ss_pred             ccccc-ccCHH------H-------------------HHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            86532 11100      0                   011112333 5899999999999999999998776543

>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=99.24  E-value=8.9e-12  Score=101.52  Aligned_cols=110  Identities=15%  Similarity=0.131  Sum_probs=60.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK  190 (284)
                      ..+.++||||+.+..       .+... +..   .+++++++|..   ++..+  +..++..+... ...+.|+++|.||
T Consensus        49 ~~~~i~D~~g~~~~~-------~~~~~~~~~---~~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK  115 (166)
T 3q72_A           49 ASLMVYDIWEQDGGR-------WLPGHCMAM---GDAYVIVYSVT---DKGSFEKASELRVQLRRARQTDDVPIILVGNK  115 (166)
T ss_dssp             EEEEEEECC-------------------------CCEEEEEEETT---CHHHHHHHHHHHHHHHHCC---CCCEEEEEEC
T ss_pred             EEEEEEECCCCccch-------hhhhhhhhh---CCEEEEEEECC---CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEec
Confidence            367899999976521       11111 222   35788888886   33333  22332222211 1247899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.... ++....                      .   .+....++ ..++++||++|+|++++++.|.+.+
T Consensus       116 ~Dl~~~~-~~~~~~----------------------~---~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~~  162 (166)
T 3q72_A          116 SDLVRSR-EVSVDE----------------------G---RACAVVFD-CKFIETSAALHHNVQALFEGVVRQI  162 (166)
T ss_dssp             TTCCSSC-CSCHHH----------------------H---HHHHHHTT-CEEEECBGGGTBSHHHHHHHHHHHH
T ss_pred             ccccccc-ccCHHH----------------------H---HHHHHHhC-CcEEEeccCCCCCHHHHHHHHHHHH
Confidence            9997543 221100                      0   01112233 5899999999999999999988765

>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=99.24  E-value=1.1e-10  Score=97.00  Aligned_cols=121  Identities=14%  Similarity=0.258  Sum_probs=68.2

Q ss_pred             CEEEEeCCCCcccccccchH----HHHH-HHHHh-cCCCeEEEEEecCCCCCCH-HHHHHH-----HHHHHHHHHhcCCC
Q 023298          116 DYLVFDCPGQIELFTHVPVL----RNFV-DHLKS-RNFNVCAVYLLDSQFITDV-TKFISG-----CMASLSAMVQLELP  183 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~----~~l~-~~l~~-~d~~~vil~LiDa~~~~~~-~~~i~~-----~l~~l~~~~~~~~p  183 (284)
                      ++.++||||......+...+    ..+. ..+.. ++..+++++++|+....+. ..+...     -..........+.|
T Consensus        45 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  124 (190)
T 2cxx_A           45 NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP  124 (190)
T ss_dssp             TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCC
T ss_pred             CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCc
Confidence            67899999964332222111    1122 22332 4445688899997532111 111100     00111223346899


Q ss_pred             EEEEecCCccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC------ceEEEEeccCcccHHHH
Q 023298          184 HVNILSKMDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM------VSFMPLDLRKESSIRYV  256 (284)
Q Consensus       184 ~IlVlNK~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~------~~~ipiSa~~~~~l~~L  256 (284)
                      +++|+||+|+..... ....+                              ...++.      ..++++||++|+|++++
T Consensus       125 iilv~nK~Dl~~~~~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  174 (190)
T 2cxx_A          125 TIVAVNKLDKIKNVQEVINFL------------------------------AEKFEVPLSEIDKVFIPISAKFGDNIERL  174 (190)
T ss_dssp             EEEEEECGGGCSCHHHHHHHH------------------------------HHHHTCCGGGHHHHEEECCTTTCTTHHHH
T ss_pred             eEEEeehHhccCcHHHHHHHH------------------------------HHHhhhhhhccCCcEEEEecCCCCCHHHH
Confidence            999999999875320 11111                              111221      35899999999999999


Q ss_pred             HHHHHHhcCC
Q 023298          257 LSQIDNCIQW  266 (284)
Q Consensus       257 l~~I~~~l~~  266 (284)
                      ++.|.+.+.+
T Consensus       175 ~~~l~~~~~~  184 (190)
T 2cxx_A          175 KNRIFEVIRE  184 (190)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHhcch
Confidence            9999887654

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=99.24  E-value=5.3e-10  Score=103.14  Aligned_cols=47  Identities=9%  Similarity=0.075  Sum_probs=40.4

Q ss_pred             cccccC-ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           13 MSWLYA-LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        13 ~~~~~~-~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ...-.+ ++++++-|.| +||||++.+||.++++.|+||++||+|||.+
T Consensus         7 l~~~~gm~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~~~~   55 (324)
T 3zq6_A            7 FKFNKGKTTFVFIGGKGGVGKTTISAATALWMARSGKKTLVISTDPAHS   55 (324)
T ss_dssp             CCCBTTBCEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEECCSSCC
T ss_pred             hcCCCCCeEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEeCCCCcC
Confidence            344456 5667777888 9999999999999999999999999999765

>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=99.23  E-value=2.4e-11  Score=102.85  Aligned_cols=118  Identities=10%  Similarity=0.084  Sum_probs=64.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH-HHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA-MVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~-~~~~~~p~IlVlNK~D  192 (284)
                      ..++.++||||+...   ....   ...+..   .+++++++|+....+-.. +..++..+.. ....+.|+++|+||+|
T Consensus        72 ~~~~~i~Dt~G~~~~---~~~~---~~~~~~---~d~iilv~D~~~~~s~~~-~~~~l~~~~~~~~~~~~piilv~NK~D  141 (192)
T 2b6h_A           72 NICFTVWDVGGQDKI---RPLW---RHYFQN---TQGLIFVVDSNDRERVQE-SADELQKMLQEDELRDAVLLVFANKQD  141 (192)
T ss_dssp             TEEEEEEECC--------CTTH---HHHHHT---CCEEEEEEETTCGGGHHH-HHHHHHHHHTCGGGTTCEEEEEEECTT
T ss_pred             CEEEEEEECCCCHhH---HHHH---HHHhcc---CCEEEEEEECCCHHHHHH-HHHHHHHHhcccccCCCeEEEEEECCC
Confidence            347899999998542   1111   122333   367899999864422222 2222221111 1113789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... ...++.        +.+..              .. .......++++||++|.|++++++.|.+.+.
T Consensus       142 l~~~~-~~~~i~--------~~~~~--------------~~-~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          142 MPNAM-PVSELT--------DKLGL--------------QH-LRSRTWYVQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             STTCC-CHHHHH--------HHTTG--------------GG-CSSCCEEEEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             CCCCC-CHHHHH--------HHhCc--------------cc-ccCCceEEEECcCCCcCCHHHHHHHHHHHHh
Confidence            86532 111111        11100              00 0111257999999999999999999988764

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.23  E-value=9.6e-11  Score=99.95  Aligned_cols=126  Identities=10%  Similarity=0.129  Sum_probs=69.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+.+......       .  .....+++++++|+....+.......++..+.. ...+.|+++|+||+|+.
T Consensus        73 ~~~~i~Dt~G~~~~~~~~~-------~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~  142 (207)
T 2fv8_A           73 VELALWDTAGQEDYDRLRP-------L--SYPDTDVILMCFSVDSPDSLENIPEKWVPEVKH-FCPNVPIILVANKKDLR  142 (207)
T ss_dssp             EEEEEEECTTCTTCTTTGG-------G--GCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHH-HSTTCCEEEEEECGGGG
T ss_pred             EEEEEEECCCcHHHHHHHH-------h--hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEEchhhh
Confidence            3678999999765321100       0  112246889999986321111111222222211 11278999999999997


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ... ...+.+.        ++......     .....++....+...++++||++|.|++++++.|.+.+
T Consensus       143 ~~~-~~~~~~~--------~~~~~~v~-----~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i  198 (207)
T 2fv8_A          143 SDE-HVRTELA--------RMKQEPVR-----TDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAA  198 (207)
T ss_dssp             GCH-HHHHHHH--------HTTCCCCC-----HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccc-cchhhhh--------hcccCCCC-----HHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHH
Confidence            643 2221110        00000000     00112223445556899999999999999999998775

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.23  E-value=8.5e-11  Score=97.91  Aligned_cols=116  Identities=10%  Similarity=0.016  Sum_probs=65.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+.+....   .   ...+   ...+++++++|+....+.... ..++..+... ...+.|+++|+||+|
T Consensus        64 ~~~~~i~Dt~G~~~~~~~---~---~~~~---~~~d~ii~v~D~~~~~s~~~~-~~~~~~~~~~~~~~~~piilv~NK~D  133 (181)
T 2h17_A           64 NTRFLMWDIGGQESLRSS---W---NTYY---TNTEFVIVVVDSTDRERISVT-REELYKMLAHEDLRKAGLLIFANKQD  133 (181)
T ss_dssp             TEEEEEEEESSSGGGTCG---G---GGGG---TTCCEEEEEEETTCTTTHHHH-HHHHHHHHTCGGGTTCEEEEEEECTT
T ss_pred             CEEEEEEECCCCHhHHHH---H---HHHh---ccCCEEEEEEECCCHHHHHHH-HHHHHHHHhChhhCCCeEEEEEECCC
Confidence            347899999998542111   0   0112   224689999998755433332 2222211111 125789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +.... ...++.        +.+..              ..... ....++++||++|.|++++++.|.+.
T Consensus       134 l~~~~-~~~~i~--------~~~~~--------------~~~~~-~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          134 VKECM-TVAEIS--------QFLKL--------------TSIKD-HQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             STTCC-CHHHHH--------HHTTG--------------GGCCS-SCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             cccCC-CHHHHH--------HHhCc--------------ccccC-CceEEEEccCCCCcCHHHHHHHHHhh
Confidence            96532 111111        00000              00011 12479999999999999999988653

>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=99.23  E-value=8.5e-11  Score=98.84  Aligned_cols=118  Identities=14%  Similarity=0.043  Sum_probs=68.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+.+....       ...  .....+++++++|+....+.......++..+.. ...+.|+++|.||+|+.
T Consensus        71 ~~~~i~Dt~G~~~~~~~-------~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~ilv~nK~Dl~  140 (194)
T 3reg_A           71 FILHLWDTAGQEEYDRL-------RPL--SYADSDVVLLCFAVNNRTSFDNISTKWEPEIKH-YIDTAKTVLVGLKVDLR  140 (194)
T ss_dssp             EEEEEEEECCSGGGTTT-------GGG--GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HCTTSEEEEEEECGGGC
T ss_pred             EEEEEEECCCcHHHHHH-------hHh--hccCCcEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEEChhhc
Confidence            35689999997552211       010  112246889999986432211211223222221 12368999999999997


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ... .. ....                      ..+.++...++...++++||++|.|++++++.|.+.+..
T Consensus       141 ~~~-~~-~~~~----------------------~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  188 (194)
T 3reg_A          141 KDG-SD-DVTK----------------------QEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFS  188 (194)
T ss_dssp             CTT-TT-CCCH----------------------HHHHHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHHHHC
T ss_pred             cCC-CC-cccH----------------------HHHHHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHHHHh
Confidence            532 11 0000                      001222344555669999999999999999999887643

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.23  E-value=5e-11  Score=104.48  Aligned_cols=130  Identities=12%  Similarity=0.204  Sum_probs=70.5

Q ss_pred             CCCEEEEeCCCCcccccc-cchHHHHHHHHH-hcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTH-VPVLRNFVDHLK-SRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~-~~~~~~l~~~l~-~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||....... ......+.+.+. .....+++++++|+......... +..+...+.  .....|+++|+||
T Consensus        77 ~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~--~~~~~~~iiv~nK  154 (239)
T 3lxx_A           77 ETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFG--ERARSFMILIFTR  154 (239)
T ss_dssp             TEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHH--HHHGGGEEEEEEC
T ss_pred             CceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhh--hhccceEEEEEeC
Confidence            347899999998763221 122334555543 22335789999998766543322 222211111  1234699999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccC-----cccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRK-----ESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~-----~~~l~~Ll~~I~~~l~  265 (284)
                      +|++... .+.+++...                   ...+.++++.++ ..++++++..     ..++.+|+..|.+.+.
T Consensus       155 ~D~~~~~-~~~~~i~~~-------------------~~~l~~l~~~~~-~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~  213 (239)
T 3lxx_A          155 KDDLGDT-NLHDYLREA-------------------PEDIQDLMDIFG-DRYCALNNKATGAEQEAQRAQLLGLIQRVVR  213 (239)
T ss_dssp             GGGC--------------------------------CHHHHHHHHHHS-SSEEECCTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CccCCcc-cHHHHHHhc-------------------hHHHHHHHHHcC-CEEEEEECCCCccccHHHHHHHHHHHHHHHH
Confidence            9998755 565555311                   112234445555 3577787664     3799999999998885


Q ss_pred             C
Q 023298          266 W  266 (284)
Q Consensus       266 ~  266 (284)
                      +
T Consensus       214 ~  214 (239)
T 3lxx_A          214 E  214 (239)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.23  E-value=1e-10  Score=95.74  Aligned_cols=114  Identities=12%  Similarity=0.049  Sum_probs=61.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK~  191 (284)
                      .++.++||||+... ..    ..+.....  ...+++++++|...   +..+  +..++..+... ...+.|+++|.||+
T Consensus        52 ~~~~~~D~~g~~~~-~~----~~~~~~~~--~~~~~~i~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~  121 (175)
T 2nzj_A           52 TTLVVVDTWEAEKL-DK----SWSQESCL--QGGSAYVIVYSIAD---RGSFESASELRIQLRRTHQADHVPIILVGNKA  121 (175)
T ss_dssp             EEEEEECCC------------CHHHHHTT--TSCSEEEEEEETTC---HHHHHHHHHHHHHHHHCC----CCEEEEEECT
T ss_pred             EEEEEEecCCCCcc-ch----hhhHHhhc--ccCCEEEEEEECCC---HHHHHHHHHHHHHHHHhhccCCCCEEEEEECh
Confidence            36789999997542 01    11112221  12467888888753   3332  22232222211 12378999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...+ ++..-          +.               ..+...++ ..++++||++|.|++++++.|.+.+.
T Consensus       122 Dl~~~~-~v~~~----------~~---------------~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~l~~~~~  168 (175)
T 2nzj_A          122 DLARCR-EVSVE----------EG---------------RACAVVFD-CKFIETSATLQHNVAELFEGVVRQLR  168 (175)
T ss_dssp             TCTTTC-CSCHH----------HH---------------HHHHHHHT-SEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hhcccc-ccCHH----------HH---------------HHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHHH
Confidence            996533 22100          00               01112223 58999999999999999999887653

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.22  E-value=3.7e-11  Score=109.13  Aligned_cols=123  Identities=11%  Similarity=0.110  Sum_probs=70.9

Q ss_pred             CCCEEEEeCCCCcccccc---cchHHHH----HHHHHhcCCCeEEEEEecCCC--CCCHHH-HHHHHHHHHHHHHhcCCC
Q 023298          114 DDDYLVFDCPGQIELFTH---VPVLRNF----VDHLKSRNFNVCAVYLLDSQF--ITDVTK-FISGCMASLSAMVQLELP  183 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~---~~~~~~l----~~~l~~~d~~~vil~LiDa~~--~~~~~~-~i~~~l~~l~~~~~~~~p  183 (284)
                      ..+++++||||+......   ......+    ...+..   .+++++++|+..  ...... .+..      .+...+.|
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~---~d~iilvvd~~~~~~~~~~~~~i~~------~~~~~~~~  200 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKK---QNAIIVAVTPANTDLANSDALQLAK------EVDPEGKR  200 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHS---TTEEEEEEEESSSCSTTCSHHHHHH------HHCSSCSS
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcC---CCeEEEEEEecCcchhhhHHHHHHH------HhCCCCCc
Confidence            468999999998652110   1122222    223333   467888888632  222222 2322      22346899


Q ss_pred             EEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc--cCCceEEEEeccC---cccHHHHHH
Q 023298          184 HVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE--YSMVSFMPLDLRK---ESSIRYVLS  258 (284)
Q Consensus       184 ~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~--~~~~~~ipiSa~~---~~~l~~Ll~  258 (284)
                      +++|+||+|+..+.....++++           .               .+..  .++..++++|+.+   +.|+.++++
T Consensus       201 ~i~v~NK~Dl~~~~~~~~~~~~-----------~---------------~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~  254 (315)
T 1jwy_B          201 TIGVITKLDLMDKGTDAMEVLT-----------G---------------RVIPLTLGFIGVINRSQEDIIAKKSIRESLK  254 (315)
T ss_dssp             EEEEEECTTSSCSSCCCHHHHT-----------T---------------SSSCCTTCEEECCCCCHHHHSSSCCHHHHHH
T ss_pred             EEEEEcCcccCCcchHHHHHHh-----------C---------------CCccCCCCeEEEecCChhhhccCCCHHHHHH
Confidence            9999999999864411222221           0               0011  2334556667777   899999999


Q ss_pred             HHHHhcCCCCCCC
Q 023298          259 QIDNCIQWGEDAD  271 (284)
Q Consensus       259 ~I~~~l~~g~d~~  271 (284)
                      .+.+.++.++..+
T Consensus       255 ~~~~~~~~~~~~~  267 (315)
T 1jwy_B          255 SEILYFKNHPIYK  267 (315)
T ss_dssp             HHHHHHHTCTTGG
T ss_pred             HHHHHHhCCCccc
Confidence            9999999887643

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=99.22  E-value=7.7e-11  Score=111.61  Aligned_cols=44  Identities=14%  Similarity=0.172  Sum_probs=31.3

Q ss_pred             cCceEEEEEC-CC-CcHHHHHHHHHHHHH------hcCCceEEEecCcCCCC
Q 023298           17 YALVIKCVFS-PP-PNQSTYCSSLYRHCE------TVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        17 ~~~~~~~viG-~~-sGKTT~~~~La~~l~------~~g~~v~iVdLDPq~~~   60 (284)
                      .+++.|.|++ .| +||||++.|||.+|+      ..|+||++||+|||++.
T Consensus       109 ~~~~vIav~s~KGGvGKTT~a~nLA~~LA~~g~~~~~g~rVlliD~D~~~~l  160 (403)
T 3ez9_A          109 KSPYVIFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLDPQASS  160 (403)
T ss_dssp             CSCEEEEECCC--------CHHHHHHHHHSCGGGGGGCCCEEEEEESSSSGG
T ss_pred             CCceEEEEEcCCCCchHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCCCh
Confidence            4566666664 47 999999999999999      68999999999999974

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.22  E-value=2.7e-11  Score=116.15  Aligned_cols=122  Identities=9%  Similarity=0.076  Sum_probs=73.1

Q ss_pred             CCCEEEEeCCCCcccccccc--hHHHHH---HHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHVP--VLRNFV---DHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~--~~~~l~---~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVl  188 (284)
                      +.++.++||||+........  .....+   ..+..   .+++++++|+....+..+.  .+   +......++|+|+|+
T Consensus       222 ~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~---ad~~llv~D~~~~~s~~~~--~~---~~~~~~~~~~iiiv~  293 (436)
T 2hjg_A          222 QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDR---SEVVAVVLDGEEGIIEQDK--RI---AGYAHEAGKAVVIVV  293 (436)
T ss_dssp             TEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHH---CSEEEEEEETTTCCCHHHH--HH---HHHHHHTTCEEEEEE
T ss_pred             CeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHh---CCEEEEEEcCCcCCcHHHH--HH---HHHHHHcCCcEEEEE
Confidence            34689999999743111000  011112   23333   3689999999765443332  11   122335689999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ||+|+..+. ... .                    .++...+.+.+.......++++||++|.|+++++..+.+.+.
T Consensus       294 NK~Dl~~~~-~~~-~--------------------~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~  348 (436)
T 2hjg_A          294 NKWDAVDKD-EST-M--------------------KEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASE  348 (436)
T ss_dssp             ECGGGSCCC-TTH-H--------------------HHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             ECccCCCcc-hHH-H--------------------HHHHHHHHHhcccCCCCCEEEEecccCCCHHHHHHHHHHHHH
Confidence            999997643 210 0                    011112223333445578999999999999999998887764

>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=99.22  E-value=2.6e-10  Score=97.34  Aligned_cols=135  Identities=17%  Similarity=0.185  Sum_probs=65.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHH-H--HHhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFITDVTKFISGCMASLS-A--MVQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~-~--~~~~~~p~IlVlNK  190 (284)
                      .++.++||||+...      ...+.+.. ..   .+++++++|+....+....+...+..+. .  ....+.|+++|.||
T Consensus        54 ~~~~i~Dt~G~~~~------~~~~~~~~~~~---~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK  124 (214)
T 2fh5_B           54 NSLTLIDLPGHESL------RFQLLDRFKSS---ARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNK  124 (214)
T ss_dssp             CEEEEEECCCCHHH------HHHHHHHHGGG---EEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEEC
T ss_pred             cEEEEEECCCChhH------HHHHHHHHHhh---CCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEEC
Confidence            46899999997641      11133332 22   4689999998642111111222222111 1  11346899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhh---c-chhHHHHHHHHHHH-HHh----ccC------CceEEEEeccCc-----
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQ---H-MAPQFAKLNKSLIE-LVD----EYS------MVSFMPLDLRKE-----  250 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~---~-~~~~~~~l~~~i~~-~l~----~~~------~~~~ipiSa~~~-----  250 (284)
                      +|+.... ......+    .+...+..   . ....-..=...+.+ ++.    .+.      ...|+++||++|     
T Consensus       125 ~Dl~~~~-~~~~~~~----~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~  199 (214)
T 2fh5_B          125 QDIAMAK-SAKLIQQ----QLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTG  199 (214)
T ss_dssp             TTSTTCC-CHHHHHH----HHHHHHHHHHHHCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------
T ss_pred             CCCCCcc-cHHHHHH----HHHHHHHHHhccchhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCcccc
Confidence            9997643 2222211    11111110   0 00000000000000 111    011      457999999999     


Q ss_pred             -ccHHHHHHHHHHh
Q 023298          251 -SSIRYVLSQIDNC  263 (284)
Q Consensus       251 -~~l~~Ll~~I~~~  263 (284)
                       .|++++++.|.+.
T Consensus       200 ~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          200 SADIQDLEKWLAKI  213 (214)
T ss_dssp             CCBCHHHHHHHHHH
T ss_pred             ccChHHHHHHHHHh
Confidence             9999999998765

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=99.20  E-value=5.9e-11  Score=111.20  Aligned_cols=42  Identities=12%  Similarity=0.143  Sum_probs=36.6

Q ss_pred             eEEEEE-CCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           20 VIKCVF-SPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        20 ~~~~vi-G~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      +++.|+ +.| |||||++.|||.+|++.|+||++||+|||++.+
T Consensus         2 kvIav~s~KGGvGKTT~a~nLA~~LA~~G~rVLlID~D~q~~~~   45 (361)
T 3pg5_A            2 RTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNAT   45 (361)
T ss_dssp             EEEEBCCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTCTTH
T ss_pred             eEEEEEcCCCCCcHHHHHHHHHHHHHhCCCcEEEEEcCCCCChh
Confidence            446666 457 999999999999999999999999999998853

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.20  E-value=1.4e-10  Score=98.96  Aligned_cols=122  Identities=13%  Similarity=0.095  Sum_probs=70.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH---HHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI---SGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i---~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+.....       +...  .....+++++++|...   +..+-   ..++..+.... .+.|+++|.||+
T Consensus        57 ~~~~i~Dt~G~~~~~~-------~~~~--~~~~~d~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~  123 (212)
T 2j0v_A           57 VNLGLWDTAGQEDYSR-------LRPL--SYRGADIFVLAFSLIS---KASYENVLKKWMPELRRFA-PNVPIVLVGTKL  123 (212)
T ss_dssp             EEEEEECCCCCCCCCC---------CG--GGTTCSEEEEEEETTC---HHHHHHHHHTHHHHHHHHC-TTCCEEEEEECH
T ss_pred             EEEEEEECCCcHHHHH-------HHHh--hccCCCEEEEEEECCC---HHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCH
Confidence            3678999999865221       1111  1122468899999863   33331   12332222211 278999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      |+.... .........       +   .       .....++...++...++++||++|+|++++++.|.+.+...
T Consensus       124 Dl~~~~-~~~~~~~~~-------v---~-------~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          124 DLRDDK-GYLADHTNV-------I---T-------STQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             HHHTCH-HHHHTCSSC-------C---C-------HHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             HhhhCc-cccccccCC-------C---C-------HHHHHHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhh
Confidence            997543 210000000       0   0       00012223445666899999999999999999998877543

>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=99.20  E-value=1.3e-10  Score=97.64  Aligned_cols=109  Identities=12%  Similarity=0.115  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK~  191 (284)
                      ..+.++||||+....           .+..   .+++++++|...   +..|  +..++..+..... .+.|+++|.||+
T Consensus        67 ~~l~i~Dt~G~~~~~-----------~~~~---~~~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~  129 (184)
T 3ihw_A           67 YLLLIRDEGGPPELQ-----------FAAW---VDAVVFVFSLED---EISFQTVYNYFLRLCSFRNASEVPMVLVGTQD  129 (184)
T ss_dssp             EEEEEEECSSSCCHH-----------HHHH---CSEEEEEEETTC---HHHHHHHHHHHHHHHTTSCGGGSCEEEEEECT
T ss_pred             EEEEEEECCCChhhh-----------eecC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECc
Confidence            356789999975411           2333   357889999863   4333  2333333222211 468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.......  ...                      ..+.++...++...++++||++|.|++++++.+.+.+
T Consensus       130 Dl~~~~~~~--v~~----------------------~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i  178 (184)
T 3ihw_A          130 AISAANPRV--IDD----------------------SRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKV  178 (184)
T ss_dssp             TCBTTBCCC--SCH----------------------HHHHHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             ccccccccc--cCH----------------------HHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHH
Confidence            985321010  000                      0012233455667899999999999999999887754

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.19  E-value=7.8e-11  Score=114.19  Aligned_cols=113  Identities=14%  Similarity=0.103  Sum_probs=65.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHH--HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNF--VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l--~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+.+..   ...+.+  .+........+++++++|+....+....  .++.   .+  .++|.++|+||+
T Consensus       271 g~~v~liDT~G~~~~~---~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~--~i~~---~l--~~~piivV~NK~  340 (462)
T 3geh_A          271 GIPVQVLDTAGIRETS---DQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQ--EIYE---QV--KHRPLILVMNKI  340 (462)
T ss_dssp             TEEEEECC-----------------------CCCCSCSEEEEEEETTTCSCHHHH--HHHH---HH--TTSCEEEEEECT
T ss_pred             CEEEEEEECCccccch---hHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHH--HHHH---hc--cCCcEEEEEECC
Confidence            4578999999985521   111221  2223334446889999999764333321  1111   11  237999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      |+.... ......                               .+ ....++++||++|.|+++|++.|.+.+....
T Consensus       341 Dl~~~~-~~~~~~-------------------------------~~~~~~~~i~iSAktg~Gi~eL~~~i~~~~~~~~  386 (462)
T 3geh_A          341 DLVEKQ-LITSLE-------------------------------YPENITQIVHTAAAQKQGIDSLETAILEIVQTGK  386 (462)
T ss_dssp             TSSCGG-GSTTCC-------------------------------CCTTCCCEEEEBTTTTBSHHHHHHHHHHHHTTSS
T ss_pred             CCCcch-hhHHHH-------------------------------HhccCCcEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            997644 222111                               11 2357999999999999999999999987654

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.19  E-value=4.8e-11  Score=99.03  Aligned_cols=112  Identities=13%  Similarity=0.188  Sum_probs=58.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++.++||||+.....       +...  .....+++++++|+..   +..+  +..++..+......+.|+++|.||+|
T Consensus        57 ~~~~l~Dt~G~~~~~~-------~~~~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~piilv~nK~D  124 (183)
T 2fu5_C           57 IKLQIWDTAGQERFRT-------ITTA--YYRGAMGIMLVYDITN---EKSFDNIRNWIRNIEEHASADVEKMILGNKCD  124 (183)
T ss_dssp             EEEEEEEC----------------CCT--TTTTCSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--
T ss_pred             EEEEEEcCCCChhhhh-------hHHH--HHhcCCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcc
Confidence            4689999999754211       1011  1122468999999863   3332  33343333222234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +...+ .+..      +.                   +.++...++ ..++++||++|.|+++++..|.+.+.
T Consensus       125 l~~~~-~v~~------~~-------------------~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~i~  170 (183)
T 2fu5_C          125 VNDKR-QVSK------ER-------------------GEKLALDYG-IKFMETSAKANINVENAFFTLARDIK  170 (183)
T ss_dssp             CCSCC-CSCH------HH-------------------HHHHHHHHT-CEEEECCC---CCHHHHHHHHHHHHH
T ss_pred             CCccC-cCCH------HH-------------------HHHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            86533 1100      00                   011112233 48999999999999999999887654

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.19  E-value=1.2e-10  Score=100.07  Aligned_cols=123  Identities=12%  Similarity=0.131  Sum_probs=65.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHHHH---HHHHHHHHHHhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKFIS---GCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~i~---~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      ..+.++||||+.+...       +... +.   ..+++++++|+.   ++..+-.   .++..+... ..+.|+++|.||
T Consensus        82 ~~l~l~Dt~G~~~~~~-------~~~~~~~---~~d~~i~v~d~~---~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK  147 (214)
T 2j1l_A           82 VHLHIWDTAGQDDYDR-------LRPLFYP---DASVLLLCFDVT---SPNSFDNIFNRWYPEVNHF-CKKVPIIVVGCK  147 (214)
T ss_dssp             EEEEEEEC-------------------------CEEEEEEEEETT---CHHHHHHHHHTHHHHHHHH-CSSCCEEEEEEC
T ss_pred             EEEEEEECCCchhhhH-------HHHHHhc---cCCEEEEEEECc---CHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEC
Confidence            3678999999754211       1111 22   247899999986   3433321   222222111 137899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+.... ...+.++        ....... .    .....++...++...++++||++|.|++++++.|.+.+.
T Consensus       148 ~Dl~~~~-~~~~~~~--------~~~~~~v-~----~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~  208 (214)
T 2j1l_A          148 TDLRKDK-SLVNKLR--------RNGLEPV-T----YHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVAL  208 (214)
T ss_dssp             GGGGSCH-HHHHHHH--------HTTCCCC-C----HHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hhhhccc-hhhhhhc--------ccccCcc-c----HHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            9997654 3322210        0000000 0    001122334556678999999999999999999887653

>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=99.19  E-value=1.3e-10  Score=97.22  Aligned_cols=117  Identities=13%  Similarity=0.114  Sum_probs=66.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH-HHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL-SAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l-~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+....      ......+..   .+++++++|+....+... +..++..+ ......+.|+++|.||+|+
T Consensus        60 ~~l~i~Dt~G~~~~~------~~~~~~~~~---~~~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~NK~Dl  129 (181)
T 1fzq_A           60 FKLNVWDIGGQRKIR------PYWRSYFEN---TDILIYVIDSADRKRFEE-TGQELTELLEEEKLSCVPVLIFANKQDL  129 (181)
T ss_dssp             EEEEEEECSSCGGGH------HHHHHHHTT---CSEEEEEEETTCGGGHHH-HHHHHHHHTTCGGGTTCCEEEEEECTTS
T ss_pred             EEEEEEECCCCHHHH------HHHHHHhCC---CCEEEEEEECcCHHHHHH-HHHHHHHHHhChhhcCCCEEEEEECcCc
Confidence            367899999975411      111122332   468999999864432222 22222211 1111247899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... ...+..        +.+..              ..+. .....++++||++|+|++++++.|.+.+.
T Consensus       130 ~~~~-~~~~~~--------~~~~~--------------~~~~-~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (181)
T 1fzq_A          130 LTAA-PASEIA--------EGLNL--------------HTIR-DRVWQIQSCSALTGEGVQDGMNWVCKNVN  177 (181)
T ss_dssp             TTCC-CHHHHH--------HHTTG--------------GGCC-SSCEEEEECCTTTCTTHHHHHHHHHHTC-
T ss_pred             ccCC-CHHHHH--------HHhCc--------------hhcc-CCceEEEEccCCCCCCHHHHHHHHHHHHH
Confidence            6533 211111        00000              0001 11257999999999999999999988764

>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=99.19  E-value=1.2e-10  Score=112.03  Aligned_cols=154  Identities=14%  Similarity=0.124  Sum_probs=84.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEH   96 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~   96 (284)
                      +|..++++|++ |||||++.+||.+++..|++|++++.|++....       +..+-.+.   +..++ |.-......+ 
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a-------~eqL~~~~---~~~gv-~~~~~~~~~d-  163 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAA-------YDQLLQLG---NQIGV-QVYGEPNNQN-  163 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHH-------HHHHHHHH---HTTTC-CEECCTTCSC-
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhH-------HHHHHHHH---HhcCC-ceeeccccCC-
Confidence            57889999999 999999999999999999999999999865320       11111111   11111 0000000000 


Q ss_pred             hhhcHHHHHHHHhhccC--CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           97 LEDNLDDWLAEELDNYL--DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        97 ~~~~~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                          -..+..+.++...  +++++||||||.............+........ .+.+++++|+....+... +.      
T Consensus       164 ----p~~i~~~al~~a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~-pd~vlLVlDa~~gq~a~~-~a------  231 (433)
T 3kl4_A          164 ----PIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLK-PDDVILVIDASIGQKAYD-LA------  231 (433)
T ss_dssp             ----HHHHHHHHHHHTTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHC-CSEEEEEEEGGGGGGGHH-HH------
T ss_pred             ----HHHHHHHHHHHHHhcCCCEEEEECCCCccccCCHHHHHHHHHHHHhhC-CcceEEEEeCccchHHHH-HH------
Confidence                0011122233222  679999999997541111122233322222222 356889999964322222 11      


Q ss_pred             HHHHhcCCCEEEEecCCcccc
Q 023298          175 SAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ..+...-.+..+|+||+|...
T Consensus       232 ~~f~~~~~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          232 SRFHQASPIGSVIITKMDGTA  252 (433)
T ss_dssp             HHHHHHCSSEEEEEECGGGCS
T ss_pred             HHHhcccCCcEEEEecccccc
Confidence            122223357899999999753

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.19  E-value=1.5e-10  Score=112.66  Aligned_cols=114  Identities=13%  Similarity=0.214  Sum_probs=72.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.++||||+..      ....+...+   ...+++++++|+.....+...-.     +..+...+.|+|+|+||+|+
T Consensus        72 ~~~i~iiDtPGh~~------~~~~~~~~~---~~aD~~ilVvda~~g~~~qt~e~-----l~~~~~~~ip~IvviNK~Dl  137 (482)
T 1wb1_A           72 NYRITLVDAPGHAD------LIRAVVSAA---DIIDLALIVVDAKEGPKTQTGEH-----MLILDHFNIPIIVVITKSDN  137 (482)
T ss_dssp             TEEEEECCCSSHHH------HHHHHHHHT---TSCCEEEEEEETTTCSCHHHHHH-----HHHHHHTTCCBCEEEECTTS
T ss_pred             CEEEEEEECCChHH------HHHHHHHHH---hhCCEEEEEEecCCCccHHHHHH-----HHHHHHcCCCEEEEEECCCc
Confidence            45789999999632      122222223   33578999999975433433311     11233568999999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-C--CceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-S--MVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~--~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ...+ ..+...                       ..+.+++... +  ...++|+||++|+|+++|++.|.+.++
T Consensus       138 ~~~~-~~~~~~-----------------------~~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          138 AGTE-EIKRTE-----------------------MIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             SCHH-HHHHHH-----------------------HHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccch-hHHHHH-----------------------HHHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            7533 222221                       1122333333 2  367999999999999999999999765

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=99.19  E-value=1.3e-10  Score=109.19  Aligned_cols=110  Identities=13%  Similarity=0.150  Sum_probs=65.4

Q ss_pred             cCceEEEEEC-CC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC---CCCCccccccccc------------cHHHHh
Q 023298           17 YALVIKCVFS-PP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN---FDYPVAMDIRELI------------SLEDVM   79 (284)
Q Consensus        17 ~~~~~~~viG-~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~---~~~~~~~dir~~i------------~~~~vm   79 (284)
                      .+++.+.|+| .| +||||++.+||.+|++.|+||++||+|++++.   ++.++..++.+.+            .+++++
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD~D~~~~l~~~lg~~~~~~l~d~l~~~~~~~~~~~~~l~~~i  220 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLNIEQCGTTDVFFQAEGNATMSDVIYSLKSRKANLLLKLESCI  220 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEECCTTCCHHHHCCCSCSCCHHHHHHHHHSCCSCHHHHHHHTC
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEECCCCCCHHHHcCCCCCCCHHHHHhhhhcccccccccHHHHh
Confidence            3567788887 47 99999999999999999999999999977762   2222222232221            123322


Q ss_pred             h----hcCcccCchhhhhhHhh-hhcHHHHHHHHhhccCCCCEEEEeCCCCcc
Q 023298           80 E----ELGLGPNGGLIYCMEHL-EDNLDDWLAEELDNYLDDDYLVFDCPGQIE  127 (284)
Q Consensus        80 ~----~~~lgPng~l~~~~e~~-~~~~~~~l~~~l~~~~~~~~viiDtPg~~e  127 (284)
                      .    +..+.|.+........+ ...+ .++.+.+....++++|+||||+...
T Consensus       221 ~~~~~~l~~l~~~~~~~~~~~~~~~~~-~~ll~~l~~~~~yD~VIID~p~~~~  272 (373)
T 3fkq_A          221 KQSQEGVSYFSSTKVALDILEISYADI-DTLIGNIQGMDNYDEIIVDLPFSLE  272 (373)
T ss_dssp             EECTTSCEECCCCSSGGGGGGCCHHHH-HHHHHHHHHTSCCSEEEEECCCCCC
T ss_pred             hcCCCCEEEecCCCChHhHHhCCHHHH-HHHHHHHHhcCCCCEEEEeCCCCCC
Confidence            1    22333433322222111 1222 2334445433378999999998654

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.18  E-value=8.1e-11  Score=100.12  Aligned_cols=124  Identities=15%  Similarity=0.115  Sum_probs=63.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHH-HhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAM-VQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~Dl  193 (284)
                      .++.++||||+.....   ...   ..+..   .+++++++|+....+-.. +..++..+... ...+.|+++|.||+|+
T Consensus        69 ~~l~i~Dt~G~~~~~~---~~~---~~~~~---~d~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~~~piilv~NK~Dl  138 (198)
T 1f6b_A           69 MTFTTFDLGGHIQARR---VWK---NYLPA---INGIVFLVDCADHERLLE-SKEELDSLMTDETIANVPILILGNKIDR  138 (198)
T ss_dssp             EEEEEEEECC----CC---GGG---GGGGG---CSEEEEEEETTCGGGHHH-HHHHHHHHHTCGGGTTSCEEEEEECTTS
T ss_pred             EEEEEEECCCcHhhHH---HHH---HHHhc---CCEEEEEEECCCHHHHHH-HHHHHHHHHhCcccCCCcEEEEEECCCc
Confidence            4678999999764211   000   11222   367999999864332222 22222221111 1247899999999998


Q ss_pred             ccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc--cCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE--YSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~--~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ....  .++.+++..        ..... ...       ...+.+  .....++++||++|+|++++++.|.+.+
T Consensus       139 ~~~~~~~~~~~~~~~--------~~~~~-~~~-------~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          139 PEAISEERLREMFGL--------YGQTT-GKG-------SVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  197 (198)
T ss_dssp             TTCCCHHHHHHHHTC--------TTTCC-CSS-------CCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             cccCCHHHHHHHhCc--------ccccc-ccc-------ccccccccCceEEEEEEECCCCCCHHHHHHHHHHhc
Confidence            6411  012111110        00000 000       000000  1235799999999999999999987654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.18  E-value=2.9e-10  Score=106.10  Aligned_cols=118  Identities=15%  Similarity=0.263  Sum_probs=70.2

Q ss_pred             CCEEEEeCCCCccccccc-chHH-HHHHHHHhcCCCeEEEEEecCCCCC--CHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHV-PVLR-NFVDHLKSRNFNVCAVYLLDSQFIT--DVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~-~~~~-~l~~~l~~~d~~~vil~LiDa~~~~--~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      .++.++||||+.+...+. ..+. +.+..+.  ...+++++++|+....  +... ...++..+..... ++|+++|+||
T Consensus       214 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~--~~ad~illV~D~s~~~~~~~~~-~~~~~~~i~~~~~-~~piilV~NK  289 (357)
T 2e87_A          214 FRYQIIDTPGLLDRPISERNEIEKQAILALR--YLGNLIIYIFDPSEHCGFPLEE-QIHLFEEVHGEFK-DLPFLVVINK  289 (357)
T ss_dssp             EEEEEEECTTTSSSCSTTSCHHHHHHHHGGG--GTCSEEEEEECTTCTTSSCHHH-HHHHHHHHHHHTT-TSCEEEEECC
T ss_pred             ceEEEEeCCCccccchhhhhHHHHHHHHHHH--hcCCEEEEEEeCCccccCCHHH-HHHHHHHHHHhcC-CCCEEEEEEC
Confidence            367999999987632221 1111 1111221  2246899999976432  3332 2223222222222 7999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+.... ++.+..                           +.+... ...++++||++|+|+++|++.|.+.+.
T Consensus       290 ~Dl~~~~-~~~~~~---------------------------~~~~~~-~~~~~~iSA~~g~gi~~l~~~i~~~l~  335 (357)
T 2e87_A          290 IDVADEE-NIKRLE---------------------------KFVKEK-GLNPIKISALKGTGIDLVKEEIIKTLR  335 (357)
T ss_dssp             TTTCCHH-HHHHHH---------------------------HHHHHT-TCCCEECBTTTTBTHHHHHHHHHHHHH
T ss_pred             cccCChH-HHHHHH---------------------------HHHHhc-CCCeEEEeCCCCcCHHHHHHHHHHHHH
Confidence            9987543 322111                           111222 257899999999999999999988764

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.18  E-value=4.4e-11  Score=102.95  Aligned_cols=115  Identities=11%  Similarity=0.151  Sum_probs=71.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+......   ..   ..+..   .+++++++|+..   +..+  +..++..+.... .+.|+++|+||+|
T Consensus        64 ~~~~i~Dt~G~~~~~~~---~~---~~~~~---~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~D  130 (221)
T 3gj0_A           64 IKFNVWDTAGQEKFGGL---RD---GYYIQ---AQCAIIMFDVTS---RVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVD  130 (221)
T ss_dssp             EEEEEEEECSGGGTSCC---CH---HHHTT---CCEEEEEEETTC---HHHHHTHHHHHHHHHHHS-TTCCEEEEEECTT
T ss_pred             EEEEEEeCCChHHHhHH---HH---HHHhc---CCEEEEEEECCC---HHHHHHHHHHHHHHHHhC-CCCCEEEEEECCc
Confidence            46899999997542211   11   12322   467899999864   3332  223333222221 3789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~  271 (284)
                      +.... .......                           +....+ ..++++||++|.|+++++..|.+.+...+...
T Consensus       131 l~~~~-~~~~~~~---------------------------~~~~~~-~~~~~~Sa~~~~gi~~l~~~l~~~l~~~~~~~  180 (221)
T 3gj0_A          131 IKDRK-VKAKSIV---------------------------FHRKKN-LQYYDISAKSNYNFEKPFLWLARKLIGDPNLE  180 (221)
T ss_dssp             SSSCS-SCGGGCC---------------------------HHHHHT-CEEEECBGGGTBTTTHHHHHHHHHHHTCTTCC
T ss_pred             ccccc-ccHHHHH---------------------------HHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHHhCcccc
Confidence            86543 2111111                           001122 58999999999999999999999887766544

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=99.18  E-value=1.4e-10  Score=109.57  Aligned_cols=43  Identities=12%  Similarity=0.143  Sum_probs=36.6

Q ss_pred             cCceEEEEEC-CC-CcHHHHHHHHHHHHH------hcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFS-PP-PNQSTYCSSLYRHCE------TVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG-~~-sGKTT~~~~La~~l~------~~g~~v~iVdLDPq~~   59 (284)
                      .+++.|.|++ .| +||||++.|||.+|+      ..|+||++||+|||++
T Consensus       106 ~~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q~~  156 (398)
T 3ez2_A          106 SEAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQSS  156 (398)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTTCH
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCCC
Confidence            4566666664 46 999999999999999      4799999999999986

>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=99.17  E-value=4.4e-10  Score=94.40  Aligned_cols=110  Identities=11%  Similarity=0.111  Sum_probs=64.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh---cCCCEEEEec
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ---LELPHVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~---~~~p~IlVlN  189 (284)
                      ..+.++||||+....   ..    ...+..   .+++++++|..   ++..+  +..++..+.....   .+.|+++|.|
T Consensus        69 ~~l~i~Dt~G~~~~~---~~----~~~~~~---~~~~ilv~d~~---~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~n  135 (187)
T 3c5c_A           69 VHLRVMDTADLDTPR---NC----ERYLNW---AHAFLVVYSVD---SRQSFDSSSSYLELLALHAKETQRSIPALLLGN  135 (187)
T ss_dssp             EEEEEEECCC---CC---CT----HHHHTT---CSEEEEEEETT---CHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEE
T ss_pred             EEEEEEECCCCCcch---hH----HHHHhh---CCEEEEEEECC---CHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEE
Confidence            367899999976421   11    123333   35788888886   33333  3333333333222   4799999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEec-cCcccHHHHHHHHHHhc
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDL-RKESSIRYVLSQIDNCI  264 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa-~~~~~l~~Ll~~I~~~l  264 (284)
                      |+|+...+ .+..-                         ...++...++ ..++++|| ++|+|++++++.|.+.+
T Consensus       136 K~Dl~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~e~Sa~~~g~gv~~lf~~l~~~i  184 (187)
T 3c5c_A          136 KLDMAQYR-QVTKA-------------------------EGVALAGRFG-CLFFEVSACLDFEHVQHVFHEAVREA  184 (187)
T ss_dssp             CGGGGGGC-SSCHH-------------------------HHHHHHHHHT-CEEEECCSSSCSHHHHHHHHHHHHHH
T ss_pred             CcchhhcC-ccCHH-------------------------HHHHHHHHcC-CcEEEEeecCccccHHHHHHHHHHHH
Confidence            99986432 11000                         0011122334 48999999 89999999999988765

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.17  E-value=2.5e-10  Score=95.76  Aligned_cols=123  Identities=13%  Similarity=0.111  Sum_probs=68.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH--H-HHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI--S-GCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i--~-~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||+.....       +...  .....+++++++|+..   +..+-  . .++..+... ..+.|+++|.||+
T Consensus        66 ~~~~i~D~~G~~~~~~-------~~~~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~  132 (194)
T 2atx_A           66 YLLGLYDTAGQEDYDR-------LRPL--SYPMTDVFLICFSVVN---PASFQNVKEEWVPELKEY-APNVPFLLIGTQI  132 (194)
T ss_dssp             EEEEEECCCCSSSSTT-------TGGG--GCTTCSEEEEEEETTC---HHHHHHHHHTHHHHHHHH-STTCCEEEEEECT
T ss_pred             EEEEEEECCCCcchhH-------HHHH--hcCCCCEEEEEEECCC---HHHHHHHHHHHHHHHHHh-CCCCCEEEEEECh
Confidence            3678999999765221       1011  1122468999999863   33331  1 222222211 1278999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ...+.+..        ...... .    .....++...++...++++||++|.|++++++.|.+.+
T Consensus       133 Dl~~~~-~~~~~~~~--------~~~~~v-~----~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i  191 (194)
T 2atx_A          133 DLRDDP-KTLARLND--------MKEKPI-C----VEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI  191 (194)
T ss_dssp             TSTTCH-HHHHHHTT--------TTCCCC-C----HHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             hhcccc-cchhhccc--------ccCccc-C----HHHHHHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHH
Confidence            997643 22111100        000000 0    00112233445666899999999999999999987764

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.17  E-value=2.4e-10  Score=97.12  Aligned_cols=113  Identities=19%  Similarity=0.188  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK  190 (284)
                      .++.+.||||+....   .   .+.+. +..   .+++++++|..   ++..|  +..++..+..... .+.|+++|.||
T Consensus        72 ~~l~i~Dt~g~~~~~---~---~~~~~~~~~---~d~~ilv~d~~---~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK  139 (195)
T 3cbq_A           72 VTLVVYDIWEQGDAG---G---WLRDHCLQT---GDAFLIVFSVT---DRRSFSKVPETLLRLRAGRPHHDLPVILVGNK  139 (195)
T ss_dssp             EEEEEECCCCCSGGG---H---HHHHHHHHH---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHSTTSCCCEEEEEEC
T ss_pred             EEEEEEecCCCccch---h---hhHHHhhcc---CCEEEEEEECC---CHHHHHHHHHHHHHHHHhcCCCCCCEEEEeec
Confidence            357889999986421   1   12222 333   35788899986   33333  3333332222211 37899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +|+...+ .+. .     +    +        .       .++...++ ..++++||++|.|++++++.|.+.+..
T Consensus       140 ~Dl~~~~-~v~-~-----~----~--------~-------~~~a~~~~-~~~~e~Sa~~~~~v~~lf~~l~~~i~~  188 (195)
T 3cbq_A          140 SDLARSR-EVS-L-----E----E--------G-------RHLAGTLS-CKHIETSAALHHNTRELFEGAVRQIRL  188 (195)
T ss_dssp             TTCTTTC-CSC-H-----H----H--------H-------HHHHHHTT-CEEEEEBTTTTBSHHHHHHHHHHHHHT
T ss_pred             hhccccC-CcC-H-----H----H--------H-------HHHHHHhC-CEEEEEcCCCCCCHHHHHHHHHHHHHH
Confidence            9986533 110 0     0    0        0       11112334 589999999999999999999887643

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.17  E-value=5.3e-11  Score=110.14  Aligned_cols=120  Identities=13%  Similarity=0.074  Sum_probs=66.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.|+||||+....   ...   ...+..   .+++++++|+....+.......+...+......+.|+++|+||+|+
T Consensus       208 ~~~l~i~Dt~G~~~~~---~~~---~~~~~~---ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl  278 (329)
T 3o47_A          208 NISFTVWDVGGQDKIR---PLW---RHYFQN---TQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDL  278 (329)
T ss_dssp             TEEEEEEECC-----C---CSH---HHHHTT---EEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             cEEEEEEECCCCHhHH---HHH---HHHhcc---CCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccC
Confidence            3478999999965422   111   112322   4789999999755443332211111111111237899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .... ...++.        ..+..               .........++++||++|.|+++|++.|.+.+..
T Consensus       279 ~~~~-~~~~i~--------~~~~~---------------~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          279 PNAM-NAAEIT--------DKLGL---------------HSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             TTCC-CHHHHH--------HHHTC---------------TTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHTC
T ss_pred             Cccc-CHHHHH--------HHhch---------------hhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            7543 222211        11100               0001123579999999999999999999887653

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.17  E-value=1.2e-10  Score=98.31  Aligned_cols=123  Identities=12%  Similarity=0.074  Sum_probs=68.4

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH--H-HHHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI--S-GCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i--~-~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .+.++||||+........      ..+.   ..+++++++|+..   +..+-  . .++..+... ..+.|+++|.||+|
T Consensus        69 ~~~i~Dt~G~~~~~~~~~------~~~~---~~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~-~~~~p~ilv~nK~D  135 (201)
T 2q3h_A           69 RLQLCDTAGQDEFDKLRP------LCYT---NTDIFLLCFSVVS---PSSFQNVSEKWVPEIRCH-CPKAPIILVGTQSD  135 (201)
T ss_dssp             EEEEEECCCSTTCSSSGG------GGGT---TCSEEEEEEETTC---HHHHHHHHHTHHHHHHHH-CSSSCEEEEEECGG
T ss_pred             EEEEEECCCCHHHHHHhH------hhcC---CCcEEEEEEECCC---HHHHHHHHHHHHHHHHHh-CCCCCEEEEEECHh
Confidence            567999999865321111      0122   2468999999863   33331  1 232222221 12789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.........+.+..        .....      .....++...++...++++||++|.|++++++.|.+.+.
T Consensus       136 l~~~~~~~~~~~~~~--------~~~v~------~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  194 (201)
T 2q3h_A          136 LREDVKVLIELDKCK--------EKPVP------EEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGI  194 (201)
T ss_dssp             GGGCHHHHHHHHTTT--------CCCCC------HHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhhchhhhhhhcccc--------cccCC------HHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHh
Confidence            975431111110000        00000      001112223455668999999999999999998887653

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.17  E-value=5.4e-10  Score=107.15  Aligned_cols=120  Identities=15%  Similarity=0.144  Sum_probs=70.4

Q ss_pred             CCEEEEeCCCCccccccc-c-----hHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEE
Q 023298          115 DDYLVFDCPGQIELFTHV-P-----VLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNI  187 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~-~-----~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlV  187 (284)
                      .++.++||||+....... .     ........+..   .+++++++|+....+..+ .+.      ..+...++|+++|
T Consensus       228 ~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~---ad~vllv~d~~~~~~~~~~~i~------~~l~~~~~~~ilv  298 (439)
T 1mky_A          228 RKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEK---ADVVVIVLDATQGITRQDQRMA------GLMERRGRASVVV  298 (439)
T ss_dssp             EEEEESSCSCC-----------CCSCCHHHHHHHHH---CSEEEEEEETTTCCCHHHHHHH------HHHHHTTCEEEEE
T ss_pred             EEEEEEECCCCccccccchhhHHHHHHHHHHHHHhh---CCEEEEEEeCCCCCCHHHHHHH------HHHHHcCCCEEEE
Confidence            367889999973211000 0     00111233433   367889999875433332 122      2234578999999


Q ss_pred             ecCCccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          188 LSKMDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       188 lNK~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +||+|+..+.. ...++                       ...+.+.+...+...++++||++|.|+++|++.|.+.+..
T Consensus       299 ~NK~Dl~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~  355 (439)
T 1mky_A          299 FNKWDLVVHREKRYDEF-----------------------TKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYAS  355 (439)
T ss_dssp             EECGGGSTTGGGCHHHH-----------------------HHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             EECccCCCchhhHHHHH-----------------------HHHHHHHhccCCCCcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            99999975330 01111                       1112223334456789999999999999999999877643

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.16  E-value=2.1e-10  Score=98.80  Aligned_cols=129  Identities=8%  Similarity=-0.020  Sum_probs=71.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+......       ...  .....+++++++|+....+....+..++..+... ..+.|+++|.||+|+.
T Consensus        75 ~~l~i~Dt~G~~~~~~~-------~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~  144 (214)
T 3q3j_B           75 VELSLWDTSGSPYYDNV-------RPL--CYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-CPSTRVLLIGCKTDLR  144 (214)
T ss_dssp             EEEEEEEECCSGGGTTT-------GGG--GCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHH-CTTSEEEEEEECGGGG
T ss_pred             EEEEEEECCCCHhHHHH-------HHH--HcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhhc
Confidence            46789999997642211       111  1122468999999874322222122333322222 2378999999999997


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCccc-HHHHHHHHHHhcCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESS-IRYVLSQIDNCIQWG  267 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~-l~~Ll~~I~~~l~~g  267 (284)
                      .+........+        .-.....      .....++...++...++++||++|.| ++++++.|.+.+...
T Consensus       145 ~~~~~~~~~~~--------~~~~~v~------~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~  204 (214)
T 3q3j_B          145 TDLSTLMELSH--------QKQAPIS------YEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNK  204 (214)
T ss_dssp             GCHHHHHHHHH--------TTCCCCC------HHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC-
T ss_pred             cchhhhhhhcc--------cccCccC------HHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhcc
Confidence            53211111000        0000000      00112333455666899999999998 999999998876543

>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=99.16  E-value=1.8e-10  Score=96.16  Aligned_cols=123  Identities=10%  Similarity=0.034  Sum_probs=68.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH---HHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI---SGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i---~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++.++||||+......       ...  .....+++++++|+..   +..+-   ..++..+... ..+.|+++|.||+
T Consensus        55 ~~~~i~Dt~G~~~~~~~-------~~~--~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~  121 (184)
T 1m7b_A           55 IELSLWDTSGSPYYDNV-------RPL--SYPDSDAVLICFDISR---PETLDSVLKKWKGEIQEF-CPNTKMLLVGCKS  121 (184)
T ss_dssp             EEEEEEEECCSGGGTTT-------GGG--GCTTCSEEEEEEETTC---HHHHHHHHHTHHHHHHHH-CTTCEEEEEEECG
T ss_pred             EEEEEEECCCChhhhhh-------HHh--hcCCCcEEEEEEECCC---HHHHHHHHHHHHHHHHHH-CCCCCEEEEEEcc
Confidence            36789999997542111       011  1122467899999863   33331   2232222221 1378999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEecc-CcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLR-KESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~-~~~~l~~Ll~~I~~~l  264 (284)
                      |+..+...+.++.+.        ......      .....++...++...++++||+ ++.|++++++.|.+.+
T Consensus       122 Dl~~~~~~~~~~~~~--------~~~~v~------~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~  181 (184)
T 1m7b_A          122 DLRTDVSTLVELSNH--------RQTPVS------YDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC  181 (184)
T ss_dssp             GGGGCHHHHHHHHTT--------TCCCCC------HHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHH
T ss_pred             hhhcchhhHhhhhhc--------ccCCCC------HHHHHHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHH
Confidence            997533111111100        000000      0011223344556789999998 6999999999887653

>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=99.16  E-value=1.8e-10  Score=110.56  Aligned_cols=152  Identities=12%  Similarity=-0.005  Sum_probs=82.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEH   96 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~   96 (284)
                      ++.+++++|++ |||||++.+||.+++..|++|+++|+|++......       .+-.+.+. .+..+.|.+.-....+.
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~-------qL~~~~~~-~gv~v~~~~~~~~p~~i  168 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAARE-------QLRLLGEK-VGVPVLEVMDGESPESI  168 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHH-------HHHHHHHH-HTCCEEECCTTCCHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHH-------HHHHhccc-CCccEEecCCCCCHHHH
Confidence            67789999999 99999999999999999999999999998753210       00000100 01122222110000111


Q ss_pred             hhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHH
Q 023298           97 LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSA  176 (284)
Q Consensus        97 ~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~  176 (284)
                      +.    +.+. .+.. .++++|||||||....  .......+....... .++-+++++|+...   .+.+..    +..
T Consensus       169 ~~----~~l~-~~~~-~~~DvVIIDTaG~l~~--d~~l~~el~~i~~~~-~pd~vlLVvDa~tg---q~av~~----a~~  232 (425)
T 2ffh_A          169 RR----RVEE-KARL-EARDLILVDTAGRLQI--DEPLMGELARLKEVL-GPDEVLLVLDAMTG---QEALSV----ARA  232 (425)
T ss_dssp             HH----HHHH-HHHH-TTCSEEEEECCCCSSC--CHHHHHHHHHHHHHH-CCSEEEEEEEGGGT---THHHHH----HHH
T ss_pred             HH----HHHH-HHHH-CCCCEEEEcCCCcccc--cHHHHHHHHHhhhcc-CCceEEEEEeccch---HHHHHH----HHH
Confidence            11    1111 2211 1679999999998753  112222222211111 23557889998532   222211    111


Q ss_pred             HH-hcCCCEEEEecCCccc
Q 023298          177 MV-QLELPHVNILSKMDLV  194 (284)
Q Consensus       177 ~~-~~~~p~IlVlNK~Dll  194 (284)
                      +. ..+ ..-+|+||+|..
T Consensus       233 f~~~l~-i~GVIlTKlD~~  250 (425)
T 2ffh_A          233 FDEKVG-VTGLVLTKLDGD  250 (425)
T ss_dssp             HHHHTC-CCEEEEESGGGC
T ss_pred             HHhcCC-ceEEEEeCcCCc
Confidence            21 222 356799999974

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.16  E-value=5.6e-11  Score=106.81  Aligned_cols=88  Identities=9%  Similarity=0.248  Sum_probs=45.0

Q ss_pred             eEEEEEecCCC-CCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHH
Q 023298          149 VCAVYLLDSQF-ITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLN  227 (284)
Q Consensus       149 ~vil~LiDa~~-~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~  227 (284)
                      ++++|+++... ...+.+.-  +   +..+.. ++|+|+|+||+|++... ++..+.+                      
T Consensus       117 ~~~l~~i~~~~~~~~~~d~~--~---l~~l~~-~~pvi~V~nK~D~~~~~-e~~~~~~----------------------  167 (274)
T 3t5d_A          117 QCCLYFIAPSGHGLKPLDIE--F---MKRLHE-KVNIIPLIAKADTLTPE-ECQQFKK----------------------  167 (274)
T ss_dssp             CEEEEEECSCCSSCCHHHHH--H---HHHHTT-TSCEEEEESSGGGSCHH-HHHHHHH----------------------
T ss_pred             eEEEEEecCCCCCCCHHHHH--H---HHHHhc-cCCEEEEEeccCCCCHH-HHHHHHH----------------------
Confidence            36777775543 33333321  1   112223 79999999999997644 4433321                      


Q ss_pred             HHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          228 KSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       228 ~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                       .+.+.+...+ ..++++||.+++|+.++.+.|.+.+|..
T Consensus       168 -~i~~~l~~~~-i~v~~~sa~~~~~~~~l~~~l~~~~p~~  205 (274)
T 3t5d_A          168 -QIMKEIQEHK-IKIYEFPETDDEEENKLVKKIKDRLPLA  205 (274)
T ss_dssp             -HHHHHHHHTT-CCCCCC-----------CHHHHHTCSEE
T ss_pred             -HHHHHHHHcC-CeEEcCCCCCChhHHHHHHHHhcCCCcE
Confidence             1223333343 5688999999999999999999998863

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.16  E-value=7.8e-11  Score=120.18  Aligned_cols=124  Identities=10%  Similarity=0.118  Sum_probs=78.5

Q ss_pred             CCCEEEEeCCCCcccccc-------cchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHH-HHHHHHHHHHHHHhcCCCE
Q 023298          114 DDDYLVFDCPGQIELFTH-------VPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTK-FISGCMASLSAMVQLELPH  184 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~-------~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~-~i~~~l~~l~~~~~~~~p~  184 (284)
                      ..+++|+||||.......       ......+.+.+.  ..++++++++|+... ...+. .+.      ..+...+.|+
T Consensus       149 ~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~--~~aDlIL~VVDAs~~~~~~d~l~ll------~~L~~~g~pv  220 (772)
T 3zvr_A          149 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVT--KENCLILAVSPANSDLANSDALKIA------KEVDPQGQRT  220 (772)
T ss_dssp             CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHT--STTEEEEEEEETTSCSSSCHHHHHH------HHHCTTCSSE
T ss_pred             CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHh--cCCcEEEEEEcCCCCcchhHHHHHH------HHHHhcCCCE
Confidence            357999999998763211       112222233332  335789999999754 33332 232      2334568999


Q ss_pred             EEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHH-hccCCceEEEEeccCcccHHHHHHHHHH-
Q 023298          185 VNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELV-DEYSMVSFMPLDLRKESSIRYVLSQIDN-  262 (284)
Q Consensus       185 IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l-~~~~~~~~ipiSa~~~~~l~~Ll~~I~~-  262 (284)
                      |+|+||+|++.+......+..          +               +.. ...++..++|+||++|.|++.|++.|.+ 
T Consensus       221 IlVlNKiDlv~~~~~~~~il~----------~---------------~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          221 IGVITKLDLMDEGTDARDVLE----------N---------------KLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             EEEEECTTSSCTTCCSHHHHT----------T---------------CSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             EEEEeCcccCCcchhhHHHHH----------H---------------HhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            999999999865411111110          0               000 1135678999999999999999999987 


Q ss_pred             --hcCCCCCC
Q 023298          263 --CIQWGEDA  270 (284)
Q Consensus       263 --~l~~g~d~  270 (284)
                        .+++|+..
T Consensus       276 ~~ffpe~P~y  285 (772)
T 3zvr_A          276 RKFFLSHPSY  285 (772)
T ss_dssp             HHHHHHCTTT
T ss_pred             HHhccCCcch
Confidence              58888765

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.15  E-value=6.9e-11  Score=101.15  Aligned_cols=113  Identities=18%  Similarity=0.271  Sum_probs=67.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlN  189 (284)
                      ..++.++||||+..       ...+.. .+..   .+++++++|+..   +..+  +..++..+..... .+.|+++|+|
T Consensus        83 ~~~l~l~Dt~G~~~-------~~~~~~~~~~~---~d~iilV~D~~~---~~s~~~~~~~l~~i~~~~~~~~~piilV~N  149 (217)
T 2f7s_A           83 KVHLQLWDTAGQER-------FRSLTTAFFRD---AMGFLLMFDLTS---QQSFLNVRNWMSQLQANAYCENPDIVLIGN  149 (217)
T ss_dssp             EEEEEEEEEESHHH-------HHHHHHHHHTT---CCEEEEEEETTC---HHHHHHHHHHHHTCCCCCTTTCCEEEEEEE
T ss_pred             eEEEEEEECCCcHh-------HHhHHHHHhcC---CCEEEEEEECcC---HHHHHHHHHHHHHHHHhcCcCCCCEEEEEE
Confidence            34789999999543       111222 2322   468999999863   3332  2222221111111 4689999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+|+.... .+...                         .+.++...++ ..++++||+++.|++++++.|.+.+..
T Consensus       150 K~Dl~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~~~Sa~~g~gi~~l~~~l~~~i~~  199 (217)
T 2f7s_A          150 KADLPDQR-EVNER-------------------------QARELADKYG-IPYFETSAATGQNVEKAVETLLDLIMK  199 (217)
T ss_dssp             CTTCGGGC-CSCHH-------------------------HHHHHHHHTT-CCEEEEBTTTTBTHHHHHHHHHHHHHH
T ss_pred             CCcccccc-ccCHH-------------------------HHHHHHHHCC-CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            99986532 11100                         0011122333 479999999999999999998877543

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.15  E-value=1.9e-10  Score=99.21  Aligned_cols=176  Identities=13%  Similarity=0.155  Sum_probs=100.1

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCc----ccCchhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGL----GPNGGLIY   92 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~l----gPng~l~~   92 (284)
                      ++..++|+|.+ |||||++.+|+..+... .++.+|+.|++.+       +|...       ++..+.    ..+|.. .
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~-~~~~~i~~d~~~~-------~d~~~-------~~~~~~~~~~~~~~~~-~  100 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDK-YKIACIAGDVIAK-------FDAER-------MEKHGAKVVPLNTGKE-C  100 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTT-CCEEEEEEETTTH-------HHHHH-------HHTTTCEEEEEECTTC-S
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccC-CeEEEEECCCCCC-------ccHHH-------HHhcCCcEEEecCCce-E
Confidence            45668999999 99999999999987655 7899999998732       11100       000000    011211 1


Q ss_pred             hhHhhhhcHHHHHHHHhhcc--CCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHH
Q 023298           93 CMEHLEDNLDDWLAEELDNY--LDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISG  169 (284)
Q Consensus        93 ~~e~~~~~~~~~l~~~l~~~--~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~  169 (284)
                      ++.     . ..+.+.+...  .+.+++++||+|.+.....          +...  ....+.++|+... ..+..+.  
T Consensus       101 ~l~-----~-~~~~~~~~~l~~~~~d~~~id~~g~i~~~~s----------~~~~--~~~~~~v~~~~~~~~~~~~~~--  160 (226)
T 2hf9_A          101 HLD-----A-HLVGHALEDLNLDEIDLLFIENVGNLICPAD----------FDLG--THKRIVVISTTEGDDTIEKHP--  160 (226)
T ss_dssp             SCC-----H-HHHHHHHTTSCGGGCSEEEEECCSCSSGGGG----------CCCS--CSEEEEEEEGGGCTTTTTTCH--
T ss_pred             ecc-----H-HHHHHHHHHHhcCCCCEEEEeCCCCccCcch----------hhhc--cCcEEEEEecCcchhhHhhhh--
Confidence            111     0 0012233222  1558999999996542110          1111  2345667775322 1222111  


Q ss_pred             HHHHHHHHHhcCCCEEEEecCCccccchh-hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEec
Q 023298          170 CMASLSAMVQLELPHVNILSKMDLVTNKK-EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDL  247 (284)
Q Consensus       170 ~l~~l~~~~~~~~p~IlVlNK~Dll~~~~-~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa  247 (284)
                              ...+.|.++|+||+|+..... ...+.                           .+.+..++ ...++++||
T Consensus       161 --------~~~~~~~iiv~NK~Dl~~~~~~~~~~~---------------------------~~~~~~~~~~~~~~~~Sa  205 (226)
T 2hf9_A          161 --------GIMKTADLIVINKIDLADAVGADIKKM---------------------------ENDAKRINPDAEVVLLSL  205 (226)
T ss_dssp             --------HHHTTCSEEEEECGGGHHHHTCCHHHH---------------------------HHHHHHHCTTSEEEECCT
T ss_pred             --------hHhhcCCEEEEeccccCchhHHHHHHH---------------------------HHHHHHhCCCCeEEEEEe
Confidence                    013689999999999864220 11111                           11112222 368999999


Q ss_pred             cCcccHHHHHHHHHHhc
Q 023298          248 RKESSIRYVLSQIDNCI  264 (284)
Q Consensus       248 ~~~~~l~~Ll~~I~~~l  264 (284)
                      ++|.|+++|++.|.+.+
T Consensus       206 ~~g~gv~~l~~~l~~~~  222 (226)
T 2hf9_A          206 KTMEGFDKVLEFIEKSV  222 (226)
T ss_dssp             TTCTTHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHH
Confidence            99999999999988765

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=99.15  E-value=1.9e-09  Score=100.28  Aligned_cols=42  Identities=26%  Similarity=0.252  Sum_probs=39.2

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +++++++-|.| +||||++.+||.++++.|+||++||+|||.+
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid~D~~~~   57 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLSTDPAHN   57 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEECCSSCH
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEECCCCCC
Confidence            46778888999 9999999999999999999999999999987

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.14  E-value=1.3e-10  Score=112.91  Aligned_cols=105  Identities=14%  Similarity=0.216  Sum_probs=60.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-------CHHHHHHHHHHHHHHHHhcC-CCEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-------DVTKFISGCMASLSAMVQLE-LPHV  185 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-------~~~~~i~~~l~~l~~~~~~~-~p~I  185 (284)
                      +.++.|+||||+..      ....+...+..   .+++++++|+....       .+...  ..   +......+ .|.|
T Consensus       110 ~~~~~iiDTPG~~~------f~~~~~~~~~~---aD~~llVvDa~~g~~~~~~~~~~qt~--e~---~~~~~~~~~~~iI  175 (483)
T 3p26_A          110 RANFTIVDAPGHRD------FVPNAIMGISQ---ADMAILCVDCSTNAFESGFDLDGQTK--EH---MLLASSLGIHNLI  175 (483)
T ss_dssp             SCEEEEECCCCCGG------GHHHHHHHHTT---CSEEEEEEECCC------CCCCHHHH--HH---HHHHHHTTCCCEE
T ss_pred             CceEEEEECCCcHH------HHHHHHHhhhh---CCEEEEEEECCCCccccccchhhhHH--HH---HHHHHHcCCCcEE
Confidence            56899999999744      23334444433   47899999997531       11111  11   11222345 4699


Q ss_pred             EEecCCccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC----CceEEEEeccCcccHHH
Q 023298          186 NILSKMDLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS----MVSFMPLDLRKESSIRY  255 (284)
Q Consensus       186 lVlNK~Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~----~~~~ipiSa~~~~~l~~  255 (284)
                      +|+||+|+.... ...++.                       ...+.+++...+    ...|+|+||++|+|+.+
T Consensus       176 vviNK~Dl~~~~~~~~~~i-----------------------~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          176 IAMNKMDNVDWSQQRFEEI-----------------------KSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             EEEECGGGGTTCHHHHHHH-----------------------HHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             EEEECcCcccchHHHHHHH-----------------------HHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            999999997522 011111                       112223333333    35799999999999873

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.14  E-value=1.8e-10  Score=103.54  Aligned_cols=119  Identities=9%  Similarity=0.111  Sum_probs=67.6

Q ss_pred             CCEEEEeCCCCccccc---ccc---hHHHH-HHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEE
Q 023298          115 DDYLVFDCPGQIELFT---HVP---VLRNF-VDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNI  187 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~---~~~---~~~~l-~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlV  187 (284)
                      .++.++||||+.....   ...   ....+ ...+..  ...++++++|+..-....+.. .+   +..+...+.|+++|
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~il~v~d~~~~~~~~~~~-~~---~~~~~~~~~~~i~V  198 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTK--ENCLILAVSPANSDLANSDAL-KI---AKEVDPQGQRTIGV  198 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTS--TTEEEEEEEESSSCGGGCHHH-HH---HHHHCTTCSSEEEE
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcC--CCeEEEEEecCCcchhhhHHH-HH---HHHhCCCCCeEEEE
Confidence            6899999999864221   111   11222 233332  235666899986532222211 11   12233467899999


Q ss_pred             ecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          188 LSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       188 lNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +||+|+..+.....+.++.       .+.                 ....++..++++||++|.|+++|++.|.+.
T Consensus       199 ~NK~Dl~~~~~~~~~~~~~-------~~~-----------------~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          199 ITKLDLMDEGTDARDVLEN-------KLL-----------------PLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             EECGGGSCTTCCCHHHHTT-------CSS-----------------CCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             EEccccCCCCchHHHHHhC-------CcC-----------------cCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            9999997644112222110       000                 001134578999999999999999988763

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.14  E-value=1.7e-10  Score=97.25  Aligned_cols=110  Identities=13%  Similarity=0.163  Sum_probs=57.9

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh---cCCCEEEEecC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ---LELPHVNILSK  190 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~---~~~p~IlVlNK  190 (284)
                      .+.++||||+...       ..+...  .....+++++++|+..   +..+  +..++..+.....   .+.|+++|+||
T Consensus        74 ~~~l~Dt~G~~~~-------~~~~~~--~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK  141 (208)
T 2yc2_C           74 ELFLLDTAGSDLY-------KEQISQ--YWNGVYYAILVFDVSS---MESFESCKAWFELLKSARPDRERPLRAVLVANK  141 (208)
T ss_dssp             EEEEEETTTTHHH-------HHHHST--TCCCCCEEEEEEETTC---HHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEEC
T ss_pred             EEEEEECCCcHHH-------HHHHHH--HHhhCcEEEEEEECCC---HHHHHHHHHHHHHHHHhhcccccCCcEEEEEEC
Confidence            6899999997531       111111  1233578999999863   3332  3334333333222   47899999999


Q ss_pred             Ccccc-chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccC-cccHHHHHHHHHHhc
Q 023298          191 MDLVT-NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRK-ESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~-~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~-~~~l~~Ll~~I~~~l  264 (284)
                      +|+.. .. .+..      +                   .+.++...++ ..++++||++ |.|++++++.|.+.+
T Consensus       142 ~Dl~~~~~-~v~~------~-------------------~~~~~~~~~~-~~~~~~Sa~~~~~gi~~l~~~i~~~~  190 (208)
T 2yc2_C          142 TDLPPQRH-QVRL------D-------------------MAQDWATTNT-LDFFDVSANPPGKDADAPFLSIATTF  190 (208)
T ss_dssp             C--------CCCH------H-------------------HHHHHHHHTT-CEEEECCC-------CHHHHHHHHHH
T ss_pred             cccchhhc-cCCH------H-------------------HHHHHHHHcC-CEEEEeccCCCCcCHHHHHHHHHHHH
Confidence            99865 22 1110      0                   0012223344 5899999999 999999999888765

>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=99.14  E-value=2.5e-10  Score=97.88  Aligned_cols=125  Identities=10%  Similarity=0.064  Sum_probs=67.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+.....       +...  .....+++++++|+....+.......++..+... ..+.|+++|.||+|+.
T Consensus        76 ~~l~i~Dt~G~~~~~~-------~~~~--~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~  145 (205)
T 1gwn_A           76 IELSLWDTSGSPYYDN-------VRPL--SYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGCKSDLR  145 (205)
T ss_dssp             EEEEEEEECCSGGGTT-------TGGG--GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCEEEEEEECGGGG
T ss_pred             EEEEEEeCCCcHhhhH-------HHHh--hccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHH-CCCCCEEEEEechhhc
Confidence            3689999999754211       1111  1122467999999863221111112233222221 1378999999999997


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEecc-CcccHHHHHHHHHHh
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLR-KESSIRYVLSQIDNC  263 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~-~~~~l~~Ll~~I~~~  263 (284)
                      .+...+.++.+..        .....      .....++...++...++++||+ ++.|++++++.|.+.
T Consensus       146 ~~~~~~~~~~~~~--------~~~v~------~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~  201 (205)
T 1gwn_A          146 TDVSTLVELSNHR--------QTPVS------YDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLA  201 (205)
T ss_dssp             GCHHHHHHHHTTT--------CCCCC------HHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHH
T ss_pred             cchhhhhhhcccc--------cCCCC------HHHHHHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHH
Confidence            5331221111000        00000      0011222334555789999998 799999999988765

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.13  E-value=5.5e-11  Score=114.08  Aligned_cols=113  Identities=13%  Similarity=0.189  Sum_probs=71.9

Q ss_pred             CEEEEeCCCCcccccc-cchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          116 DYLVFDCPGQIELFTH-VPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~-~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ++.++||||+...-.. .....+....+..   .+++++++|+ .......   .+   +..+...++|+++|+||+|+.
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l~~---aD~vllVvD~-~~~~~~~---~~---l~~l~~~~~piIvV~NK~Dl~  153 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVFYR---ADCGILVTDS-APTPYED---DV---VNLFKEMEIPFVVVVNKIDVL  153 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHHTS---CSEEEEECSS-SCCHHHH---HH---HHHHHHTTCCEEEECCCCTTT
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHHhc---CCEEEEEEeC-CChHHHH---HH---HHHHHhcCCCEEEEEeCcCCC
Confidence            6899999998753211 1112223333433   4689999998 2222222   22   223345689999999999997


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      ... .. +..        +                  ++.+.++ ..++++||++|.|++++++.|.+.++..
T Consensus       154 ~~~-~~-~~~--------~------------------~l~~~~g-~~v~~vSAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          154 GEK-AE-ELK--------G------------------LYESRYE-AKVLLVSALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             TCC-CT-HHH--------H------------------HSSCCTT-CCCCCCSSCCTTSTTTHHHHHHHHSCCC
T ss_pred             Ccc-HH-HHH--------H------------------HHHHHcC-CCEEEEECCCCCCHHHHHHHHHHhhhhh
Confidence            644 21 110        0                  1112233 5899999999999999999999999877

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.13  E-value=2.3e-10  Score=114.46  Aligned_cols=104  Identities=16%  Similarity=0.260  Sum_probs=60.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCC--------CCHHHHHHHHHHHHHHHHhcCCC-
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFI--------TDVTKFISGCMASLSAMVQLELP-  183 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~--------~~~~~~i~~~l~~l~~~~~~~~p-  183 (284)
                      +.++.|+||||+..          +.+.+ ......+++++++|+...        .......      +......+.| 
T Consensus       244 ~~~~~iiDTPG~e~----------f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~------l~~~~~lgi~~  307 (611)
T 3izq_1          244 RANFTIVDAPGHRD----------FVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEH------MLLASSLGIHN  307 (611)
T ss_dssp             SCEEEEEECCSSSC----------HHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHH------HHHHHTTTCCE
T ss_pred             CceEEEEECCCCcc----------cHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHH------HHHHHHcCCCe
Confidence            56899999999744          22222 223346789999999641        1111111      1122345655 


Q ss_pred             EEEEecCCccccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHHHH
Q 023298          184 HVNILSKMDLVTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIRYV  256 (284)
Q Consensus       184 ~IlVlNK~Dll~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~~L  256 (284)
                      +|+|+||+|+.... ......                       ...+.+++...++    ..++|+||++|+|+.++
T Consensus       308 iIVVvNKiDl~~~~~~~~~ei-----------------------~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          308 LIIAMNKMDNVDWSQQRFEEI-----------------------KSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             EEEEEECTTTTTTCHHHHHHH-----------------------HHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             EEEEEecccccchhHHHHHHH-----------------------HHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            89999999997521 011111                       1122333344443    58999999999999843

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.13  E-value=7.5e-11  Score=116.07  Aligned_cols=67  Identities=18%  Similarity=0.212  Sum_probs=44.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.++||||+....      ....+.+..   .+++++++|+......... ++      ......++|+++|+||+|
T Consensus        81 ~~~i~liDTPG~~df~------~~~~~~l~~---aD~allVvDa~~g~~~~t~~~~------~~~~~~~iPiivviNK~D  145 (528)
T 3tr5_A           81 DYLINLLDTPGHADFT------EDTYRTLTA---VDSALMVIDAAKGVEPRTIKLM------EVCRLRHTPIMTFINKMD  145 (528)
T ss_dssp             TEEEEEECCCCSTTCC------HHHHHGGGG---CSEEEEEEETTTCSCHHHHHHH------HHHHTTTCCEEEEEECTT
T ss_pred             CEEEEEEECCCchhHH------HHHHHHHHh---CCEEEEEEeCCCCCCHHHHHHH------HHHHHcCCCEEEEEeCCC
Confidence            4578999999976521      122333433   4689999999865443332 22      233456899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      +..
T Consensus       146 l~~  148 (528)
T 3tr5_A          146 RDT  148 (528)
T ss_dssp             SCC
T ss_pred             Ccc
Confidence            964

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.13  E-value=4.8e-10  Score=97.88  Aligned_cols=113  Identities=12%  Similarity=0.207  Sum_probs=69.2

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .+-|.||+|+-...   .    +.+. +..   .++++++.|..   ++..|  +..++..+......+.|+|+|.||+|
T Consensus        63 ~l~iwDtaGqe~~~---~----l~~~~~~~---a~~~ilv~di~---~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~D  129 (216)
T 4dkx_A           63 RLQLWDTAGLERFR---S----LIPSYIRD---SAAAVVVYDIT---NVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTD  129 (216)
T ss_dssp             EEEEECCSCTTTCG---G----GHHHHHTT---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTT
T ss_pred             EEEEEECCCchhhh---h----HHHHHhcc---ccEEEEEeecc---hhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccc
Confidence            56789999986522   2    2222 222   35677777765   44444  44555544444445789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      +...+ .+..-                  ..       .++..+++ ..|+.+||++|.|++++++.|.+.+..-+
T Consensus       130 l~~~r-~V~~~------------------e~-------~~~a~~~~-~~~~e~SAktg~nV~e~F~~i~~~i~~~~  178 (216)
T 4dkx_A          130 LADKR-QVSIE------------------EG-------ERKAKELN-VMFIETSAKAGYNVKQLFRRVAAALPGME  178 (216)
T ss_dssp             CGGGC-CSCHH------------------HH-------HHHHHHHT-CEEEEEBTTTTBSHHHHHHHHHHHC----
T ss_pred             hHhcC-cccHH------------------HH-------hhHHHHhC-CeeEEEeCCCCcCHHHHHHHHHHHHHhhh
Confidence            86533 21100                  00       11123344 46999999999999999999998886543

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.12  E-value=7.4e-10  Score=110.43  Aligned_cols=128  Identities=18%  Similarity=0.209  Sum_probs=71.8

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ++.|+||||+........         ......+++++++|+...-.+..+-     .+..+...+.|+++|+||+|+..
T Consensus        71 ~i~liDTPGhe~F~~~~~---------r~~~~aD~aILVvDa~~Gv~~qT~e-----~l~~l~~~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           71 GLFFIDTPGHEAFTTLRK---------RGGALADLAILIVDINEGFKPQTQE-----ALNILRMYRTPFVVAANKIDRIH  136 (594)
T ss_dssp             EEEEECCCTTSCCTTSBC---------SSSBSCSEEEEEEETTTCCCHHHHH-----HHHHHHHTTCCEEEEEECGGGST
T ss_pred             CEEEEECCCcHHHHHHHH---------HHHhhCCEEEEEEECCCCccHhHHH-----HHHHHHHcCCeEEEEeccccccc
Confidence            589999999754321111         1123357899999997644454431     11223457899999999999964


Q ss_pred             chh--hhhhhcCcchHHHHHHhhhcchhHHHHHH---HHHHHHHhcc--------------CCceEEEEeccCcccHHHH
Q 023298          196 NKK--EIEDYLNPESQFLLSELNQHMAPQFAKLN---KSLIELVDEY--------------SMVSFMPLDLRKESSIRYV  256 (284)
Q Consensus       196 ~~~--~l~~~l~~~~~~l~~~l~~~~~~~~~~l~---~~i~~~l~~~--------------~~~~~ipiSa~~~~~l~~L  256 (284)
                      ...  .-..+.        +.+..........+.   ..+.+.+.+.              ....++|+||++|.|+++|
T Consensus       137 ~~~~~~~~~~~--------e~sa~~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eL  208 (594)
T 1g7s_A          137 GWRVHEGRPFM--------ETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPEL  208 (594)
T ss_dssp             TCCCCTTCCHH--------HHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHH
T ss_pred             ccccccCCchH--------HHHHHhHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhH
Confidence            210  000111        111100000000111   1112222222              2247999999999999999


Q ss_pred             HHHHHHhcC
Q 023298          257 LSQIDNCIQ  265 (284)
Q Consensus       257 l~~I~~~l~  265 (284)
                      ++.|...++
T Consensus       209 l~~I~~~~~  217 (594)
T 1g7s_A          209 LTMLMGLAQ  217 (594)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHhhcc
Confidence            999998775

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.12  E-value=1.2e-09  Score=92.20  Aligned_cols=127  Identities=17%  Similarity=0.229  Sum_probs=68.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..++.++||||+........ .  ....+..   .+++++++|+.... +....+..++..+.. ...+.|+++|.||+|
T Consensus        68 ~~~l~i~Dt~G~~~~~~~~~-~--~~~~~~~---~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~-~~~~~piilv~nK~D  140 (196)
T 3llu_A           68 FVNFQIWDFPGQMDFFDPTF-D--YEMIFRG---TGALIYVIDAQDDYMEALTRLHITVSKAYK-VNPDMNFEVFIHKVD  140 (196)
T ss_dssp             SCCEEEEECCSSCCTTCTTC-C--HHHHHHT---CSEEEEEEETTSCCHHHHHHHHHHHHHHHH-HCTTCEEEEEEECGG
T ss_pred             eeEEEEEECCCCHHHHhhhh-h--ccccccc---CCEEEEEEECCCchHHHHHHHHHHHHHHHh-cCCCCcEEEEEeccc
Confidence            45789999999765221110 0  0122333   36789999987531 111223333322111 234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ++..+..+....         .+.       ......+++.........++++||++ .|+++++..|.+.+
T Consensus       141 l~~~~~~~~~~~---------~v~-------~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          141 GLSDDHKIETQR---------DIH-------QRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             GSCHHHHHHHHH---------HHH-------HHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             cCchhhhhHHHh---------HHH-------HHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            976431111100         000       00011111111112236899999999 99999999887643

>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=99.12  E-value=3.8e-10  Score=106.12  Aligned_cols=131  Identities=15%  Similarity=0.224  Sum_probs=73.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.++||||++.-.. ......+...+......+++++++|++...+ ....+..+...+..+...+.|+++|.||+|+
T Consensus       226 ~~v~l~DT~G~i~~lp-~~lve~f~~tl~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl  304 (364)
T 2qtf_A          226 RKIMLVDTVGFIRGIP-PQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDK  304 (364)
T ss_dssp             EEEEEEECCCBCSSCC-GGGHHHHHHHHHGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGG
T ss_pred             EEEEEEeCCCchhcCC-HHHHHHHHHHHHHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCC
Confidence            3578999999865322 2223334333433333578999999864321 1122222222222222247899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      .+..  .....+                    ....++..+. .....++|+||++++|++.|++.|.+.++.++.
T Consensus       305 ~~~~--~~~~~~--------------------~~~~l~~~l~-~~~~~~~~~SA~~g~gi~~L~~~I~~~l~~~~~  357 (364)
T 2qtf_A          305 INGD--LYKKLD--------------------LVEKLSKELY-SPIFDVIPISALKRTNLELLRDKIYQLATQLSL  357 (364)
T ss_dssp             CCSC--HHHHHH--------------------HHHHHHHHHC-SCEEEEEECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             CCch--HHHHHH--------------------HHHHHHHHhc-CCCCcEEEEECCCCcCHHHHHHHHHHHhcccCC
Confidence            7532  111100                    0001111110 112368999999999999999999988765444

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=99.12  E-value=5.5e-11  Score=107.51  Aligned_cols=41  Identities=15%  Similarity=0.067  Sum_probs=35.6

Q ss_pred             eEEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCc-CCCC
Q 023298           20 VIKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDP-AAEN   60 (284)
Q Consensus        20 ~~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDP-q~~~   60 (284)
                      +++.|+|. | +||||++.+||.+|++.|+||++||+|| |.+.
T Consensus         5 kvI~v~s~KGGvGKTT~a~nLA~~La~~G~~VlliD~D~~q~~l   48 (286)
T 2xj4_A            5 RVIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVIDLDLRQRTS   48 (286)
T ss_dssp             EEEEECCSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCTTTCHH
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCCCCH
Confidence            45666654 6 9999999999999999999999999999 7664

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.12  E-value=2.6e-11  Score=120.85  Aligned_cols=114  Identities=18%  Similarity=0.316  Sum_probs=63.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC--------CCHHHHHHHHHHHHHHHHhcCCC-E
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--------TDVTKFISGCMASLSAMVQLELP-H  184 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--------~~~~~~i~~~l~~l~~~~~~~~p-~  184 (284)
                      +.++.|+||||+......      +...+..   .+++++++|+...        .........      .....+.| +
T Consensus       254 ~~~i~iiDTPGh~~f~~~------~~~~~~~---aD~alLVVDa~~g~~e~gi~~~~qt~e~l~------~~~~lgip~i  318 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFISG------MIAGASS---ADFAVLVVDSSQNNFERGFLENGQTREHAY------LLRALGISEI  318 (592)
T ss_dssp             -----CCEEESSSEEEEE------CCC----------CCSEEEEEECCSSTTSCSCSSHHHHHH------HHHHSSCCCE
T ss_pred             CeEEEEEECCChHHHHHH------HHHHHhh---CCEEEEEEECCCCccccccccchHHHHHHH------HHHHcCCCeE
Confidence            468899999998753221      1111222   3678889998642        111221211      22356777 8


Q ss_pred             EEEecCCcccc-chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHH-hccCC----ceEEEEeccCcccHH----
Q 023298          185 VNILSKMDLVT-NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELV-DEYSM----VSFMPLDLRKESSIR----  254 (284)
Q Consensus       185 IlVlNK~Dll~-~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l-~~~~~----~~~ipiSa~~~~~l~----  254 (284)
                      |+|+||+|+.. .+..+..                       ....+.+++ ...++    ..|+|+||++|.|+.    
T Consensus       319 IvviNKiDl~~~~~~~~~~-----------------------i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~e~~~  375 (592)
T 3mca_A          319 VVSVNKLDLMSWSEDRFQE-----------------------IKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQKDS  375 (592)
T ss_dssp             EEEEECGGGGTTCHHHHHH-----------------------HHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSCSCCC
T ss_pred             EEEEeccccccccHHHHHH-----------------------HHHHHHHHHHHhhCCCccceEEEEEecccCcccccccc
Confidence            88999999875 2211111                       112233444 44554    379999999999998    


Q ss_pred             ----------HHHHHHHHhcC
Q 023298          255 ----------YVLSQIDNCIQ  265 (284)
Q Consensus       255 ----------~Ll~~I~~~l~  265 (284)
                                .|++.|...++
T Consensus       376 ~~~~~w~~g~~Lle~l~~~~p  396 (592)
T 3mca_A          376 SDLYKWYKGPTLLSALDQLVP  396 (592)
T ss_dssp             CGGGGTCCSCCHHHHHHTSCC
T ss_pred             cccccccchHHHHHHHHhhcc
Confidence                      79999998876

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.11  E-value=1.2e-09  Score=110.68  Aligned_cols=206  Identities=12%  Similarity=0.124  Sum_probs=106.3

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCME   95 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e   95 (284)
                      .+.+.+.|+|.+ +||||++.+|........+.   -+.|++...+.|..   .+.         +.+  +.   +.+ .
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~---g~v~~~~~~~d~~~---~E~---------~~g--iT---i~~-~   68 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKI---GEVHEGAATMDFME---QER---------ERG--IT---ITA-A   68 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC------------------------------------------------C-C
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCccc---ceecCCceeccCch---hhh---------hcc--cc---ccc-c
Confidence            456779999999 99999999998653221111   12344443333310   000         000  10   000 0


Q ss_pred             hhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHH
Q 023298           96 HLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASL  174 (284)
Q Consensus        96 ~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l  174 (284)
                        ...        +. +.++++.++||||+...      .....+.+..   .+.+++++|+......... ++      
T Consensus        69 --~~~--------~~-~~~~~i~liDTPG~~df------~~~~~~~l~~---aD~~ilVvDa~~g~~~~t~~~~------  122 (691)
T 1dar_A           69 --VTT--------CF-WKDHRINIIDTPGHVDF------TIEVERSMRV---LDGAIVVFDSSQGVEPQSETVW------  122 (691)
T ss_dssp             --EEE--------EE-ETTEEEEEECCCSSTTC------HHHHHHHHHH---CSEEEEEEETTTCSCHHHHHHH------
T ss_pred             --eEE--------EE-ECCeEEEEEECcCccch------HHHHHHHHHH---CCEEEEEEECCCCcchhhHHHH------
Confidence              000        11 11457899999998651      2223344544   3678999999765443322 21      


Q ss_pred             HHHHhcCCCEEEEecCCccccchh-----hhhhhcCc-------------------------------c----------h
Q 023298          175 SAMVQLELPHVNILSKMDLVTNKK-----EIEDYLNP-------------------------------E----------S  208 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~~~~-----~l~~~l~~-------------------------------~----------~  208 (284)
                      ....+.++|.++|+||+|+.....     ++.+.+..                               +          +
T Consensus       123 ~~~~~~~~p~ivviNKiD~~~~~~~~~~~~l~~~l~~~~~~~~~Pi~~~~~~~g~~d~~~~~~~~~~~~~g~~~~~~~~~  202 (691)
T 1dar_A          123 RQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGARPVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIP  202 (691)
T ss_dssp             HHHHHTTCCEEEEEECTTSTTCCHHHHHHHHHHTTCCCEEECEEEESCGGGCCEEEETTTTEEEEECSTTSCCEEEECCC
T ss_pred             HHHHHcCCCEEEEEECCCcccCCHHHHHHHHHHHhCCCccceeccccCCCcccchhhhhcceeeEeccCCCceeEEecCC
Confidence            123356899999999999975320     11111100                               0          0


Q ss_pred             H-----------HHHHHhhhcchhH-----------HHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          209 Q-----------FLLSELNQHMAPQ-----------FAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       209 ~-----------~l~~~l~~~~~~~-----------~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +           .+.+.+.+.....           ...+...+.+.+....+..+++.||.++.|++.|++.|.+.+|.
T Consensus       203 ~~~~~~~~~~r~~l~e~~~e~dd~l~e~~l~~~~~~~~~~~~~~~~~~~~~~~~Pv~~gSA~~~~Gv~~LLd~i~~~lPs  282 (691)
T 1dar_A          203 EEYLDQAREYHEKLVEVAADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPS  282 (691)
T ss_dssp             GGGHHHHHHHHHHHHHHHTTTCHHHHHHHHHTCCCCHHHHHHHHHHHHHTTSCEEEEECBGGGTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHHHHHhhCCHHHHHHHHCCCCCCHHHHHHHHHHHHHhCcEeEEEEeecccCcCHHHHHHHHHHhCCC
Confidence            0           1111111111100           11233444455555556788899999999999999999999987


Q ss_pred             CCC
Q 023298          267 GED  269 (284)
Q Consensus       267 g~d  269 (284)
                      -.+
T Consensus       283 P~~  285 (691)
T 1dar_A          283 PLD  285 (691)
T ss_dssp             TTT
T ss_pred             hhh
Confidence            554

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.11  E-value=2.9e-10  Score=110.67  Aligned_cols=112  Identities=12%  Similarity=0.098  Sum_probs=68.9

Q ss_pred             CCCEEEEeCCCCc-cccc-ccchH-HHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQI-ELFT-HVPVL-RNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~-e~~~-~~~~~-~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||+. +... ....+ .+....+..   .+++++++|+....+....  .++   ..+  .++|+|+|+||
T Consensus       290 g~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~---aD~vl~VvD~s~~~s~~~~--~il---~~l--~~~piivV~NK  359 (482)
T 1xzp_A          290 GILFRIVDTAGVRSETNDLVERLGIERTLQEIEK---ADIVLFVLDASSPLDEEDR--KIL---ERI--KNKRYLVVINK  359 (482)
T ss_dssp             TEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHH---CSEEEEEEETTSCCCHHHH--HHH---HHH--TTSSEEEEEEE
T ss_pred             CeEEEEEECCCccccchhhHHHHHHHHHHHHhhc---ccEEEEEecCCCCCCHHHH--HHH---HHh--cCCCEEEEEEC
Confidence            3468999999987 4211 01111 223344544   3689999998765443332  111   111  37899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+.... ...++                           .+...  ....++++||++|+|+++|++.|.+.+.
T Consensus       360 ~DL~~~~-~~~~~---------------------------~~~~~--~~~~~i~iSAktg~Gi~eL~~~l~~~~~  404 (482)
T 1xzp_A          360 VDVVEKI-NEEEI---------------------------KNKLG--TDRHMVKISALKGEGLEKLEESIYRETQ  404 (482)
T ss_dssp             CSSCCCC-CHHHH---------------------------HHHHT--CSTTEEEEEGGGTCCHHHHHHHHHHHTH
T ss_pred             ccccccc-CHHHH---------------------------HHHhc--CCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            9986421 11111                           01111  1257899999999999999999998754

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.10  E-value=9e-10  Score=103.76  Aligned_cols=113  Identities=12%  Similarity=0.125  Sum_probs=71.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCE-EEEec-CC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPH-VNILS-KM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~-IlVlN-K~  191 (284)
                      +.++.++||||+..      ....+...+..   .+++++++| .....+...  ..   +......+.|. |+|+| |+
T Consensus        59 ~~~i~iiDtPGh~~------f~~~~~~~~~~---aD~ailVvd-~~g~~~qt~--e~---~~~~~~~~i~~~ivvvNNK~  123 (370)
T 2elf_A           59 GRNMVFVDAHSYPK------TLKSLITALNI---SDIAVLCIP-PQGLDAHTG--EC---IIALDLLGFKHGIIALTRSD  123 (370)
T ss_dssp             SSEEEEEECTTTTT------CHHHHHHHHHT---CSEEEEEEC-TTCCCHHHH--HH---HHHHHHTTCCEEEEEECCGG
T ss_pred             CeEEEEEECCChHH------HHHHHHHHHHH---CCEEEEEEc-CCCCcHHHH--HH---HHHHHHcCCCeEEEEEEecc
Confidence            45799999999754      12334444543   468899999 533333221  11   11223567898 99999 99


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--CceEEE--EeccC---cccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--MVSFMP--LDLRK---ESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~~~~ip--iSa~~---~~~l~~Ll~~I~~~l  264 (284)
                      |+ ..+ .+....                       ..+.+++..++  ...++|  +||++   ++|+++|++.|.+.+
T Consensus       124 Dl-~~~-~~~~~~-----------------------~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~  178 (370)
T 2elf_A          124 ST-HMH-AIDELK-----------------------AKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKARINEVA  178 (370)
T ss_dssp             GS-CHH-HHHHHH-----------------------HHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHHHHHHH
T ss_pred             CC-CHH-HHHHHH-----------------------HHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHHHHhhc
Confidence            98 432 222111                       11223344443  368999  99999   999999999999887


Q ss_pred             CC
Q 023298          265 QW  266 (284)
Q Consensus       265 ~~  266 (284)
                      +.
T Consensus       179 ~~  180 (370)
T 2elf_A          179 EK  180 (370)
T ss_dssp             HH
T ss_pred             cc
Confidence            64

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=99.10  E-value=7.5e-10  Score=102.42  Aligned_cols=44  Identities=11%  Similarity=0.015  Sum_probs=40.3

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ..++.+++|+|++ |||||++.+||.+++..|++|+++|.|++..
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~~r~  146 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRA  146 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSCH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcch
Confidence            3567889999999 9999999999999999999999999999764

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=98.69  E-value=9.1e-12  Score=105.86  Aligned_cols=124  Identities=10%  Similarity=0.124  Sum_probs=66.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.++||||+....       .+.. .+..   .+++++++|+....+.......++..+.... .+.|+++|.||+|+
T Consensus        78 ~~l~i~Dt~G~~~~~-------~~~~~~~~~---~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl  146 (204)
T 3th5_A           78 VNLGLWDTAGQEDYD-------RLRPLSYPQ---TDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDL  146 (204)
Confidence            356699999975421       1111 1222   3578889998643222221112222111111 17899999999999


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      .... ...+.....  . ...+.          .....++...++...++++||++|.|++++++.|.+.
T Consensus       147 ~~~~-~~~~~~~~~--~-~~~v~----------~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~  202 (204)
T 3th5_A          147 RDDK-DTIEKLKEK--K-LTPIT----------YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRA  202 (204)
Confidence            7543 221111100  0 00000          0011222234444578999999999999999988654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.09  E-value=3.4e-11  Score=102.02  Aligned_cols=115  Identities=12%  Similarity=0.142  Sum_probs=62.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      ..+.++||||+........      ..+   ...+++++++|+....+. ..+..++..+......+.|+++|+||+|+.
T Consensus        82 ~~~~i~Dt~G~~~~~~~~~------~~~---~~~d~~i~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~  151 (199)
T 3l0i_B           82 IKLQIWDTAGQERFRTITS------SYY---RGAHGIIVVYDVTDQESF-NNVKQWLQEIDRYASENVNKLLVGNKCDLT  151 (199)
T ss_dssp             EEEEEECCTTCTTCCCCSC------C-----CCCSEEEECC-CCCSHHH-HHHHHHHHHHHSCC-CCSEEEEC-CCSSCC
T ss_pred             EEEEEEECCCcHhHHHHHH------HHh---hcCCEEEEEEECCCHHHH-HHHHHHHHHHHHhccCCCCEEEEEECccCC
Confidence            3689999999765321111      012   224689999998643211 113334333333333478999999999996


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ..+ .......                         .++...++ ..++++||++|.|++++++.|.+.+..
T Consensus       152 ~~~-~v~~~~~-------------------------~~~~~~~~-~~~~~vSA~~g~gv~~l~~~l~~~l~~  196 (199)
T 3l0i_B          152 TKK-VVDYTTA-------------------------KEFADSLG-IPFLETSAKNATNVEQSFMTMAAEIKK  196 (199)
T ss_dssp             --C-CCCSCC--------------------------CHHHHTTT-CCBCCCCC---HHHHHHHHHHTTTTTT
T ss_pred             ccc-cCCHHHH-------------------------HHHHHHcC-CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            533 2211000                         01112233 578999999999999999999877643

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.08  E-value=7.2e-10  Score=106.07  Aligned_cols=121  Identities=16%  Similarity=0.269  Sum_probs=77.7

Q ss_pred             CCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH--hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV--QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~--~~~~p~IlVlNK~  191 (284)
                      ..+.+.||||+++... ...+...+.++++.   ...+++++|..  .++-..++.....+..+.  ....|.++|+||+
T Consensus       205 ~~~~l~DtpGli~~a~~~~~L~~~fl~~~er---a~~lL~vvDls--~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKl  279 (416)
T 1udx_A          205 ERFTLADIPGIIEGASEGKGLGLEFLRHIAR---TRVLLYVLDAA--DEPLKTLETLRKEVGAYDPALLRRPSLVALNKV  279 (416)
T ss_dssp             CEEEEEECCCCCCCGGGSCCSCHHHHHHHTS---SSEEEEEEETT--SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECC
T ss_pred             ceEEEEeccccccchhhhhhhhHHHHHHHHH---HHhhhEEeCCc--cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECC
Confidence            4689999999876321 22233344455533   35789999986  444444555444433332  1368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      |+.... .+..+                           .+.+...+ ..++++||++++|+++|++.|.+.+...+.
T Consensus       280 Dl~~~~-~~~~l---------------------------~~~l~~~g-~~vi~iSA~~g~gi~eL~~~i~~~l~~~~~  328 (416)
T 1udx_A          280 DLLEEE-AVKAL---------------------------ADALAREG-LAVLPVSALTGAGLPALKEALHALVRSTPP  328 (416)
T ss_dssp             TTSCHH-HHHHH---------------------------HHHHHTTT-SCEEECCTTTCTTHHHHHHHHHHHHHTSCC
T ss_pred             ChhhHH-HHHHH---------------------------HHHHHhcC-CeEEEEECCCccCHHHHHHHHHHHHHhccc
Confidence            986432 22111                           11122222 579999999999999999999998876554

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.07  E-value=4.8e-09  Score=101.29  Aligned_cols=109  Identities=15%  Similarity=0.262  Sum_probs=60.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCC-EEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELP-HVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p-~IlVlNK  190 (284)
                      +.++.|+||||+..      ....+   .......+++++++|+.....+..|  .......+......+.| .|+|+||
T Consensus        84 ~~~~~iiDtPGh~~------f~~~~---~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK  154 (458)
T 1f60_A           84 KYQVTVIDAPGHRD------FIKNM---ITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNK  154 (458)
T ss_dssp             SEEEEEEECCCCTT------HHHHH---HHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEEC
T ss_pred             CceEEEEECCCcHH------HHHHH---HhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEc
Confidence            45799999999643      11222   2223345789999999632111000  00000111122345776 8899999


Q ss_pred             Ccccc-chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHH
Q 023298          191 MDLVT-NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIR  254 (284)
Q Consensus       191 ~Dll~-~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~  254 (284)
                      +|+.. ++..+....                       ..+.+++..+++    ..++|+||++|+|+.
T Consensus       155 ~Dl~~~~~~~~~~i~-----------------------~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~  200 (458)
T 1f60_A          155 MDSVKWDESRFQEIV-----------------------KETSNFIKKVGYNPKTVPFVPISGWNGDNMI  200 (458)
T ss_dssp             GGGGTTCHHHHHHHH-----------------------HHHHHHHHHHTCCGGGCCEEECCTTTCBTTT
T ss_pred             cccccCCHHHHHHHH-----------------------HHHHHHHHHcCCCccCceEEEeecccCcCcc
Confidence            99973 221221111                       122333444454    679999999999986

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.06  E-value=2.3e-09  Score=113.28  Aligned_cols=115  Identities=18%  Similarity=0.251  Sum_probs=71.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHHHHhcCCC-EEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSAMVQLELP-HVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~~~~~~~p-~IlVlNK~  191 (284)
                      ..++.|+||||+...      ...+   .......+++++++|+.....+... ...      .+...+.| .|+|+||+
T Consensus       358 ~~kI~IIDTPGHedF------~~~m---i~gas~AD~aILVVDAtdGv~~QTrEhL~------ll~~lgIP~IIVVINKi  422 (1289)
T 3avx_A          358 TRHYAHVDCPGHADY------VKNM---ITGAAQMDGAILVVAATDGPMPQTREHIL------LGRQVGVPYIIVFLNKC  422 (1289)
T ss_dssp             SCEEEEEECCCHHHH------HHHH---HHTSCCCSEEEEEEETTTCSCTTHHHHHH------HHHHHTCSCEEEEEECC
T ss_pred             CEEEEEEECCChHHH------HHHH---HHHHhhCCEEEEEEcCCccCcHHHHHHHH------HHHHcCCCeEEEEEeec
Confidence            467999999996541      1112   2223345789999999754322221 111      12245789 68999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCc--------ccHHHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKE--------SSIRYVLSQ  259 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~--------~~l~~Ll~~  259 (284)
                      |+..++ +..+..                      ...+.+++..+++    ..++|+||++|        .|+..|++.
T Consensus       423 DLv~d~-e~le~i----------------------~eEi~elLk~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLlea  479 (1289)
T 3avx_A          423 DMVDDE-ELLELV----------------------EMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGF  479 (1289)
T ss_dssp             TTCCCH-HHHHHH----------------------HHHHHHHHHHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHH
T ss_pred             ccccch-hhHHHH----------------------HHHHHHHHHhccccccceeEEEEEeccCCCCCccccccchhhHhH
Confidence            997533 211111                      1122334444443    68999999999        679999999


Q ss_pred             HHHhcCC
Q 023298          260 IDNCIQW  266 (284)
Q Consensus       260 I~~~l~~  266 (284)
                      |.+.++.
T Consensus       480 L~~~Ip~  486 (1289)
T 3avx_A          480 LDSYIPE  486 (1289)
T ss_dssp             HHHTSCC
T ss_pred             HhhhcCC
Confidence            9998874

>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=99.06  E-value=2.5e-09  Score=90.79  Aligned_cols=123  Identities=15%  Similarity=0.081  Sum_probs=70.5

Q ss_pred             CEEEEeCCCCccccccc---chHHHHH-HHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          116 DYLVFDCPGQIELFTHV---PVLRNFV-DHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~---~~~~~l~-~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +..++||||+.......   ......+ ..++.....+.+++++|+....+... .+..      .+...+.|.++|.||
T Consensus        73 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~------~~~~~~~~~~~v~nK  146 (210)
T 1pui_A           73 GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIE------WAVDSNIAVLVLLTK  146 (210)
T ss_dssp             TEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHH------HHHHTTCCEEEEEEC
T ss_pred             CEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECCCCCchhHHHHHH------HHHHcCCCeEEEEec
Confidence            67899999975311000   0111122 22332223466788899865433221 1221      233568999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      +|+++.. +.....                       ..+...+.+.+ ...++|+||+++.|++++++.|.+.++.|+
T Consensus       147 ~D~~s~~-~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~~~~  201 (210)
T 1pui_A          147 ADKLASG-ARKAQL-----------------------NMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWFSEMQ  201 (210)
T ss_dssp             GGGSCHH-HHHHHH-----------------------HHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHHC---
T ss_pred             ccCCCch-hHHHHH-----------------------HHHHHHHHhcCCCCceEEEeecCCCCHHHHHHHHHHHHhhcc
Confidence            9987643 211100                       01123334444 467899999999999999999999988764

>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=99.06  E-value=1.5e-09  Score=92.87  Aligned_cols=78  Identities=15%  Similarity=0.288  Sum_probs=43.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCC-CCCCHHHHHHHHHHHHHHH----HhcCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQ-FITDVTKFISGCMASLSAM----VQLELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~-~~~~~~~~i~~~l~~l~~~----~~~~~p~IlVl  188 (284)
                      ...+.++||||+...   +.......+.  .....+++++++|+. ...+-.. +..++..+...    ...+.|+++|+
T Consensus        54 ~~~~~l~Dt~G~~~~---~~~~~~~~~~--~~~~~~~~i~v~D~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~p~ilv~  127 (218)
T 1nrj_B           54 GSGVTLVDFPGHVKL---RYKLSDYLKT--RAKFVKGLIFMVDSTVDPKKLTT-TAEFLVDILSITESSCENGIDILIAC  127 (218)
T ss_dssp             GSSCEEEECCCCGGG---THHHHHHHHH--HGGGEEEEEEEEETTSCTTCCHH-HHHHHHHHHHHHHHHSTTCCCEEEEE
T ss_pred             CceEEEEECCCcHHH---HHHHHHHHHh--ccccCCEEEEEEECCCChHHHHH-HHHHHHHHHhcccccccCCCCEEEEE
Confidence            347899999998542   1222222211  111236789999997 3322222 12222222111    22579999999


Q ss_pred             cCCccccch
Q 023298          189 SKMDLVTNK  197 (284)
Q Consensus       189 NK~Dll~~~  197 (284)
                      ||+|+....
T Consensus       128 nK~Dl~~~~  136 (218)
T 1nrj_B          128 NKSELFTAR  136 (218)
T ss_dssp             ECTTSTTCC
T ss_pred             EchHhcccC
Confidence            999997644

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.06  E-value=2.1e-09  Score=108.90  Aligned_cols=141  Identities=14%  Similarity=0.210  Sum_probs=83.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +.++.++||||+....      ....+.+..   .+.+++++|+....+... .++.      .+.+.+.|.++|+||+|
T Consensus        74 ~~~i~liDTPG~~df~------~~~~~~l~~---aD~~llVvDa~~g~~~~~~~~~~------~~~~~~~p~ilviNK~D  138 (693)
T 2xex_A           74 GHRVNIIDTPGHVDFT------VEVERSLRV---LDGAVTVLDAQSGVEPQTETVWR------QATTYGVPRIVFVNKMD  138 (693)
T ss_dssp             TEEEEEECCCCCSSCC------HHHHHHHHH---CSEEEEEEETTTBSCHHHHHHHH------HHHHTTCCEEEEEECTT
T ss_pred             CeeEEEEECcCCcchH------HHHHHHHHH---CCEEEEEECCCCCCcHHHHHHHH------HHHHcCCCEEEEEECCC
Confidence            4578999999986521      123344544   368999999976433332 2221      23456899999999999


Q ss_pred             cccchh-----hhhhhcCc-------------------------------c----------hH-----------HHHHHh
Q 023298          193 LVTNKK-----EIEDYLNP-------------------------------E----------SQ-----------FLLSEL  215 (284)
Q Consensus       193 ll~~~~-----~l~~~l~~-------------------------------~----------~~-----------~l~~~l  215 (284)
                      +...+.     ++...+..                               +          ++           .+++.+
T Consensus       139 l~~~~~~~~~~~l~~~l~~~~~~~~ipisa~~~~~~l~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~r~~l~e~l  218 (693)
T 2xex_A          139 KLGANFEYSVSTLHDRLQANAAPIQLPIGAEDEFEAIIDLVEMKCFKYTNDLGTEIEEIEIPEDHLDRAEEARASLIEAV  218 (693)
T ss_dssp             STTCCHHHHHHHHHHHHCCCEEESEEEECCGGGCCEEEETTTTEEEECCSSSSCSCEEECCCGGGHHHHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHhCCCceeEEeecccCCCcceeeeeecceeEEeccCCCceeEEecCCHHHHHHHHHHHHHHHHHH
Confidence            975320     11111100                               0          00           111111


Q ss_pred             hhcchh-----------HHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          216 NQHMAP-----------QFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       216 ~~~~~~-----------~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      .+....           ....+...+.+.+....+..++..||.++.|++.|++.|.+.+|.-.+
T Consensus       219 ~e~dd~l~e~~l~~~~~~~~~~~~~l~~~~~~~~~~Pv~~gSA~~~~Gv~~LLd~i~~~lPsP~~  283 (693)
T 2xex_A          219 AETSDELMEKYLGDEEISVSELKEAIRQATTNVEFYPVLCGTAFKNKGVQLMLDAVIDYLPSPLD  283 (693)
T ss_dssp             HTTCHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSCEEEEECBTTTTBSHHHHHHHHHHHSCCGGG
T ss_pred             hhCCHHHHHHHhcCCCCCHHHHHHHHHHHHHhCCeeeEEEeecccCcCHHHHHHHHHHHCCCchh
Confidence            111100           011233444555555566788999999999999999999999986543

>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=99.06  E-value=8.2e-10  Score=100.86  Aligned_cols=152  Identities=13%  Similarity=0.011  Sum_probs=83.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcC--cccCchhhhhh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELG--LGPNGGLIYCM   94 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~--lgPng~l~~~~   94 (284)
                      ++.++.++|++ |||||++.+||.+++..|.+|+++|.|++.....+       .+   ....+..+  +.|.+.-....
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~-------ql---~~~~~~~~l~~~~~~~~~~p~  166 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAARE-------QL---RLLGEKVGVPVLEVMDGESPE  166 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHH-------HH---HHHHHHHTCCEEECCTTCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHH-------HH---HHhcccCCeEEEEcCCCCCHH
Confidence            56778899999 99999999999999999999999999998753211       00   01112222  22222110111


Q ss_pred             HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                      +.+.    ..+..... . ++++|||||||....  .......+........ .+-+++++|+..   ..+.+..    .
T Consensus       167 ~l~~----~~l~~~~~-~-~~D~viiDtpp~~~~--d~~~~~~l~~~~~~~~-~~~~~lv~~~~~---~~~~~~~----~  230 (295)
T 1ls1_A          167 SIRR----RVEEKARL-E-ARDLILVDTAGRLQI--DEPLMGELARLKEVLG-PDEVLLVLDAMT---GQEALSV----A  230 (295)
T ss_dssp             HHHH----HHHHHHHH-H-TCCEEEEECCCCSSC--CHHHHHHHHHHHHHHC-CSEEEEEEEGGG---THHHHHH----H
T ss_pred             HHHH----HHHHHHHh-C-CCCEEEEeCCCCccc--cHHHHHHHHHHhhhcC-CCEEEEEEeCCC---cHHHHHH----H
Confidence            1111    11222211 1 679999999997753  1122333333222211 345678888752   2222221    1


Q ss_pred             HHHHhcCCCEEEEecCCcccc
Q 023298          175 SAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ..+...-...-+|+||+|...
T Consensus       231 ~~~~~~~~i~givlnk~d~~~  251 (295)
T 1ls1_A          231 RAFDEKVGVTGLVLTKLDGDA  251 (295)
T ss_dssp             HHHHHHTCCCEEEEECGGGCS
T ss_pred             HHHhhcCCCCEEEEECCCCCc
Confidence            112211123557899999753

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.06  E-value=2.7e-09  Score=101.34  Aligned_cols=115  Identities=11%  Similarity=0.192  Sum_probs=70.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcC-CCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLE-LPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~D  192 (284)
                      ..+.|+||||+..      ....+...+   ...+++++++|+.... .+...-.  +.   .+..++ .|.|+|+||+|
T Consensus        83 ~~i~iiDtPGh~~------f~~~~~~~~---~~~D~~ilVvda~~g~~~~qt~e~--l~---~~~~~~~~~iivviNK~D  148 (410)
T 1kk1_A           83 RRVSFIDAPGHEA------LMTTMLAGA---SLMDGAILVIAANEPCPRPQTREH--LM---ALQIIGQKNIIIAQNKIE  148 (410)
T ss_dssp             EEEEEEECSSHHH------HHHHHHHCG---GGCSEEEEEEETTSCSSCHHHHHH--HH---HHHHHTCCCEEEEEECGG
T ss_pred             cEEEEEECCChHH------HHHHHHhhh---hhCCEEEEEEECCCCCCChhHHHH--HH---HHHHcCCCcEEEEEECcc
Confidence            4689999999532      122222222   2347899999997542 4433211  11   111233 47899999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      +.... ......                       ..+.+++..+  ....++|+||++|+|++.|++.|.+.++..
T Consensus       149 l~~~~-~~~~~~-----------------------~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~p  201 (410)
T 1kk1_A          149 LVDKE-KALENY-----------------------RQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIPTP  201 (410)
T ss_dssp             GSCHH-HHHHHH-----------------------HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             CCCHH-HHHHHH-----------------------HHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCCC
Confidence            97643 221111                       1112333332  236899999999999999999999987753

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.05  E-value=1.5e-09  Score=109.97  Aligned_cols=129  Identities=9%  Similarity=0.089  Sum_probs=71.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      .++.++||||+.+...+   .......+..   .++++|++|+....+..+. ..+.   ..+...+.|+++|+||+|+.
T Consensus       174 ~~l~LiDTPGl~~~~~~---~~~~~~~i~~---aD~vL~Vvda~~~~s~~e~-~~l~---~~l~~~~~~iiiVlNK~Dl~  243 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEAR---NELSLGYVNN---CHAILFVMRASQPCTLGER-RYLE---NYIKGRGLTVFFLVNAWDQV  243 (695)
T ss_dssp             TTEEEEECCCHHHHHTC---HHHHTHHHHS---SSEEEEEEETTSTTCHHHH-HHHH---HHTTTSCCCEEEEEECGGGG
T ss_pred             CCeEEEECCCCCchhhH---HHHHHHHHHh---CCEEEEEEeCCCccchhHH-HHHH---HHHHhhCCCEEEEEECcccc
Confidence            47999999997653211   2222334443   4689999999765444332 1110   11234578999999999987


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--------CCceEEEEecc--------------Cccc
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--------SMVSFMPLDLR--------------KESS  252 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--------~~~~~ipiSa~--------------~~~~  252 (284)
                      .+. .+..   .+.+.+.+ ..       ..+...+...+..+        ....++|+||+              ++.|
T Consensus       244 ~~~-~~~~---ee~e~l~~-~~-------~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~G  311 (695)
T 2j69_A          244 RES-LIDP---DDVEELQA-SE-------NRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTG  311 (695)
T ss_dssp             GGG-CSST---TCHHHHHH-HH-------HHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSS
T ss_pred             ccc-ccCh---hhHHHHHH-HH-------HHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccC
Confidence            532 1100   00000000 00       00111111112211        12469999999              9999


Q ss_pred             HHHHHHHHHHhcC
Q 023298          253 IRYVLSQIDNCIQ  265 (284)
Q Consensus       253 l~~Ll~~I~~~l~  265 (284)
                      +++|.+.+.+.+.
T Consensus       312 i~~L~~~L~~~l~  324 (695)
T 2j69_A          312 FPKFMDSLNTFLT  324 (695)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999887653

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.05  E-value=6.5e-09  Score=98.66  Aligned_cols=113  Identities=18%  Similarity=0.250  Sum_probs=64.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcC-CCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLE-LPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~-~p~IlVlNK~  191 (284)
                      ..+.|+||||+..          +.+.+ ..+...+++++++|+.... .+..+-  .+.   .+..++ .|.|+|+||+
T Consensus        81 ~~i~iiDtPGh~~----------f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e--~l~---~~~~l~~~~iivv~NK~  145 (408)
T 1s0u_A           81 RRVSFVDSPGHET----------LMATMLSGASLMDGAILVIAANEPCPQPQTKE--HLM---ALEILGIDKIIIVQNKI  145 (408)
T ss_dssp             EEEEEEECSSHHH----------HHHHHHTTCSCCSEEEEEEETTSCSSCHHHHH--HHH---HHHHTTCCCEEEEEECT
T ss_pred             cEEEEEECCCHHH----------HHHHHHHhHhhCCEEEEEEECCCCCCCchhHH--HHH---HHHHcCCCeEEEEEEcc
Confidence            4789999999532          22222 2333457899999997542 443321  111   112233 4799999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc--CCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY--SMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~--~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+...+ ......+                       .+.+++..+  ....++|+||++|+|++.|++.|.+.++.
T Consensus       146 Dl~~~~-~~~~~~~-----------------------~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          146 DLVDEK-QAEENYE-----------------------QIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             TSSCTT-TTTTHHH-----------------------HHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSCC
T ss_pred             CCCCHH-HHHHHHH-----------------------HHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence            997643 2211110                       112233332  23679999999999999999999998775

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.04  E-value=3.5e-09  Score=105.62  Aligned_cols=111  Identities=15%  Similarity=0.224  Sum_probs=72.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      +.+.++||||+...      ...+.+.+..   .+.+++++|+....++... ..+.    .....+.|.|+|+||+|+.
T Consensus        73 ~~inliDTPGh~dF------~~ev~r~l~~---aD~aILVVDa~~gv~~qt~-~~~~----~a~~~~ipiIvviNKiDl~  138 (600)
T 2ywe_A           73 YKLHLIDTPGHVDF------SYEVSRALAA---CEGALLLIDASQGIEAQTV-ANFW----KAVEQDLVIIPVINKIDLP  138 (600)
T ss_dssp             EEEEEECCCCSGGG------HHHHHHHHHT---CSEEEEEEETTTBCCHHHH-HHHH----HHHHTTCEEEEEEECTTST
T ss_pred             EEEEEEECCCcHhH------HHHHHHHHHh---CCEEEEEEECCCCccHHHH-HHHH----HHHHCCCCEEEEEeccCcc
Confidence            46789999998651      2234455654   3678999999765444432 1111    1235689999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                      ...  ..+..        +                  ++.+.+++  ..++++||++|.|+++|++.|.+.+|.-
T Consensus       139 ~a~--~~~v~--------~------------------el~~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp~p  185 (600)
T 2ywe_A          139 SAD--VDRVK--------K------------------QIEEVLGLDPEEAILASAKEGIGIEEILEAIVNRIPPP  185 (600)
T ss_dssp             TCC--HHHHH--------H------------------HHHHTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             ccC--HHHHH--------H------------------HHHHhhCCCcccEEEEEeecCCCchHHHHHHHHhcccc
Confidence            432  11111        1                  11122333  3599999999999999999999998753

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.04  E-value=8.2e-10  Score=100.12  Aligned_cols=126  Identities=11%  Similarity=0.111  Sum_probs=69.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      .+.++||||+......       ...  .....+++++++|+....+.......++..+.... .+.|+++|.||+|+..
T Consensus       204 ~~~l~Dt~G~~~~~~~-------~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~  273 (332)
T 2wkq_A          204 NLGLWDTAGLEDYDRL-------RPL--SYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRD  273 (332)
T ss_dssp             EEEEEEECCCGGGTTT-------GGG--GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHT
T ss_pred             EEEEEeCCCchhhhHH-------HHH--hccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhccc
Confidence            5669999997542211       010  12234689999998632221111112222222221 2789999999999975


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .......+.+..       ... ..      .....++...++...++++||++|.|++++++.|.+.+.
T Consensus       274 ~~~~~~~~~~~~-------~~~-v~------~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  329 (332)
T 2wkq_A          274 DKDTIEKLKEKK-------LTP-IT------YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  329 (332)
T ss_dssp             CHHHHHHHHHTT-------CCC-CC------HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccchhhhccccc-------ccc-cc------HHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            431111111000       000 00      001123334556668999999999999999999887653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.04  E-value=6.7e-10  Score=109.46  Aligned_cols=117  Identities=11%  Similarity=0.124  Sum_probs=70.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +..+.|+||||+........         ......+++++++|+.....+...     ..+......+.|+|+|+||+|+
T Consensus        51 g~~i~~iDTPGhe~f~~~~~---------~~~~~aD~vILVVDa~dg~~~qt~-----e~l~~~~~~~vPiIVViNKiDl  116 (537)
T 3izy_P           51 GEKITFLDTPGHAAFSAMRA---------RGTQVTDIVILVVAADDGVMKQTV-----ESIQHAKDAHVPIVLAINKCDK  116 (537)
T ss_dssp             SSCCBCEECSSSCCTTTSBB---------SSSBSBSSCEEECBSSSCCCHHHH-----HHHHHHHTTTCCEEECCBSGGG
T ss_pred             CCEEEEEECCChHHHHHHHH---------HHHccCCEEEEEEECCCCccHHHH-----HHHHHHHHcCCcEEEEEecccc
Confidence            34688999999654221111         112234678899999765444432     1122334578999999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ....  ......    .+.. ..               ...+.++ ...++|+||++|.|+++|++.|...++.
T Consensus       117 ~~~~--~~~v~~----~l~~-~~---------------~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~l~~~  168 (537)
T 3izy_P          117 AEAD--PEKVKK----ELLA-YD---------------VVCEDYGGDVQAVHVSALTGENMMALAEATIALAEM  168 (537)
T ss_dssp             TTTS--CCSSSS----HHHH-TT---------------SCCCCSSSSEEECCCCSSSSCSSHHHHHHHHHHHTT
T ss_pred             cccc--hHHHHH----HHHh-hh---------------hhHHhcCCCceEEEEECCCCCCchhHHHHHHHhhhc
Confidence            6422  111111    0000 00               0012333 3689999999999999999999988764

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.03  E-value=5.6e-10  Score=109.83  Aligned_cols=137  Identities=12%  Similarity=0.180  Sum_probs=67.2

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC-CCCCccccccccccHHHHhhhcCcccCchhhhhh
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN-FDYPVAMDIRELISLEDVMEELGLGPNGGLIYCM   94 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~-~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~   94 (284)
                      .+.+.++|+|.+ +||||++.+|..+....++...+.+-+++... ..|.   +.+         ...|+.     +.+.
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~---~~E---------~~rGiT-----i~~~   73 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWM---EME---------KQRGIS-----ITTS   73 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC------------------------------------------------CCTT
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccc---hhc---------ccCCcc-----eeee
Confidence            456779999999 99999999998743322333334444444322 1110   000         000100     0000


Q ss_pred             HhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHH
Q 023298           95 EHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASL  174 (284)
Q Consensus        95 e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l  174 (284)
                         ..        .+. +.++++.++||||+....      ..+.+.+..   .+.+++++|+.....+...  .+   +
T Consensus        74 ---~~--------~~~-~~~~~i~liDTPG~~df~------~~~~~~l~~---aD~~IlVvDa~~g~~~~t~--~~---~  127 (529)
T 2h5e_A           74 ---VM--------QFP-YHDCLVNLLDTPGHEDFS------EDTYRTLTA---VDCCLMVIDAAKGVEDRTR--KL---M  127 (529)
T ss_dssp             ---EE--------EEE-ETTEEEEEECCCCSTTCC------HHHHHGGGG---CSEEEEEEETTTCSCHHHH--HH---H
T ss_pred             ---EE--------EEE-ECCeEEEEEECCCChhHH------HHHHHHHHH---CCEEEEEEeCCccchHHHH--HH---H
Confidence               00        011 114578999999985411      122333433   4689999999754333221  11   1


Q ss_pred             HHHHhcCCCEEEEecCCccccc
Q 023298          175 SAMVQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       175 ~~~~~~~~p~IlVlNK~Dll~~  196 (284)
                      ......+.|.++|+||+|+...
T Consensus       128 ~~~~~~~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A          128 EVTRLRDTPILTFMNKLDRDIR  149 (529)
T ss_dssp             HHHTTTTCCEEEEEECTTSCCS
T ss_pred             HHHHHcCCCEEEEEcCcCCccc
Confidence            2233468999999999999753

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.03  E-value=5.4e-09  Score=106.11  Aligned_cols=137  Identities=10%  Similarity=0.095  Sum_probs=74.1

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHH---hcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhh
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCE---TVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLI   91 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~---~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~   91 (284)
                      ....+.++|+|.+ +||||++.+|.....   +.|      +.|+|...+.|.+   .+         .+.+..-.....
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g------~v~~g~~~~D~~~---~E---------~~rgiTi~~~~~   68 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIG------EVHDGAATMDWME---QE---------QERGITITSAAT   68 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCccccc------ccCCCceeecChh---hH---------HhcCceeeeceE
Confidence            3456779999999 999999999976422   222      3456554433321   00         000100000000


Q ss_pred             hhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHH
Q 023298           92 YCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGC  170 (284)
Q Consensus        92 ~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~  170 (284)
                       .+.+  .+.      .... ..+++.||||||+...      .....+.+..   .+.+++++|+.....+.. .++  
T Consensus        69 -~~~~--~~~------~~~~-~~~~i~liDTPG~~df------~~~~~~~l~~---aD~aIlVvDa~~gv~~qt~~~~--  127 (704)
T 2rdo_7           69 -TAFW--SGM------AKQY-EPHRINIIDTPGHVDF------TIEVERSMRV---LDGAVMVYCAVGGVQPQSETVW--  127 (704)
T ss_pred             -EEEE--CCc------cccC-CceeEEEEeCCCccch------HHHHHHHHHH---CCEEEEEEeCCCCCcHHHHHHH--
Confidence             0000  000      0011 1468999999997641      1223344544   367899999975433222 121  


Q ss_pred             HHHHHHHHhcCCCEEEEecCCcccc
Q 023298          171 MASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       171 l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                          ......+.|.++|+||+|+..
T Consensus       128 ----~~~~~~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7          128 ----RQANKYKVPRIAFVNKMDRMG  148 (704)
T ss_pred             ----HHHHHcCCCEEEEEeCCCccc
Confidence                223356899999999999864

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.03  E-value=2.5e-09  Score=106.66  Aligned_cols=112  Identities=16%  Similarity=0.252  Sum_probs=71.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLV  194 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll  194 (284)
                      +.+.++||||+..      ....+.+.+..+   +.+++++|+....++... ..+.    .....++|.|+|+||+|+.
T Consensus        71 ~~l~liDTPGh~d------F~~ev~~~l~~a---D~aILVVDa~~gv~~qt~-~~~~----~~~~~~ipiIvViNKiDl~  136 (599)
T 3cb4_D           71 YQLNFIDTPGHVD------FSYEVSRSLAAC---EGALLVVDAGQGVEAQTL-ANCY----TAMEMDLEVVPVLNKIDLP  136 (599)
T ss_dssp             EEEEEEECCCCGG------GHHHHHHHHHHC---SEEEEEEETTTCCCTHHH-HHHH----HHHHTTCEEEEEEECTTST
T ss_pred             EEEEEEECCCchH------HHHHHHHHHHHC---CEEEEEEECCCCCCHHHH-HHHH----HHHHCCCCEEEeeeccCcc
Confidence            4678999999754      123344556553   578999999765333332 1111    1235689999999999986


Q ss_pred             cchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          195 TNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       195 ~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      ...  ..+..        +               .+.+.+ ......++++||++|.|+++|++.|.+.+|.
T Consensus       137 ~a~--~~~v~--------~---------------ei~~~l-g~~~~~vi~vSAktg~GI~~Ll~~I~~~lp~  182 (599)
T 3cb4_D          137 AAD--PERVA--------E---------------EIEDIV-GIDATDAVRCSAKTGVGVQDVLERLVRDIPP  182 (599)
T ss_dssp             TCC--HHHHH--------H---------------HHHHHT-CCCCTTCEEECTTTCTTHHHHHHHHHHHSCC
T ss_pred             ccc--HHHHH--------H---------------HHHHHh-CCCcceEEEeecccCCCchhHHHHHhhcCCC
Confidence            532  11111        1               111111 1122468999999999999999999999875

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.02  E-value=9.3e-09  Score=98.42  Aligned_cols=105  Identities=17%  Similarity=0.298  Sum_probs=62.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCC-CEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLEL-PHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~-p~IlVlNK~D  192 (284)
                      +.++.++||||+.. |     ...+...+..   .+++++++|+.....+...  ..+.   .....+. |.|+|+||+|
T Consensus       103 ~~~~~iiDtpGh~~-f-----~~~~~~~~~~---aD~~ilVvDa~~g~~~qt~--~~l~---~~~~~~~~~iIvviNK~D  168 (434)
T 1zun_B          103 KRKFIIADTPGHEQ-Y-----TRNMATGAST---CDLAIILVDARYGVQTQTR--RHSY---IASLLGIKHIVVAINKMD  168 (434)
T ss_dssp             SEEEEEEECCCSGG-G-----HHHHHHHHTT---CSEEEEEEETTTCSCHHHH--HHHH---HHHHTTCCEEEEEEECTT
T ss_pred             CceEEEEECCChHH-H-----HHHHHHHHhh---CCEEEEEEECCCCCcHHHH--HHHH---HHHHcCCCeEEEEEEcCc
Confidence            44689999999643 1     2334444433   4689999999754333322  1111   1223455 5899999999


Q ss_pred             cccc-hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--C--ceEEEEeccCcccHHH
Q 023298          193 LVTN-KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--M--VSFMPLDLRKESSIRY  255 (284)
Q Consensus       193 ll~~-~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~--~~~ipiSa~~~~~l~~  255 (284)
                      +... +..+...                       ...+.+++..++  +  ..++|+||++|+|+.+
T Consensus       169 l~~~~~~~~~~i-----------------------~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~  213 (434)
T 1zun_B          169 LNGFDERVFESI-----------------------KADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  213 (434)
T ss_dssp             TTTSCHHHHHHH-----------------------HHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             CCcccHHHHHHH-----------------------HHHHHHHHHHhCCCccCceEEEEeccCCCCccc
Confidence            9752 1011111                       112234445555  3  6799999999999987

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.02  E-value=2.2e-09  Score=93.23  Aligned_cols=113  Identities=12%  Similarity=0.108  Sum_probs=63.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      .+++++||+|+...       .+.+.... ....+++++++|..   +...|  +..+...+.... ..+.|+|+|.||+
T Consensus        87 ~~l~~~Dt~g~~~~-------~~~l~~~~-~~~a~~~ilVydvt---~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~  155 (211)
T 2g3y_A           87 ATIILLDMWENKGE-------NEWLHDHC-MQVGDAYLIVYSIT---DRASFEKASELRIQLRRARQTEDIPIILVGNKS  155 (211)
T ss_dssp             EEEEEECCTTTTHH-------HHHHHHCC-CCCCSEEEEEEETT---CHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECT
T ss_pred             eEEEEeecCCCcch-------hhhHHHHH-HhhCCEEEEEEECC---CHHHHHHHHHHHHHHHHHhCCCCCcEEEEEECh
Confidence            35689999996541       11122111 11234667777764   33333  222322222111 2378999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+...+ .+..-.                  .       ..+...++ ..++++||++|+|++++++.|.+.+.
T Consensus       156 DL~~~r-~v~~~e------------------~-------~~~a~~~~-~~~~e~SAk~g~~v~elf~~l~~~i~  202 (211)
T 2g3y_A          156 DLVRCR-EVSVSE------------------G-------RACAVVFD-CKFIETSAAVQHNVKELFEGIVRQVR  202 (211)
T ss_dssp             TCGGGC-CSCHHH------------------H-------HHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHhcCc-eEeHHH------------------H-------HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            986432 211000                  0       00111223 47999999999999999999887653

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.02  E-value=2.4e-09  Score=97.89  Aligned_cols=128  Identities=20%  Similarity=0.225  Sum_probs=68.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHH--hcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMV--QLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~--~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+....  ......+....-  ...+++++++|+....+... +..+...+..+.  ..+.|+++|+||+
T Consensus        51 ~~~l~i~Dt~G~~~~~--~~~~~~~~~~~~--~~ad~vi~V~D~t~~~s~~~-l~~~~~~l~~l~~~~~~~piilv~NK~  125 (307)
T 3r7w_A           51 NMTLNLWDCGGQDVFM--ENYFTKQKDHIF--QMVQVLIHVFDVESTEVLKD-IEIFAKALKQLRKYSPDAKIFVLLHKM  125 (307)
T ss_dssp             TEEEEEEEECCSHHHH--HHHHTTTHHHHH--TTCSEEEEEEETTCSCHHHH-HHHHHHHHHHHHHHCTTCEEEEEEECG
T ss_pred             ceEEEEEECCCcHHHh--hhhhhhHHHHHh--ccCCEEEEEEECCChhhHHH-HHHHHHHHHHHHHhCCCCeEEEEEecc
Confidence            3468999999975421  000011112111  12468999999975543222 222222222222  2378999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHH-HHhcCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQI-DNCIQWG  267 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I-~~~l~~g  267 (284)
                      |+.... ......+                   .....+.++...+++  ..++++||++ .++.+++..+ .+.++..
T Consensus       126 Dl~~~~-~r~~~~~-------------------v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~li~~~  183 (307)
T 3r7w_A          126 DLVQLD-KREELFQ-------------------IMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSLIPNM  183 (307)
T ss_dssp             GGSCHH-HHHHHHH-------------------HHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHHTTCSCH
T ss_pred             cccchh-hhhHHHH-------------------HHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHHHHcCCH
Confidence            997622 1111100                   001122344466675  7999999999 6666655544 4444443

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.01  E-value=8.9e-10  Score=108.10  Aligned_cols=115  Identities=13%  Similarity=0.192  Sum_probs=66.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..++.++||||+.+...   ....+   +..   .+++++++|++...+..    .++..+... ..+.|+|+|.||+|+
T Consensus        97 ~~~~~i~Dt~G~e~~~~---~~~~~---l~~---~d~ii~V~D~s~~~~~~----~~~~~l~~~-~~~~pvilV~NK~Dl  162 (535)
T 3dpu_A           97 ECLFHFWDFGGQEIMHA---SHQFF---MTR---SSVYMLLLDSRTDSNKH----YWLRHIEKY-GGKSPVIVVMNKIDE  162 (535)
T ss_dssp             TCEEEEECCCSCCTTTT---TCHHH---HHS---SEEEEEEECGGGGGGHH----HHHHHHHHH-SSSCCEEEEECCTTT
T ss_pred             eEEEEEEECCcHHHHHH---HHHHH---ccC---CcEEEEEEeCCCchhHH----HHHHHHHHh-CCCCCEEEEEECCCc
Confidence            45799999999654322   12212   323   46899999986542222    222222221 125899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      .... ++..-                         .+.+.....+ ..++++||++|.|+++|++.|.+.+...+.
T Consensus       163 ~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~~vSA~~g~gi~eL~~~l~~~~~~~~~  211 (535)
T 3dpu_A          163 NPSY-NIEQK-------------------------KINERFPAIE-NRFHRISCKNGDGVESIAKSLKSAVLHPDS  211 (535)
T ss_dssp             CTTC-CCCHH-------------------------HHHHHCGGGT-TCEEECCC-----CTTHHHHHHHHHTCTTS
T ss_pred             cccc-ccCHH-------------------------HHHHHHHhcC-CceEEEecCcccCHHHHHHHHHHHHhcccc
Confidence            7533 21100                         0011122222 469999999999999999999999887654

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=98.99  E-value=5.3e-10  Score=104.19  Aligned_cols=119  Identities=9%  Similarity=0.134  Sum_probs=68.0

Q ss_pred             CCEEEEeCCCCccccc---ccc---hHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFT---HVP---VLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~---~~~---~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVl  188 (284)
                      .+++|+||||+.....   ...   ....++...-. ....++++++|+..-....+.. .+   +..+...+.|+++|+
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiL~v~~a~~~~~~~~~~-~i---~~~~~~~~~~~i~V~  204 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVT-KENCLILAVSPANSDLANSDAL-KV---AKEVDPQGQRTIGVI  204 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHT-STTEEEEEEEETTSCGGGCHHH-HH---HHHHCTTCTTEEEEE
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHc-CCCeEEEEEecCCCccchhHHH-HH---HHHhCcCCCceEEEe
Confidence            5799999999865321   111   12223332212 3356788888886421111211 11   222334679999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      ||+|++.+.....++++.          . .             .....++..++++||+++.|++.|++.+.+
T Consensus       205 NK~Dl~~~~~~~~~~~~~----------~-~-------------~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          205 TKLDLMDEGTDARDVLEN----------K-L-------------LPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             ECGGGSCTTCCCHHHHTT----------C-S-------------SCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             ccccccCcchhHHHHHhC----------C-c-------------ccccCCceEEEeCCcccccccccHHHHHHH
Confidence            999998644112222210          0 0             001124567889999999999999998876

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=98.98  E-value=1.1e-09  Score=104.85  Aligned_cols=120  Identities=13%  Similarity=0.258  Sum_probs=66.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH---HHHHHHHHHHHHHhcCC-CEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK---FISGCMASLSAMVQLEL-PHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~---~i~~~l~~l~~~~~~~~-p~IlVlN  189 (284)
                      +.++.|+||||+...      ...+..   .....+++++++|+... +-..   ........+......+. |+|+|+|
T Consensus        83 ~~~~~iiDtpG~~~f------~~~~~~---~~~~aD~~ilVvDa~~g-sfe~~~~~~~qt~~~~~~~~~~~~~~iivviN  152 (435)
T 1jny_A           83 KYFFTIIDAPGHRDF------VKNMIT---GASQADAAILVVSAKKG-EYEAGMSVEGQTREHIILAKTMGLDQLIVAVN  152 (435)
T ss_dssp             SCEEEECCCSSSTTH------HHHHHH---TSSCCSEEEEEEECSTT-HHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEE
T ss_pred             CeEEEEEECCCcHHH------HHHHHh---hhhhcCEEEEEEECCCC-ccccccccchHHHHHHHHHHHcCCCeEEEEEE
Confidence            567999999997541      122222   23345789999999752 0000   00000111112234565 5889999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHH-----------
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIR-----------  254 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~-----------  254 (284)
                      |+|+......- +.                   +......+.+++..+++    ..++|+||++|+|+.           
T Consensus       153 K~Dl~~~~~~~-~~-------------------~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~~~~~~~g  212 (435)
T 1jny_A          153 KMDLTEPPYDE-KR-------------------YKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSENMKWYNG  212 (435)
T ss_dssp             CGGGSSSTTCH-HH-------------------HHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCSSCTTCCS
T ss_pred             cccCCCccccH-HH-------------------HHHHHHHHHHHHHHcCCCcCCceEEEeecccCccccccccccccccc
Confidence            99997521000 00                   00111223344455553    579999999999997           


Q ss_pred             -HHHHHHHHh
Q 023298          255 -YVLSQIDNC  263 (284)
Q Consensus       255 -~Ll~~I~~~  263 (284)
                       .|++.++..
T Consensus       213 ~~Ll~~l~~~  222 (435)
T 1jny_A          213 PTLEEYLDQL  222 (435)
T ss_dssp             CCHHHHHTTC
T ss_pred             hhHHHHHhcc
Confidence             567776654

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=98.98  E-value=8.5e-09  Score=88.83  Aligned_cols=39  Identities=10%  Similarity=0.035  Sum_probs=33.8

Q ss_pred             EEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           21 IKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        21 ~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .++|.|+ | +||||+|.|||.+|+++|+||++  +|||++..
T Consensus         3 ~I~v~s~kgGvGKTt~a~nLa~~la~~G~rVll--~dp~~~~~   43 (224)
T 1byi_A            3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAG--YKPVASGS   43 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEE--ECSEEESC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEE--EcceecCC
Confidence            4777776 6 99999999999999999999999  57988644

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=98.97  E-value=3.9e-09  Score=89.26  Aligned_cols=110  Identities=15%  Similarity=0.178  Sum_probs=59.5

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      +++++||+|+......      +.+. ....   +++++++|..   +...|  +..+...+.... ..+.|+++|.||+
T Consensus        57 ~l~~~Dt~~~~~~~~~------~~~~~~~~~---~~~i~v~dv~---~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~  124 (192)
T 2cjw_A           57 TIILLDMWENKGENEW------LHDHCMQVG---DAYLIVYSIT---DRASFEKASELRIQLRRARQTEDIPIILVGNKS  124 (192)
T ss_dssp             EEEEECCCCC----CT------TGGGHHHHC---SEEEEEEETT---CHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECT
T ss_pred             EEEEEEeccCcchhhh------HHHhhcccC---CEEEEEEECC---CHHHHHHHHHHHHHHHHhhCCCCCeEEEEEech
Confidence            5688999997642111      1111 2222   3456666654   33333  222222222221 2368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+..++ .+. ..         +         +      ......++ ..++++||++|.|++++++.+.+.+
T Consensus       125 Dl~~~r-~v~-~~---------~---------~------~~~a~~~~-~~~~e~SA~~g~~v~~lf~~l~~~~  170 (192)
T 2cjw_A          125 DLVRXR-EVS-VS---------E---------G------RAXAVVFD-XKFIETSAAVQHNVKELFEGIVRQV  170 (192)
T ss_dssp             TCGGGC-CSC-HH---------H---------H------HHHHHHTT-CEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             hhhccc-ccc-HH---------H---------H------HHHHHHhC-CceEEeccccCCCHHHHHHHHHHHH
Confidence            986432 111 00         0         0      00011222 4789999999999999999888765

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=98.97  E-value=2.7e-08  Score=92.96  Aligned_cols=42  Identities=19%  Similarity=0.145  Sum_probs=38.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH--hcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE--TVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~--~~g~~v~iVdLDPq~~   59 (284)
                      +++++++.|.| +||||++.+||.+++  +.|+||++||+|||.+
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid~D~~~~   61 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLISTDPAHN   61 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSSCH
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCCCC
Confidence            45778899999 999999999999999  8999999999999976

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=98.96  E-value=5.2e-08  Score=91.10  Aligned_cols=42  Identities=14%  Similarity=0.105  Sum_probs=37.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH--hcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE--TVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~--~~g~~v~iVdLDPq~~   59 (284)
                      .++++++-|.| +||||++.|||..|+  +.|+||++||.||+.+
T Consensus        17 ~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD~D~~~~   61 (354)
T 2woj_A           17 THKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPAHN   61 (354)
T ss_dssp             SCCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSSCC
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCCCC
Confidence            35667788889 999999999999999  9999999999999855

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=98.93  E-value=1.2e-10  Score=110.70  Aligned_cols=67  Identities=13%  Similarity=0.139  Sum_probs=40.5

Q ss_pred             cCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHH-
Q 023298          180 LELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLS-  258 (284)
Q Consensus       180 ~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~-  258 (284)
                      ..+|+++|+||+|+..++ .+..+.                           +..... ...++|+||+.+.++.+|++ 
T Consensus       213 ~~kP~i~v~NK~D~~~~~-~l~~l~---------------------------~~~~~~-~~~vv~iSA~~e~~l~~L~~~  263 (397)
T 1wxq_A          213 VNKPMVIAANKADAASDE-QIKRLV---------------------------REEEKR-GYIVIPTSAAAELTLRKAAKA  263 (397)
T ss_dssp             HHSCEEEEEECGGGSCHH-HHHHHH---------------------------HHHHHT-TCEEEEECHHHHHHHHSCSSS
T ss_pred             cCCCEEEEEeCccccchH-HHHHHH---------------------------HHHhhc-CCcEEEEeccchhhHHHHHhh
Confidence            469999999999986211 121111                           111112 25799999999999999888 


Q ss_pred             HHHHhcCCCCCCCCCCC
Q 023298          259 QIDNCIQWGEDADLKIK  275 (284)
Q Consensus       259 ~I~~~l~~g~d~~~~~~  275 (284)
                      .+.+++|++++..+.+.
T Consensus       264 ~l~~~~p~~~~~~~~~~  280 (397)
T 1wxq_A          264 GFIEYIPGASEFKVLRD  280 (397)
T ss_dssp             CCCCSCC----------
T ss_pred             hhhhhcCCCcccccccc
Confidence            88899999999888765

>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=98.92  E-value=1.6e-08  Score=92.95  Aligned_cols=43  Identities=12%  Similarity=0.138  Sum_probs=39.3

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ..+.+++++|++ |||||++.+||.+++..|.+|++++.|++..
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~  145 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRA  145 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccH
Confidence            467889999999 9999999999999999999999999998653

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=98.90  E-value=2e-08  Score=83.79  Aligned_cols=77  Identities=16%  Similarity=0.250  Sum_probs=43.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh----cCCCEEEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ----LELPHVNI  187 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~----~~~p~IlV  187 (284)
                      ...+.++||||+....  ......+...+..   .+++++++|+.  .++..+  +..++..+.....    .+.|+++|
T Consensus        90 ~~~~~l~Dt~G~~~~~--~~~~~~~~~~~~~---~~~~i~v~d~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv  162 (193)
T 2ged_A           90 GSGVTLVDFPGHVKLR--YKLSDYLKTRAKF---VKGLIFMVDST--VDPKKLTTTAEFLVDILSITESSCENGIDILIA  162 (193)
T ss_dssp             CTTCSEEEETTCCBSS--CCHHHHHHHHGGG---EEEEEEEEETT--CCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEE
T ss_pred             CCeEEEEECCCCchHH--HHHHHHHHhhccc---CCEEEEEEECC--CCchhHHHHHHHHHHHHhhhhhccccCCCEEEE
Confidence            4578899999986532  1112222222222   36899999986  123222  2223222222222    37999999


Q ss_pred             ecCCccccch
Q 023298          188 LSKMDLVTNK  197 (284)
Q Consensus       188 lNK~Dll~~~  197 (284)
                      +||+|+....
T Consensus       163 ~nK~Dl~~~~  172 (193)
T 2ged_A          163 CNKSELFTAR  172 (193)
T ss_dssp             EECTTSTTCC
T ss_pred             EEchHhcCCC
Confidence            9999997654

>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=98.90  E-value=1.7e-09  Score=90.41  Aligned_cols=118  Identities=14%  Similarity=0.169  Sum_probs=65.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ...+.+.||||+.+....   ..   ..+..   .+++++++|.+..  ...+  +..++..+... ..+.|+++|.||+
T Consensus        55 ~~~~~i~Dt~G~~~~~~~---~~---~~~~~---~~~~i~v~d~~~~--~~s~~~~~~~~~~~~~~-~~~~piilv~nK~  122 (184)
T 2zej_A           55 DLVLNVWDFAGREEFYST---HP---HFMTQ---RALYLAVYDLSKG--QAEVDAMKPWLFNIKAR-ASSSPVILVGTHL  122 (184)
T ss_dssp             -CEEEEEEECSHHHHHTT---SH---HHHHH---SEEEEEEEEGGGC--HHHHHTHHHHHHHHHHH-CTTCEEEEEEECG
T ss_pred             ceEEEEEecCCCHHHHHh---hH---HHccC---CcEEEEEEeCCcc--hhHHHHHHHHHHHHHhh-CCCCcEEEEEECC
Confidence            346789999997542211   11   11333   2466777886432  1222  33333322111 1368999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCc---eEEEEeccCcc-cHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMV---SFMPLDLRKES-SIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~---~~ipiSa~~~~-~l~~Ll~~I~~~l~~  266 (284)
                      |+.... .......                   ..   ..++.+.+++.   .++++||+++. +++.|++.|.+.+..
T Consensus       123 Dl~~~~-~~~~~~~-------------------~~---~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~  178 (184)
T 2zej_A          123 DVSDEK-QRKACMS-------------------KI---TKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN  178 (184)
T ss_dssp             GGCCHH-HHHHHHH-------------------HH---HHHTTTCTTSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHC
T ss_pred             Ccccch-hhHHHHH-------------------HH---HHHHHHhcCCcchhheEEEecccCchhHHHHHHHHHHHHhc
Confidence            986533 2211100                   00   01122334443   48999999996 999999999887654

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=98.90  E-value=2.2e-08  Score=99.26  Aligned_cols=42  Identities=10%  Similarity=0.055  Sum_probs=38.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .++++++.|.| +||||++.+||.++++.|+||++||+||+.+
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlvd~D~~~~   49 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPASN   49 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCC
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEEECCCCcC
Confidence            35678888999 9999999999999999999999999999765

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=98.90  E-value=3.5e-09  Score=103.54  Aligned_cols=112  Identities=13%  Similarity=0.153  Sum_probs=65.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +..+.|+||||+.......         ...+...+++++++|+.....+...-     .+......+.|.|+|+||+|+
T Consensus        50 ~~~i~~iDTPGhe~f~~~~---------~~~~~~aD~aILVVda~~g~~~qT~e-----~l~~~~~~~vPiIVviNKiDl  115 (501)
T 1zo1_I           50 NGMITFLDTPGHAAFTSMR---------ARGAQATDIVVLVVAADDGVMPQTIE-----AIQHAKAAQVPVVVAVNKIDK  115 (501)
T ss_dssp             SSCCCEECCCTTTCCTTSB---------CSSSBSCSSEEEEEETTTBSCTTTHH-----HHHHHHHTTCCEEEEEECSSS
T ss_pred             CEEEEEEECCCcHHHHHHH---------HHHHhhCCEEEEEeecccCccHHHHH-----HHHHHHhcCceEEEEEEeccc
Confidence            3478999999975422111         11123346788999987543332211     111223568999999999999


Q ss_pred             ccch-hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHHHHHHHHH
Q 023298          194 VTNK-KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       194 l~~~-~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      .... ..+...+...           .            .+.+.++ ...++|+||++|.|+++|++.|..
T Consensus       116 ~~~~~~~v~~~l~~~-----------~------------~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          116 PEADPDRVKNELSQY-----------G------------ILPEEWGGESQFVHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             STTCCCCTTCCCCCC-----------C------------CCTTCCSSSCEEEECCTTTCTTCTTHHHHTTT
T ss_pred             cccCHHHHHHHHHHh-----------h------------hhHHHhCCCccEEEEeeeeccCcchhhhhhhh
Confidence            6421 1222211100           0            0001222 368999999999999999999865

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=98.87  E-value=4.3e-08  Score=98.89  Aligned_cols=67  Identities=16%  Similarity=0.258  Sum_probs=43.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ...+.++||||+...      ...+...+..+   +.+++++|+....++...  .+   +....+.+.|.++|+||+|+
T Consensus        73 ~~~~nliDTpG~~~f------~~~~~~~l~~a---d~~ilVvD~~~g~~~qt~--~~---~~~~~~~~ip~ilv~NKiD~  138 (665)
T 2dy1_A           73 GHRVFLLDAPGYGDF------VGEIRGALEAA---DAALVAVSAEAGVQVGTE--RA---WTVAERLGLPRMVVVTKLDK  138 (665)
T ss_dssp             TEEEEEEECCCSGGG------HHHHHHHHHHC---SEEEEEEETTTCSCHHHH--HH---HHHHHHTTCCEEEEEECGGG
T ss_pred             CEEEEEEeCCCccch------HHHHHHHHhhc---CcEEEEEcCCcccchhHH--HH---HHHHHHccCCEEEEecCCch
Confidence            346789999997641      22344455543   578889998655444322  11   12233568999999999998


Q ss_pred             c
Q 023298          194 V  194 (284)
Q Consensus       194 l  194 (284)
                      .
T Consensus       139 ~  139 (665)
T 2dy1_A          139 G  139 (665)
T ss_dssp             C
T ss_pred             h
Confidence            6

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=98.87  E-value=5.7e-09  Score=97.26  Aligned_cols=78  Identities=13%  Similarity=0.204  Sum_probs=42.7

Q ss_pred             CCCEEEEeCCCCccccc---ccchHHHH---HH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEE
Q 023298          114 DDDYLVFDCPGQIELFT---HVPVLRNF---VD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVN  186 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~---~~~~~~~l---~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~Il  186 (284)
                      ..++.++||||+.....   .......+   .. .+..   ++++++++|+........   .++..+..+...+.|+|+
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~---~d~iilvv~~~~~~~~~~---~~~~l~~~~~~~~~~~i~  208 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEK---PNCIILAISPANQDLATS---DAIKISREVDPSGDRTFG  208 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHS---SSEEEEEEEETTSCGGGC---HHHHHHHHSCTTCTTEEE
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhc---CCeEEEEeecccCCcCCH---HHHHHHHHhcccCCCEEE
Confidence            34789999999876321   11122222   22 2222   456777787643211111   111112233346789999


Q ss_pred             EecCCccccch
Q 023298          187 ILSKMDLVTNK  197 (284)
Q Consensus       187 VlNK~Dll~~~  197 (284)
                      |+||+|++.+.
T Consensus       209 V~nK~Dl~~~~  219 (360)
T 3t34_A          209 VLTKIDLMDKG  219 (360)
T ss_dssp             EEECGGGCCTT
T ss_pred             EEeCCccCCCc
Confidence            99999998644

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=98.85  E-value=7e-09  Score=95.91  Aligned_cols=42  Identities=24%  Similarity=0.233  Sum_probs=37.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +++++++-|.| +||||++.+||.+|++.|+||++||+||+.+
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD~D~~~~   60 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLISTDPAHN   60 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEECCTTCH
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECCCCcC
Confidence            35667777888 9999999999999999999999999999955

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=98.85  E-value=1.2e-08  Score=98.68  Aligned_cols=103  Identities=13%  Similarity=0.260  Sum_probs=55.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC---------CHHHHHHHHHHHHHHHHhcCCC-
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT---------DVTKFISGCMASLSAMVQLELP-  183 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~---------~~~~~i~~~l~~l~~~~~~~~p-  183 (284)
                      +.++.|+||||+.. |     ...+...+   ...+++++++|+....         .....+       ......+.| 
T Consensus       120 ~~~~~iiDtPGh~~-f-----~~~~~~~~---~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l-------~~~~~~~vp~  183 (467)
T 1r5b_A          120 HRRFSLLDAPGHKG-Y-----VTNMINGA---SQADIGVLVISARRGEFEAGFERGGQTREHA-------VLARTQGINH  183 (467)
T ss_dssp             SEEEEECCCCC-----------------T---TSCSEEEEEEECSTTHHHHTTSTTCCHHHHH-------HHHHHTTCSS
T ss_pred             CeEEEEEECCCcHH-H-----HHHHHhhc---ccCCEEEEEEeCCcCccccccCCCCcHHHHH-------HHHHHcCCCE
Confidence            45789999999754 1     11122222   3357899999997431         111111       122346788 


Q ss_pred             EEEEecCCccccc---hhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CC-----ceEEEEeccCcccHH
Q 023298          184 HVNILSKMDLVTN---KKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SM-----VSFMPLDLRKESSIR  254 (284)
Q Consensus       184 ~IlVlNK~Dll~~---~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~-----~~~ipiSa~~~~~l~  254 (284)
                      .|+|+||+|+...   +..+....                       ..+.+++... ++     ..++|+||++|+|+.
T Consensus       184 iivviNK~Dl~~~~~~~~~~~~i~-----------------------~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~  240 (467)
T 1r5b_A          184 LVVVINKMDEPSVQWSEERYKECV-----------------------DKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVK  240 (467)
T ss_dssp             EEEEEECTTSTTCSSCHHHHHHHH-----------------------HHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTS
T ss_pred             EEEEEECccCCCccccHHHHHHHH-----------------------HHHHHHHHHhcCCCccCCceEEecccccccccc
Confidence            8999999998531   10111111                       1122233333 32     569999999999987


Q ss_pred             H
Q 023298          255 Y  255 (284)
Q Consensus       255 ~  255 (284)
                      +
T Consensus       241 ~  241 (467)
T 1r5b_A          241 D  241 (467)
T ss_dssp             S
T ss_pred             c
Confidence            6

>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=98.84  E-value=1.8e-08  Score=92.05  Aligned_cols=43  Identities=9%  Similarity=0.060  Sum_probs=38.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq~~   59 (284)
                      .++.+++++|++ |||||++.+||.++.. .|++|.+++.|++..
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~  147 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRI  147 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSST
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccc
Confidence            356789999999 9999999999999985 899999999999753

>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=98.81  E-value=2.1e-08  Score=84.76  Aligned_cols=113  Identities=12%  Similarity=0.132  Sum_probs=63.2

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ++.+.||||+....   .....   .++.   .+++++++|.....+... +..++..+......+.|+++|+||+|+..
T Consensus        55 ~~~i~Dt~g~~~~~---~~~~~---~~~~---~~~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~  124 (199)
T 2f9l_A           55 KAQIWDTAGQERYR---RITSA---YYRG---AVGALLVYDIAKHLTYEN-VERWLKELRDHADSNIVIMLVGNKSDLRH  124 (199)
T ss_dssp             EEEEEECSSGGGTT---CCCHH---HHTT---CSEEEEEEETTCHHHHHT-HHHHHHHHHHHSCTTCEEEEEEECTTCGG
T ss_pred             EEEEEECCCchhhh---hhhHH---HHhc---CCEEEEEEECcCHHHHHH-HHHHHHHHHHhcCCCCeEEEEEECccccc
Confidence            56789999975421   11111   1222   356888899753211111 22232222222224689999999999854


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .. ...  .    +                ..   ..+..+.+ ..++.+||+++.|++++++.|.+.+.
T Consensus       125 ~~-~~~--~----~----------------~a---~~l~~~~~-~~~~d~Sal~~~~i~~l~~~l~~~~~  167 (199)
T 2f9l_A          125 LR-AVP--T----D----------------EA---RAFAEKNN-LSFIETSALDSTNVEEAFKNILTEIY  167 (199)
T ss_dssp             GC-CSC--H----H----------------HH---HHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cc-CcC--H----H----------------HH---HHHHHHcC-CeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            22 110  0    0                00   11122333 46888999999999999998887653

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.80  E-value=3e-08  Score=93.67  Aligned_cols=120  Identities=16%  Similarity=0.175  Sum_probs=72.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEH   96 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~   96 (284)
                      |-..|.++|.| ||||||...|+.             .++.....|+.                  .+-|+-+.+     
T Consensus        71 g~a~V~ivG~PNvGKSTL~n~Lt~-------------~~~~v~~~pft------------------T~~~~~g~~-----  114 (376)
T 4a9a_A           71 GVASVGFVGFPSVGKSTLLSKLTG-------------TESEAAEYEFT------------------TLVTVPGVI-----  114 (376)
T ss_dssp             SSEEEEEECCCCHHHHHHHHHHHS-------------BCCCGGGTCSS------------------CCCEEEEEE-----
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhC-------------CCCcccCCCCc------------------eeeeeeEEE-----
Confidence            44468999999 999999999875             22333333331                  111332221     


Q ss_pred             hhhcHHHHHHHHhhccCCCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHH
Q 023298           97 LEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLS  175 (284)
Q Consensus        97 ~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~  175 (284)
                                    .+.+.++.++||||.++... ....+++++..+..   ++++++++|+.   +|...+..+...+.
T Consensus       115 --------------~~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~---ad~il~vvD~~---~p~~~~~~i~~EL~  174 (376)
T 4a9a_A          115 --------------RYKGAKIQMLDLPGIIDGAKDGRGRGKQVIAVART---CNLLFIILDVN---KPLHHKQIIEKELE  174 (376)
T ss_dssp             --------------EETTEEEEEEECGGGCCC-----CHHHHHHHHHHH---CSEEEEEEETT---SHHHHHHHHHHHHH
T ss_pred             --------------EeCCcEEEEEeCCCccCCchhhhHHHHHHHHHHHh---cCccccccccC---ccHHHHHHHHHHHH
Confidence                          11145789999999987532 33456667777765   36899999986   44433332222222


Q ss_pred             HH-Hh-cCCCEEEEecCCcc
Q 023298          176 AM-VQ-LELPHVNILSKMDL  193 (284)
Q Consensus       176 ~~-~~-~~~p~IlVlNK~Dl  193 (284)
                      .. .+ .++|.++++||+|.
T Consensus       175 ~~~~~l~~k~~~i~~nK~d~  194 (376)
T 4a9a_A          175 GVGIRLNKTPPDILIKKKEK  194 (376)
T ss_dssp             HTTEEETCCCCCEEEEECSS
T ss_pred             HhhHhhccCChhhhhhHhhh
Confidence            22 12 36899999999996

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.78  E-value=1.6e-08  Score=101.52  Aligned_cols=140  Identities=14%  Similarity=0.168  Sum_probs=81.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+-+|||||+..      ....+.+.|..   .+.++++||+... ......++.      ...+.++|.|+++||+|
T Consensus        66 ~~~iNlIDTPGH~D------F~~Ev~raL~~---~DgavlVVDa~~GV~~qT~~v~~------~a~~~~lp~i~~INKmD  130 (638)
T 3j25_A           66 NTKVNIIDTPGHMD------FLAEVYRSLSV---LDGAILLISAKDGVQAQTRILFH------ALRKMGIPTIFFINKID  130 (638)
T ss_dssp             SCBCCCEECCCSSS------THHHHHHHHTT---CSEEECCEESSCTTCSHHHHHHH------HHHHHTCSCEECCEECC
T ss_pred             CEEEEEEECCCcHH------HHHHHHHHHHH---hCEEEEEEeCCCCCcHHHHHHHH------HHHHcCCCeEEEEeccc
Confidence            56789999999765      23445566654   4678889999765 333444433      23467899999999999


Q ss_pred             cccchh-----hhhhhcCc-------------------chHHHHHHhhhcc-----------hhHHHHHHHHHHHHHhcc
Q 023298          193 LVTNKK-----EIEDYLNP-------------------ESQFLLSELNQHM-----------APQFAKLNKSLIELVDEY  237 (284)
Q Consensus       193 ll~~~~-----~l~~~l~~-------------------~~~~l~~~l~~~~-----------~~~~~~l~~~i~~~l~~~  237 (284)
                      ....+.     ++.+.+..                   ....+.+.+.+..           .-....+...+...+...
T Consensus       131 r~~a~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~e~~d~l~e~~~~~~~~~~~~~~~~~~~~~~~~  210 (638)
T 3j25_A          131 QNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNVCVTNFTESEQWDTVIEGNDDLLEKYMSGKSLEALELEQEESIRFQNC  210 (638)
T ss_dssp             SSSCCSHHHHHHHHHTTCCCCCCCCCCCSCGGGCCCCCCCHHHHHHHHHHHCHHHHHHHHHCCCCSHHHHHHHHHHHHHT
T ss_pred             cccCCHHHHHHHHHHHhCCCccccceeEeeccccccccchhhhhhhhhcccHHHHhhhccCCccchHHHHHHHhhhhccc
Confidence            864221     11111100                   0000111110000           000011222333334445


Q ss_pred             CCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          238 SMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       238 ~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      .+..++..||+++.|++.|++.|.+.+|.-.
T Consensus       211 ~~~Pv~~gSa~~~~Gv~~LLd~i~~~~p~p~  241 (638)
T 3j25_A          211 SLFPLYHGSAKSNIGIDNLIEVITNKFYSST  241 (638)
T ss_dssp             SCCCCCCCCSTTCCSHHHHHHHHHHSCCCSG
T ss_pred             ccccccccccccCCCchhHhhhhhccccCcc
Confidence            5677788899999999999999999888643

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=98.76  E-value=4.1e-08  Score=87.37  Aligned_cols=23  Identities=17%  Similarity=0.093  Sum_probs=20.0

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      +...++|+|.+ |||||+...|..
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~   58 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIG   58 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            45679999999 999999998874

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=98.75  E-value=4.4e-07  Score=89.81  Aligned_cols=43  Identities=14%  Similarity=0.166  Sum_probs=37.1

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      +...+++.|.| +||||++.+||..+++.|++|++||+||+.+.
T Consensus       326 ~~~~~~~~~~~g~Gktt~a~~lA~~l~~~g~~vllvD~Dp~~~l  369 (589)
T 1ihu_A          326 EHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAAHL  369 (589)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC---
T ss_pred             CCeEEEEecCCCCChhhHHHHHHHHHHHCCCcEEEEeCCCcccH
Confidence            45667788899 99999999999999999999999999999763

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.73  E-value=2.3e-07  Score=91.63  Aligned_cols=67  Identities=18%  Similarity=0.218  Sum_probs=47.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+-||||||+...      .....+.|..+   +.+|++||+...-.+ ...++.      ...+.++|.|+++||+|
T Consensus        99 ~~~iNlIDTPGHvDF------~~Ev~raL~~~---DgAvlVvda~~GV~~qT~~v~~------~a~~~~lp~i~fINK~D  163 (548)
T 3vqt_A           99 DRVVNLLDTPGHQDF------SEDTYRVLTAV---DSALVVIDAAKGVEAQTRKLMD------VCRMRATPVMTFVNKMD  163 (548)
T ss_dssp             TEEEEEECCCCGGGC------SHHHHHHHHSC---SEEEEEEETTTBSCHHHHHHHH------HHHHTTCCEEEEEECTT
T ss_pred             CEEEEEEeCCCcHHH------HHHHHHHHHhc---CceEEEeecCCCcccccHHHHH------HHHHhCCceEEEEeccc
Confidence            568899999997752      23455667654   578889999865443 333433      33478999999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      ...
T Consensus       164 r~~  166 (548)
T 3vqt_A          164 REA  166 (548)
T ss_dssp             SCC
T ss_pred             chh
Confidence            854

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.69  E-value=3.8e-07  Score=92.57  Aligned_cols=67  Identities=16%  Similarity=0.176  Sum_probs=46.5

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++.+-+|||||+..      ......++|..+   +.++.+||+...-.+ ...++.      ...+.++|.|+++||+|
T Consensus        84 ~~~iNlIDTPGHvD------F~~Ev~~aLr~~---DgavlvVDaveGV~~qT~~v~~------~a~~~~lp~i~~iNKiD  148 (709)
T 4fn5_A           84 NYRVNVIDTPGHVD------FTIEVERSLRVL---DGAVVVFCGTSGVEPQSETVWR------QANKYGVPRIVYVNKMD  148 (709)
T ss_dssp             CEEEEEECCCSCTT------CHHHHHHHHHHC---SEEEEEEETTTCSCHHHHHHHH------HHHHHTCCEEEEEECSS
T ss_pred             CEEEEEEeCCCCcc------cHHHHHHHHHHh---CeEEEEEECCCCCchhHHHHHH------HHHHcCCCeEEEEcccc
Confidence            45688999999776      234456667654   567889999765333 333332      33467899999999999


Q ss_pred             ccc
Q 023298          193 LVT  195 (284)
Q Consensus       193 ll~  195 (284)
                      ...
T Consensus       149 r~~  151 (709)
T 4fn5_A          149 RQG  151 (709)
T ss_dssp             STT
T ss_pred             ccC
Confidence            854

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=98.68  E-value=1.2e-07  Score=84.67  Aligned_cols=23  Identities=13%  Similarity=0.067  Sum_probs=19.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      +...++|+|.+ |||||++..|..
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~   61 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIG   61 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhC
Confidence            35669999999 999999998874

>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=98.66  E-value=3.5e-07  Score=76.95  Aligned_cols=112  Identities=12%  Similarity=0.100  Sum_probs=61.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      ++.+.||||+......   ..   ..++.   .+.+++++|.....+.. .+..++..+......+.|+++|+||+|+..
T Consensus        79 ~~~i~Dt~g~~~~~~~---~~---~~~~~---~~~~i~v~d~~~~~s~~-~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~  148 (191)
T 1oix_A           79 KAQIWDTAGLERYRAI---TS---AYYRG---AVGALLVYDIAKHLTYE-NVERWLKELRDHADSNIVIMLVGNKSDLRH  148 (191)
T ss_dssp             EEEEEEECSCCSSSCC---CH---HHHTT---CCEEEEEEETTCHHHHH-THHHHHHHHHHHSCTTCEEEEEEECGGGGG
T ss_pred             EEEEEECCCCcchhhh---hH---HHhhc---CCEEEEEEECcCHHHHH-HHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence            4567899997542111   11   11222   24677888875321111 122222222222224689999999999854


Q ss_pred             chhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          196 NKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       196 ~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .. ...  .                    ...   ..+..+.+ ..++.+||+++.|++++++.|.+.+
T Consensus       149 ~~-~~~--~--------------------~~a---~~l~~~~~-~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          149 LR-AVP--T--------------------DEA---RAFAEKNG-LSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             GC-CSC--H--------------------HHH---HHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cc-ccC--H--------------------HHH---HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            22 110  0                    000   11112233 4788899999999999999987653

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=98.63  E-value=6.1e-07  Score=84.42  Aligned_cols=42  Identities=12%  Similarity=0.092  Sum_probs=30.3

Q ss_pred             CCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCC
Q 023298          115 DDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQF  159 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~  159 (284)
                      ..+.++||||+.+... ....++++..++..   .+++++++|+..
T Consensus        69 ~~i~lvDtpGl~~~a~~~~~lg~~fl~~ir~---ad~ii~VvD~~~  111 (368)
T 2dby_A           69 THVEFVDIAGLVKGAHKGEGLGNQFLAHIRE---VAAIAHVLRCFP  111 (368)
T ss_dssp             CEEEEEECCSCCCCCCSSSCTTHHHHHHHHT---CSEEEEEEECCC
T ss_pred             ceEEEEECCCccccccccchHHHHHHHHHHh---CCEEEEEEECCC
Confidence            4689999999987532 23455667777765   368999999974

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.62  E-value=1.6e-08  Score=94.81  Aligned_cols=87  Identities=16%  Similarity=0.270  Sum_probs=46.0

Q ss_pred             eEEEEEecC-CCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHH
Q 023298          149 VCAVYLLDS-QFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLN  227 (284)
Q Consensus       149 ~vil~LiDa-~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~  227 (284)
                      ++++|+|+. .....+.+.  .++..    ...+.|+|+|+||+|+.... ++..+.                       
T Consensus       147 ~~~vy~I~~~~~~l~~~d~--~~~~~----l~~~~piIlV~NK~Dl~~~~-ev~~~k-----------------------  196 (361)
T 2qag_A          147 HCCFYFISPFGHGLKPLDV--AFMKA----IHNKVNIVPVIAKADTLTLK-ERERLK-----------------------  196 (361)
T ss_dssp             CEEEEEECSSSSSCCHHHH--HHHHH----TCS-SCEEEEEECCSSSCHH-HHHHHH-----------------------
T ss_pred             EEEEEEEecCCCCcchhHH--HHHHH----hccCCCEEEEEECCCCCCHH-HHHHHH-----------------------
Confidence            357888876 333333332  11121    23578999999999997644 333221                       


Q ss_pred             HHHHHHHhccCCceEEEEeccCccc---HHHHHHHHHHhcCC
Q 023298          228 KSLIELVDEYSMVSFMPLDLRKESS---IRYVLSQIDNCIQW  266 (284)
Q Consensus       228 ~~i~~~l~~~~~~~~ipiSa~~~~~---l~~Ll~~I~~~l~~  266 (284)
                      ..+.+.+..++ ..++++||+++.+   +..+...|.+.+|.
T Consensus       197 ~~i~~~~~~~~-i~~~~~Sa~~~~~~e~~~~l~~~i~~~ip~  237 (361)
T 2qag_A          197 KRILDEIEEHN-IKIYHLPDAESDEDEDFKEQTRLLKASIPF  237 (361)
T ss_dssp             HHHHHHTTCC--CCSCCCC---------CHHHHHHHHHTCSC
T ss_pred             HHHHHHHHHCC-CCEEeCCCcCCCcchhHHHHHHHHHhcCCC
Confidence            12233344444 5789999998876   44566777777776

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.61  E-value=3.2e-08  Score=97.74  Aligned_cols=77  Identities=16%  Similarity=0.149  Sum_probs=44.2

Q ss_pred             CEEEEeCCCCcccccc---cch-HHHHH-HHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEec
Q 023298          116 DYLVFDCPGQIELFTH---VPV-LRNFV-DHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILS  189 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~---~~~-~~~l~-~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlN  189 (284)
                      +++||||||+......   ... ...+. ..+..   .+++++++|+... .....  ..+   +..+.+.+.|+++|+|
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~---aD~il~VvDa~~~~~~~~~--~~~---l~~l~~~~~pvilVlN  226 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAER---VDLIILLFDAHKLEISDEF--SEA---IGALRGHEDKIRVVLN  226 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHH---CSEEEEEEETTSCCCCHHH--HHH---HHHTTTCGGGEEEEEE
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHh---CCEEEEEEeCCcCCCCHHH--HHH---HHHHHhcCCCEEEEEE
Confidence            6899999998752110   000 11222 22333   3689999999764 22221  111   2223345789999999


Q ss_pred             CCccccchhhhh
Q 023298          190 KMDLVTNKKEIE  201 (284)
Q Consensus       190 K~Dll~~~~~l~  201 (284)
                      |+|++..+ ++.
T Consensus       227 K~Dl~~~~-el~  237 (550)
T 2qpt_A          227 KADMVETQ-QLM  237 (550)
T ss_dssp             CGGGSCHH-HHH
T ss_pred             CCCccCHH-HHH
Confidence            99998654 443

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=98.61  E-value=3.5e-07  Score=81.05  Aligned_cols=88  Identities=14%  Similarity=0.079  Sum_probs=55.9

Q ss_pred             CeEEEEEecCCCC--CCHHHHHHHHHHHHHHH-HhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHH
Q 023298          148 NVCAVYLLDSQFI--TDVTKFISGCMASLSAM-VQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFA  224 (284)
Q Consensus       148 ~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~-~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~  224 (284)
                      .+++++++|+...  .+-.. +..++..+... ...+.|+++|.||+|+..+. .+.+.                     
T Consensus       163 ad~vilV~D~t~~~~~s~~~-~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~-~v~~~---------------------  219 (255)
T 3c5h_A          163 VDGFLLGIDVSRGMNRNFDD-QLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER-YIRDA---------------------  219 (255)
T ss_dssp             CCEEEEEEECBC----CHHH-HHHHHHHHHHHHHHTTCCEEEEEECGGGBCHH-HHHHH---------------------
T ss_pred             CCEEEEEEECCCCchhhHHH-HHHHHHHHHHHhccCCCCEEEEEEcccccccH-HHHHH---------------------
Confidence            4789999998653  33222 33444333322 23578999999999986433 22111                     


Q ss_pred             HHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          225 KLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       225 ~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                            .++........++++||++|.|++++++.|.+.+
T Consensus       220 ------~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l  253 (255)
T 3c5h_A          220 ------HTFALSKKNLQVVETSARSNVNVDLAFSTLVQLI  253 (255)
T ss_dssp             ------HHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             ------HHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence                  1111222235899999999999999999987764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.58  E-value=5.4e-08  Score=85.82  Aligned_cols=44  Identities=2%  Similarity=-0.158  Sum_probs=40.2

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      .|...+++.|+| |||||++.++|..+++.|++|+++++|||++.
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~   48 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRA   48 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCCh
Confidence            355668999999 99999999999999999999999999999874

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=98.58  E-value=1.2e-07  Score=89.38  Aligned_cols=40  Identities=5%  Similarity=0.065  Sum_probs=37.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++++++.|.| +||||++.++|.++++.|+||++||+ ||.+
T Consensus         2 ~~i~~~~gkGG~GKTt~a~~la~~la~~g~~vllvd~-~~~~   42 (374)
T 3igf_A            2 ALILTFLGKSGVARTKIAIAAAKLLASQGKRVLLAGL-AEPV   42 (374)
T ss_dssp             CEEEEEECSBHHHHHHHHHHHHHHHHHTTCCEEEEEC-SCSH
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHCCCCeEEEeC-CCCC
Confidence            4568889999 99999999999999999999999999 9987

>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=98.51  E-value=2.6e-06  Score=78.92  Aligned_cols=42  Identities=10%  Similarity=-0.045  Sum_probs=38.4

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      .++.++.++||. |||||++..|+.++...+.+|.+++.|+..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r  169 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFR  169 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccc
Confidence            467889999999 999999999999999999999999999754

>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=98.44  E-value=1.5e-06  Score=84.78  Aligned_cols=44  Identities=14%  Similarity=0.021  Sum_probs=39.0

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ...++.++.|+|+. |||||++..|+.++...+.+|.+.+.|+..
T Consensus       289 ~i~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r  333 (503)
T 2yhs_A          289 EGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFR  333 (503)
T ss_dssp             CSCTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTC
T ss_pred             eccCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcccc
Confidence            35678889999999 999999999999999888899999888754

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=98.40  E-value=9.5e-07  Score=80.58  Aligned_cols=84  Identities=17%  Similarity=0.208  Sum_probs=42.6

Q ss_pred             eEEEEEecCCC-CCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHH
Q 023298          149 VCAVYLLDSQF-ITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLN  227 (284)
Q Consensus       149 ~vil~LiDa~~-~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~  227 (284)
                      ++++|+++... ..++...  .++.   .+ ..+.|+++|+||+|+...+ ++..+.                       
T Consensus       128 ~~ll~ldePt~~~Ld~~~~--~~l~---~l-~~~~~iilV~~K~Dl~~~~-e~~~~~-----------------------  177 (301)
T 2qnr_A          128 HCCFYFISPFGHGLKPLDV--AFMK---AI-HNKVNIVPVIAKADTLTLK-ERERLK-----------------------  177 (301)
T ss_dssp             CEEEEEECSSSSSCCHHHH--HHHH---HH-TTTSCEEEEECCGGGSCHH-HHHHHH-----------------------
T ss_pred             hheeeeecCcccCCCHHHH--HHHH---HH-HhcCCEEEEEEeCCCCCHH-HHHHHH-----------------------
Confidence            34777777543 2455442  2222   11 2357999999999997543 332211                       


Q ss_pred             HHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          228 KSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       228 ~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..+.+.+..++ ..++++||+++ ++++++..+.+.+
T Consensus       178 ~~~~~~~~~~~-~~~~e~Sa~~~-~v~e~f~~l~~~i  212 (301)
T 2qnr_A          178 KRILDEIEEHN-IKIYHLPDAES-DEDEDFKEQTRLL  212 (301)
T ss_dssp             HHHHHHHHHTT-CCCCCCC----------CHHHHHHH
T ss_pred             HHHHHHHHHcC-CeEEecCCccc-cccHHHHHHHHHh
Confidence            11233344555 58899999999 9999877666554

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=98.35  E-value=1.2e-05  Score=75.48  Aligned_cols=43  Identities=7%  Similarity=0.010  Sum_probs=28.7

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCC
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQF  159 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~  159 (284)
                      ..++.++||||+.+... ....++.+..++..   .+++++++|+..
T Consensus        65 ~~~i~lvDtpGl~~~a~~~~gl~~~fl~~ir~---ad~il~VvD~~~  108 (363)
T 1jal_A           65 PTTMEFVDIAGLVAGASKGEGLGNKFLANIRE---TDAIGHVVRCFE  108 (363)
T ss_dssp             CCEEEEEECCSCCTTHHHHGGGTCCHHHHHHT---CSEEEEEEECSC
T ss_pred             eeEEEEEECCCCcccccccchHHHHHHHHHHh---cCeEEEEEecCC
Confidence            35789999999886421 12333445566654   368999999874

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.32  E-value=9.9e-07  Score=84.33  Aligned_cols=88  Identities=10%  Similarity=0.273  Sum_probs=40.3

Q ss_pred             eEEEEEecCC-CCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHH
Q 023298          149 VCAVYLLDSQ-FITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLN  227 (284)
Q Consensus       149 ~vil~LiDa~-~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~  227 (284)
                      .+++|++++. ...++.+.  .++.   .+ ..+.|+|+|+||+|++... ++..+.+                      
T Consensus       140 ~vlL~ldePt~~~L~~~d~--~~lk---~L-~~~v~iIlVinK~Dll~~~-ev~~~k~----------------------  190 (418)
T 2qag_C          140 QCCLYFIAPSGHGLKPLDI--EFMK---RL-HEKVNIIPLIAKADTLTPE-ECQQFKK----------------------  190 (418)
T ss_dssp             CEEEEECCC-CCSCCHHHH--HHHH---HH-TTTSEEEEEEESTTSSCHH-HHHHHHH----------------------
T ss_pred             eEEEEEecCcccCCCHHHH--HHHH---HH-hccCcEEEEEEcccCccHH-HHHHHHH----------------------
Confidence            3577777765 33455442  1222   12 2378999999999998654 4443321                      


Q ss_pred             HHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCC
Q 023298          228 KSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       228 ~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g  267 (284)
                       .+.+.+..++ ..++..|+.+++++..+...+...+|+.
T Consensus       191 -~i~~~~~~~~-i~~~~~sa~~~~~v~~~~~~l~~~iPfa  228 (418)
T 2qag_C          191 -QIMKEIQEHK-IKIYEFPETDDEEENKLVKKIKDRLPLA  228 (418)
T ss_dssp             -HHHHHHHHHT-CCCCCCC-----------------CCEE
T ss_pred             -HHHHHHHHcC-CeEEeCCCCCCcCHHHHHHHHHhhCCcc
Confidence             1122233333 5678889999999999988898888874

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=98.30  E-value=5.5e-06  Score=72.64  Aligned_cols=163  Identities=12%  Similarity=0.103  Sum_probs=83.7

Q ss_pred             cCceEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCcccccc--cccc----H---HHHhhhcCcc
Q 023298           17 YALVIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIR--ELIS----L---EDVMEELGLG   85 (284)
Q Consensus        17 ~~~~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir--~~i~----~---~~vm~~~~lg   85 (284)
                      ++++.++|.|+.  |||||.+..|+.+|+++|++|..  .-|.++...+..+ .++  |...    .   .+.+.-+-+.
T Consensus         2 ~~mk~i~Itgt~t~vGKT~vt~~L~~~l~~~G~~V~~--~KPv~~g~~~~~~-~~~~~D~~~~~~~~~~~~~~~~~~~~~   78 (228)
T 3of5_A            2 NAMKKFFIIGTDTEVGKTYISTKLIEVCEHQNIKSLC--LKPVASGQSQFSE-LCEDVESILNAYKHKFTAAEINLISFN   78 (228)
T ss_dssp             TTCEEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEE--ECSEEESBCSSSS-SBHHHHHHHHHTTTSSCHHHHCSEEES
T ss_pred             CCCcEEEEEeCCCCCCHHHHHHHHHHHHHHCCCeeEE--ecceeecCccCCC-CCChHHHHHHhcCCCCChhhEEEEEEC
Confidence            356779999996  99999999999999999999999  4576554333110 010  1000    0   0001101110


Q ss_pred             cCchhhhhhHhhh--hcHHHHHHHHhhc-cC-CCCEEEEeCCCCccc-ccccchHHHHHHHHHhcCCCeEEEEEecCCCC
Q 023298           86 PNGGLIYCMEHLE--DNLDDWLAEELDN-YL-DDDYLVFDCPGQIEL-FTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI  160 (284)
Q Consensus        86 Png~l~~~~e~~~--~~~~~~l~~~l~~-~~-~~~~viiDtPg~~e~-~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~  160 (284)
                      +.-+.-.+.++..  ... +.+.+.+++ .. ++++++||+||.... .......-.+.+.+   +..  ++.++++...
T Consensus        79 ~p~sp~~aa~~~~~~i~~-~~i~~~~~~~l~~~~D~vlIEgaggl~~p~~~~~~~adla~~l---~~p--viLV~~~~~~  152 (228)
T 3of5_A           79 QAVAPHIIAAKTKVDISI-ENLKQFIEDKYNQDLDILFIEGAGGLLTPYSDHTTQLDLIKAL---QIP--VLLVSAIKVG  152 (228)
T ss_dssp             SSSCHHHHHHHTTCCCCH-HHHHHHHHGGGGSSCSEEEEEEEEETTCBSSSSCBHHHHHHHH---TCC--EEEEEECSTT
T ss_pred             CCCCHHHHHHHcCCCCCH-HHHHHHHHHHHHccCCEEEEECCCccccccccchhHHHHHHHc---CCC--EEEEEcCCcc
Confidence            0000000111100  012 233444443 22 789999999985432 11111223344444   212  5667777532


Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCCE-EEEecCCcc
Q 023298          161 TDVTKFISGCMASLSAMVQLELPH-VNILSKMDL  193 (284)
Q Consensus       161 ~~~~~~i~~~l~~l~~~~~~~~p~-IlVlNK~Dl  193 (284)
                      .     +...+.++..+.+.+.++ =+|+||++.
T Consensus       153 ~-----i~~~~~~~~~l~~~~~~i~GvIlN~~~~  181 (228)
T 3of5_A          153 C-----INHTLLTINELNRHNIKLAGWIANCNDS  181 (228)
T ss_dssp             H-----HHHHHHHHHHHHHTTCCEEEEEEEECCT
T ss_pred             h-----HHHHHHHHHHHHhCCCcEEEEEEECcCC
Confidence            1     333334455555667775 477999864

>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=98.27  E-value=2.9e-05  Score=70.98  Aligned_cols=41  Identities=12%  Similarity=0.026  Sum_probs=37.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ++.++.++||. |||||++..|+.++...+.+|.+.+.|...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~D~~r  142 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFR  142 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeecCCC
Confidence            46789999999 999999999999999889999999999764

>3qxc_A Dethiobiotin synthetase; DTBS, structural genomics, ATP BIND biology, protein structure initiative, midwest center for S genomics, MCSG; HET: ATP; 1.34A {Helicobacter pylori} PDB: 3mle_A* 3qxh_A* 3qxj_A* 3qxs_A* 3qxx_A* 3qy0_A* 2qmo_A

Probab=98.12  E-value=0.00014  Score=64.39  Aligned_cols=161  Identities=13%  Similarity=0.137  Sum_probs=85.6

Q ss_pred             ceEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCC-C-cccccccc----------ccHHHHhhhcCc
Q 023298           19 LVIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDY-P-VAMDIREL----------ISLEDVMEELGL   84 (284)
Q Consensus        19 ~~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~-~-~~~dir~~----------i~~~~vm~~~~l   84 (284)
                      .+.++|.|+.  |||||.+..|+.+|+++|++|..+  .|++..... . .+.|...+          +.. +-+..+-+
T Consensus        21 ~k~i~ItgT~t~vGKT~vs~gL~~~L~~~G~~V~~f--KPv~~g~~~~~~~~~D~~~~~~~~~~~~~g~~~-~~~~p~~~   97 (242)
T 3qxc_A           21 GHMLFISATNTNAGKTTCARLLAQYCNACGVKTILL--KPIETGVNDAINHSSDAHLFLQDNRLLDRSLTL-KDISFYRY   97 (242)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEE--CCEECSCCTTTCCCSHHHHHHHHHHTTCTTCCH-HHHCCEEC
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHhCCCceEEE--eeeecCCcccCCCCchHHHHHHHHHHHhCCCCh-HHeeeEEE
Confidence            3668999996  999999999999999999999997  565543211 0 11232221          000 11111111


Q ss_pred             c-cCchhhhh-hHhh--hhcHHHHHHHHhhccC-CCCEEEEeCCCCccc-ccccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298           85 G-PNGGLIYC-MEHL--EDNLDDWLAEELDNYL-DDDYLVFDCPGQIEL-FTHVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus        85 g-Png~l~~~-~e~~--~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~-~~~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                      . |....+.+ .+-.  .... +.+.+.+++.. ++++++|+++|.... .......-.+.+.+   +  .-+++++++.
T Consensus        98 ~~p~sp~~aa~~~g~~~~i~~-~~I~~~~~~l~~~~D~vlIEGagGl~~pl~~~~~~adlA~~l---~--~pVILV~~~~  171 (242)
T 3qxc_A           98 HKVSAPLIAQQEEDPNAPIDT-DNLTQRLHNFTKTYDLVIVEGAGGLCVPITLEENMLDFALKL---K--AKMLLISHDN  171 (242)
T ss_dssp             SSSSCHHHHHHHHCTTCCCCH-HHHHHHHHHGGGTCSEEEEECCSCTTCBSSSSCBHHHHHHHH---T--CEEEEEECCS
T ss_pred             CCCCChHHHHHHcCCCCcCCH-HHHHHHHHHHHhcCCEEEEECCCCccccccccchHHHHHHHc---C--CCEEEEEcCC
Confidence            0 11111111 0100  0012 22333333322 789999999985532 11112223344444   2  2367778875


Q ss_pred             CCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          159 FITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       159 ~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..     -+...+.++..+.+.+.+.=+|+|+++-
T Consensus       172 lg-----~i~~~~lt~~~l~~~g~~~GvIlN~v~~  201 (242)
T 3qxc_A          172 LG-----LINDCLLNDFLLKSHQLDYKIAINLKGN  201 (242)
T ss_dssp             TT-----HHHHHHHHHHHHHTSSSCEEEEECCCTT
T ss_pred             Cc-----HHHHHHHHHHHHHhCCCCEEEEEeCCCC
Confidence            32     2444445555666666667788999874

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=98.10  E-value=8.9e-06  Score=75.69  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcccHHHHHHHHHHhc
Q 023298          240 VSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       240 ~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .-++..||++..|+..++..+.+.+
T Consensus       302 iy~h~TsA~dt~nv~~vF~~v~~~I  326 (340)
T 4fid_A          302 VYTNPTNATDGSNIKRVFMLAVDVI  326 (340)
T ss_dssp             EEEEEECTTCHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEeeCcHHHHHHHHHHHHHH
Confidence            5678999999999999998877653

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=98.09  E-value=6.2e-06  Score=85.21  Aligned_cols=67  Identities=16%  Similarity=0.163  Sum_probs=43.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ++.+.|+||||+....      ......+..   .+.+++++|+....+.... ..    +....+.+.|.++|+||+|+
T Consensus        97 ~~~i~liDTPG~~df~------~~~~~~l~~---aD~ailVvDa~~g~~~qt~-~~----~~~~~~~~~p~ilviNK~D~  162 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFS------SEVTAALRV---TDGALVVVDTIEGVCVQTE-TV----LRQALGERIKPVVVINKVDR  162 (842)
T ss_dssp             EEEEEEECCCCCCSSC------HHHHHHHHT---CSEEEEEEETTTBSCHHHH-HH----HHHHHHTTCEEEEEEECHHH
T ss_pred             CceEEEEECcCchhhH------HHHHHHHHh---CCEEEEEEeCCCCCCHHHH-HH----HHHHHHcCCCeEEEEECCCc
Confidence            3568999999987621      123344544   3678999999865444332 11    11223568999999999998


Q ss_pred             c
Q 023298          194 V  194 (284)
Q Consensus       194 l  194 (284)
                      .
T Consensus       163 ~  163 (842)
T 1n0u_A          163 A  163 (842)
T ss_dssp             H
T ss_pred             c
Confidence            6

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=98.05  E-value=5.3e-05  Score=70.17  Aligned_cols=121  Identities=22%  Similarity=0.166  Sum_probs=65.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCC-HHHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITD-VTKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~-~~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .++-|.|||||-...  .+..  +.+ .+..   ..++++++|+..... ....+..++..+.. ..-+.|+++|.||+|
T Consensus        46 v~LqIWDTAGQErf~--~~~l--~~~~yyr~---a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~-~~~~ipillvgNK~D  117 (331)
T 3r7w_B           46 IDLAVMELPGQLNYF--EPSY--DSERLFKS---VGALVYVIDSQDEYINAITNLAMIIEYAYK-VNPSINIEVLIHKVD  117 (331)
T ss_dssp             SCEEEEECCSCSSSC--CCSH--HHHHHHTT---CSEEEEECCCSSCTTHHHHHHHHHHHHHHH-HCTTCEEEEECCCCC
T ss_pred             EEEEEEECCCchhcc--chhh--hhhhhccC---CCEEEEEEECCchHHHHHHHHHHHHHHHhh-cCCCCcEEEEEECcc
Confidence            468999999997632  1111  111 1333   357999999875311 11122222221111 123689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc----CCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY----SMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~----~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +..+. +-...                   .+.......+-+.+.    ....|+.-||++ .++.+.+..|...+
T Consensus       118 L~~~~-~R~~~-------------------~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~l  172 (331)
T 3r7w_B          118 GLSED-FKVDA-------------------QRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKL  172 (331)
T ss_dssp             SSCSH-HHHHH-------------------HHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHTTS
T ss_pred             cCchh-hhhhH-------------------HHHhhHHHHHHHHhhcccccCceEEEeccCC-CcHHHHHHHHHHHH
Confidence            97643 11000                   001111112222232    136899999998 58988887776543

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.05  E-value=6e-06  Score=74.69  Aligned_cols=100  Identities=14%  Similarity=0.220  Sum_probs=62.3

Q ss_pred             eCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhh
Q 023298          121 DCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKE  199 (284)
Q Consensus       121 DtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~  199 (284)
                      ..||++...     .+++.+.+..   .+++++++|+...... ...+..+       . .++|.++|+||+|++... .
T Consensus         5 w~PGhm~ka-----~~~~~~~l~~---aDvVl~VvDAr~p~~~~~~~l~~~-------l-~~kp~ilVlNK~DL~~~~-~   67 (282)
T 1puj_A            5 WFPGHMAKA-----RREVTEKLKL---IDIVYELVDARIPMSSRNPMIEDI-------L-KNKPRIMLLNKADKADAA-V   67 (282)
T ss_dssp             ----CTTHH-----HHHHHHHGGG---CSEEEEEEETTSTTTTSCHHHHHH-------C-SSSCEEEEEECGGGSCHH-H
T ss_pred             CCchHHHHH-----HHHHHHHHhh---CCEEEEEEeCCCCCccCCHHHHHH-------H-CCCCEEEEEECcccCCHH-H
Confidence            578876421     2344455544   4789999999754222 2223322       1 479999999999998643 3


Q ss_pred             hhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          200 IEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       200 l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .+.|.                           +.+++.+ ..++++||.++.|+.+|++.+.+.++
T Consensus        68 ~~~~~---------------------------~~~~~~g-~~~i~iSA~~~~gi~~L~~~i~~~l~  105 (282)
T 1puj_A           68 TQQWK---------------------------EHFENQG-IRSLSINSVNGQGLNQIVPASKEILQ  105 (282)
T ss_dssp             HHHHH---------------------------HHHHTTT-CCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             HHHHH---------------------------HHHHhcC-CcEEEEECCCcccHHHHHHHHHHHHH
Confidence            33332                           2223333 37899999999999999998887764

>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=98.04  E-value=2.1e-05  Score=74.98  Aligned_cols=127  Identities=11%  Similarity=0.104  Sum_probs=69.0

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      +..+.|+||...  .. .....+++.+.-.+. +..++ ++..........++.      .+.+.++|+++|+||.|++-
T Consensus       121 ~ltv~D~~g~~~--~~-~~~~~~L~~~~L~~~-~~~~~-lS~G~~~kqrv~la~------aL~~~~~p~~lV~tkpdlll  189 (413)
T 1tq4_A          121 NVVFWDLPGIGS--TN-FPPDTYLEKMKFYEY-DFFII-ISATRFKKNDIDIAK------AISMMKKEFYFVRTKVDSDI  189 (413)
T ss_dssp             TEEEEECCCGGG--SS-CCHHHHHHHTTGGGC-SEEEE-EESSCCCHHHHHHHH------HHHHTTCEEEEEECCHHHHH
T ss_pred             CeeehHhhcccc--hH-HHHHHHHHHcCCCcc-CCeEE-eCCCCccHHHHHHHH------HHHhcCCCeEEEEecCcccc
Confidence            678999999653  22 223334444321122 23344 555432222222322      33456899999999999852


Q ss_pred             -chh--hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHH----Hhc--cCCceEEEEec--cCcccHHHHHHHHHHhc
Q 023298          196 -NKK--EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIEL----VDE--YSMVSFMPLDL--RKESSIRYVLSQIDNCI  264 (284)
Q Consensus       196 -~~~--~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~----l~~--~~~~~~ipiSa--~~~~~l~~Ll~~I~~~l  264 (284)
                       ++.  .+....   ..               ++...|.++    +.+  ..+..++++|+  .++.+++.|.+.|.+.+
T Consensus       190 LDEPtsgLD~~~---~~---------------~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~L  251 (413)
T 1tq4_A          190 TNEADGEPQTFD---KE---------------KVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDL  251 (413)
T ss_dssp             HHHHTTCCTTCC---HH---------------HHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHS
T ss_pred             cCcccccCCHHH---HH---------------HHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhC
Confidence             110  010000   00               111111222    122  23568999999  56667999999999999


Q ss_pred             CCCCCCC
Q 023298          265 QWGEDAD  271 (284)
Q Consensus       265 ~~g~d~~  271 (284)
                      |+|+..-
T Consensus       252 peg~~~~  258 (413)
T 1tq4_A          252 PIYKRHN  258 (413)
T ss_dssp             CGGGHHH
T ss_pred             ccchhhH
Confidence            9998443

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=97.98  E-value=2.8e-06  Score=80.62  Aligned_cols=30  Identities=13%  Similarity=0.129  Sum_probs=23.1

Q ss_pred             cccccccCceEEEEECCC-CcHHHHHHHHHH
Q 023298           11 GYMSWLYALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        11 ~~~~~~~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      .+...+.....+.++|++ |||||+...|+.
T Consensus        14 ~l~g~i~~~~kvgIVG~pnvGKSTL~n~Ltg   44 (396)
T 2ohf_A           14 PIIGRFGTSLKIGIVGLPNVGKSTFFNVLTN   44 (396)
T ss_dssp             --CCCSSSCCCEEEECCSSSSHHHHHHHHHC
T ss_pred             HHHhhccCCCEEEEECCCCCCHHHHHHHHHC
Confidence            345555556669999999 999999999875

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=97.92  E-value=3.7e-05  Score=71.78  Aligned_cols=29  Identities=10%  Similarity=-0.045  Sum_probs=22.5

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHHH
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYRH   41 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~~   41 (284)
                      |.+-.....++++|.| |||||+.+.+.-.
T Consensus         3 ~~~~~~~~k~lllG~~~sGKsT~~kq~~~~   32 (354)
T 2xtz_A            3 MGSGIHIRKLLLLGAGESGKSTIFKQIKLL   32 (354)
T ss_dssp             CCCCCEEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccCCCCceeEEEECCCCCcHHHHHHHHHHH
Confidence            4444445568999999 9999999998753

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=97.89  E-value=0.00017  Score=68.51  Aligned_cols=25  Identities=16%  Similarity=0.013  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcccHHHHHHHHHHhc
Q 023298          240 VSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       240 ~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .-++..||++++|+..++..+.+.+
T Consensus       359 ~~~~~TSA~d~~nV~~vF~~v~~~I  383 (402)
T 1azs_C          359 CYPHFTCAVDTENIRRVFNDCRDII  383 (402)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             cEEEEEEeecCcCHHHHHHHHHHHH
Confidence            4578899999999999998876543

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=97.86  E-value=3e-05  Score=71.73  Aligned_cols=25  Identities=16%  Similarity=0.246  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcccHHHHHHHHHHhc
Q 023298          240 VSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       240 ~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .-++..||+++.|++.++..+.+.+
T Consensus       292 i~~~~TsA~d~~nV~~vF~~v~~~I  316 (327)
T 3ohm_A          292 IYSHFTCATDTENIRFVFAAVKDTI  316 (327)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             cEEEEEEeecCHHHHHHHHHHHHHH
Confidence            5678899999999999999887653

>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=97.81  E-value=0.00018  Score=67.40  Aligned_cols=43  Identities=12%  Similarity=0.193  Sum_probs=37.4

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +.....++|.|++ +||||+|.+++..+++.|.+|++|+++...
T Consensus        71 l~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~  114 (366)
T 1xp8_A           71 IPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHAL  114 (366)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCC
T ss_pred             ccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCCh
Confidence            3445568899999 999999999999999999999999998644

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=97.77  E-value=0.0006  Score=64.47  Aligned_cols=28  Identities=11%  Similarity=0.102  Sum_probs=22.8

Q ss_pred             cccccCceEEEEECCC-CcHHHHHHHHHH
Q 023298           13 MSWLYALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        13 ~~~~~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      +........+.++|++ |||||+...|+.
T Consensus        14 lg~v~~g~~vgiVG~pnaGKSTL~n~Ltg   42 (392)
T 1ni3_A           14 WGRPGNNLKTGIVGMPNVGKSTFFRAITK   42 (392)
T ss_dssp             CSSSSSCCEEEEEECSSSSHHHHHHHHHH
T ss_pred             hccccCCCEEEEECCCCCCHHHHHHHHHC
Confidence            3444555669999999 999999999987

>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=97.72  E-value=8.8e-05  Score=67.46  Aligned_cols=84  Identities=8%  Similarity=0.184  Sum_probs=53.2

Q ss_pred             CeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      .+++++++|+.... +.. .+..++.   .+...++|.++|+||+|+.++. ++....                      
T Consensus        80 aD~vliV~d~~~p~~s~~-~l~~~l~---~~~~~~~~~ilV~NK~DL~~~~-~v~~~~----------------------  132 (302)
T 2yv5_A           80 VDRVIIVETLKMPEFNNY-LLDNMLV---VYEYFKVEPVIVFNKIDLLNEE-EKKELE----------------------  132 (302)
T ss_dssp             CCEEEEEECSTTTTCCHH-HHHHHHH---HHHHTTCEEEEEECCGGGCCHH-HHHHHH----------------------
T ss_pred             cCEEEEEEECCCCCCCHH-HHHHHHH---HHHhCCCCEEEEEEcccCCCcc-ccHHHH----------------------
Confidence            46789999997542 333 3444433   2234689999999999997543 211000                      


Q ss_pred             HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          227 NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       227 ~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                        ...+.....+ ..++++||++|+|+++|.+.+.
T Consensus       133 --~~~~~~~~~g-~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          133 --RWISIYRDAG-YDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             --HHHHHHHHTT-CEEEECCTTTCTTHHHHHHHTT
T ss_pred             --HHHHHHHHCC-CeEEEEECCCCCCHHHHHhhcc
Confidence              0011223334 3799999999999999988764

>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=97.70  E-value=0.00026  Score=66.10  Aligned_cols=43  Identities=9%  Similarity=0.077  Sum_probs=37.0

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +..-..+.|.||+ |||||+|..++..++..|.+|++||.....
T Consensus        58 i~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~  101 (356)
T 3hr8_A           58 YPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHAL  101 (356)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCC
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeccccc
Confidence            3455679999999 999999999999999999999999876544

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.67  E-value=1.2e-06  Score=82.21  Aligned_cols=78  Identities=12%  Similarity=0.068  Sum_probs=41.4

Q ss_pred             CCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+.++||||...... ........++.+........++|++++....-...+     ..+..+...+.|+++|+||+|.
T Consensus       211 ~~~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l-----~~~d~l~~~~~~~~~v~nk~d~  285 (368)
T 3h2y_A          211 EESSLYDTPGIINHHQMAHYVGKQSLKLITPTKEIKPMVFQLNEEQTLFFSGL-----ARFDYVSGGRRAFTCHFSNRLT  285 (368)
T ss_dssp             SSCEEEECCCBCCTTSGGGGSCHHHHHHHSCSSCCCCEEEEECTTEEEEETTT-----EEEEEEESSSEEEEEEECTTSC
T ss_pred             CCeEEEeCCCcCcHHHHHHHhhHHHHHHhccccccCceEEEEcCCCEEEEcce-----EEEEEecCCCceEEEEecCccc
Confidence            3579999999865321 111122233333222234568888887321000010     0011222357899999999999


Q ss_pred             ccch
Q 023298          194 VTNK  197 (284)
Q Consensus       194 l~~~  197 (284)
                      +...
T Consensus       286 ~~~~  289 (368)
T 3h2y_A          286 IHRT  289 (368)
T ss_dssp             EEEE
T ss_pred             cccc
Confidence            8654

>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=97.65  E-value=5.7e-05  Score=63.43  Aligned_cols=40  Identities=8%  Similarity=-0.042  Sum_probs=35.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +..+.|+|+. |||||++..|+.+|...|.+|.+|..||..
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik~~~~~   44 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHG   44 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC--
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEEeCCCC
Confidence            5678999999 999999999999999999999999999974

>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=97.63  E-value=0.00012  Score=68.26  Aligned_cols=41  Identities=12%  Similarity=0.178  Sum_probs=36.4

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +.....++|.|++ +||||+|.+++..+++.|.+|++|++.-
T Consensus        60 l~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~  101 (356)
T 1u94_A           60 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEH  101 (356)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence            4455679999999 9999999999999999999999999954

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A*

Probab=97.62  E-value=0.0006  Score=60.62  Aligned_cols=40  Identities=13%  Similarity=0.238  Sum_probs=34.3

Q ss_pred             CceEEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +++.++|.|+.  |||||.+..|+.+|+++|++|..+  -|.++
T Consensus        25 ~m~~i~Itgt~t~vGKT~vt~gL~~~l~~~G~~V~~f--KPv~~   66 (251)
T 3fgn_A           25 HMTILVVTGTGTGVGKTVVCAALASAARQAGIDVAVC--KPVQT   66 (251)
T ss_dssp             SCEEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEE--EEEEC
T ss_pred             CCCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEE--eeeec
Confidence            45679999997  999999999999999999999985  45443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.60  E-value=0.00064  Score=60.87  Aligned_cols=24  Identities=17%  Similarity=0.174  Sum_probs=21.1

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      ..+.|+||. |||||+...|+....
T Consensus         3 f~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            3 FNIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCC
Confidence            358899999 999999999999764

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.58  E-value=5.2e-06  Score=77.82  Aligned_cols=76  Identities=14%  Similarity=0.024  Sum_probs=41.6

Q ss_pred             CCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.++||||...... .+......++.+......+.++|++++...  ...-..       +..+...+.|+++|+||.
T Consensus       212 ~~~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~-------l~~l~~~~~~~~~v~~k~  284 (369)
T 3ec1_A          212 SGATLYDTPGIINHHQMAHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGLAR-------LDYIKGGRRSFVCYMANE  284 (369)
T ss_dssp             TTCEEEECCSCCCCSSGGGGSCTTTHHHHSCSSCCCCEEEEECTTEEEEETTTEE-------EEEEESSSEEEEEEECTT
T ss_pred             CCeEEEeCCCcCcHHHHHHHHhHHHHHHHhcccccCceEEEEcCCceEEECCEEE-------EEEccCCCceEEEEecCC
Confidence            3579999999875321 111122233444211234578899988321  110000       112223568999999999


Q ss_pred             ccccch
Q 023298          192 DLVTNK  197 (284)
Q Consensus       192 Dll~~~  197 (284)
                      |.+...
T Consensus       285 d~~~~~  290 (369)
T 3ec1_A          285 LTVHRT  290 (369)
T ss_dssp             SCEEEE
T ss_pred             cccccc
Confidence            998644

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.57  E-value=0.00011  Score=68.65  Aligned_cols=84  Identities=18%  Similarity=0.283  Sum_probs=54.8

Q ss_pred             eEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchh---hhhhhcCcchHHHHHHhhhcchhHHHH
Q 023298          149 VCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKK---EIEDYLNPESQFLLSELNQHMAPQFAK  225 (284)
Q Consensus       149 ~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~---~l~~~l~~~~~~l~~~l~~~~~~~~~~  225 (284)
                      .++++++|+....  ..+...    +.... .++|.++|+||+|++.+..   .+.+|+                     
T Consensus        73 ~lil~VvD~~d~~--~s~~~~----l~~~l-~~~piilV~NK~DLl~~~~~~~~~~~~l---------------------  124 (369)
T 3ec1_A           73 ALVVNIVDIFDFN--GSFIPG----LPRFA-ADNPILLVGNKADLLPRSVKYPKLLRWM---------------------  124 (369)
T ss_dssp             CEEEEEEETTCSG--GGCCSS----HHHHC-TTSCEEEEEECGGGSCTTCCHHHHHHHH---------------------
T ss_pred             cEEEEEEECCCCC--CchhhH----HHHHh-CCCCEEEEEEChhcCCCccCHHHHHHHH---------------------
Confidence            5899999997542  111111    11111 2789999999999986431   111221                     


Q ss_pred             HHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          226 LNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       226 l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                           .+.+...++  ..++++||++|.|+++|++.|.+...
T Consensus       125 -----~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~~  161 (369)
T 3ec1_A          125 -----RRMAEELGLCPVDVCLVSAAKGIGMAKVMEAINRYRE  161 (369)
T ss_dssp             -----HHHHHTTTCCCSEEEECBTTTTBTHHHHHHHHHHHHT
T ss_pred             -----HHHHHHcCCCcccEEEEECCCCCCHHHHHHHHHhhcc
Confidence                 223345555  48999999999999999999987653

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.54  E-value=0.00022  Score=66.77  Aligned_cols=93  Identities=11%  Similarity=0.143  Sum_probs=57.8

Q ss_pred             HHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchh---hhhhhcCcchHHHHH
Q 023298          137 NFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKK---EIEDYLNPESQFLLS  213 (284)
Q Consensus       137 ~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~---~l~~~l~~~~~~l~~  213 (284)
                      ++++++...  .+++++++|+..   +..   .+...+..+. .++|.++|+||+|++.+..   .+.+++         
T Consensus        61 ~~l~~i~~~--~~~il~VvD~~d---~~~---~~~~~l~~~~-~~~p~ilV~NK~DL~~~~~~~~~~~~~l---------  122 (368)
T 3h2y_A           61 RILNGIGKS--DALVVKIVDIFD---FNG---SWLPGLHRFV-GNNKVLLVGNKADLIPKSVKHDKVKHWM---------  122 (368)
T ss_dssp             HHHHHHHHS--CCEEEEEEETTS---HHH---HCCTTHHHHS-SSSCEEEEEECGGGSCTTSCHHHHHHHH---------
T ss_pred             HHHHHHhcc--CcEEEEEEECCC---Ccc---cHHHHHHHHh-CCCcEEEEEEChhcCCcccCHHHHHHHH---------
Confidence            345555432  357999999963   322   1111111221 2789999999999975431   111111         


Q ss_pred             HhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhc
Q 023298          214 ELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       214 ~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                                       .+.....++  ..++++||++|.|+++|++.|.+..
T Consensus       123 -----------------~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          123 -----------------RYSAKQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             -----------------HHHHHHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             -----------------HHHHHHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence                             122344555  3799999999999999999998764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.50  E-value=9.7e-05  Score=61.49  Aligned_cols=39  Identities=10%  Similarity=0.094  Sum_probs=34.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .+..++++|++ |||||++..|+.++...|.++.++|.|.
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d~   51 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGDW   51 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHHH
Confidence            45668999999 9999999999999999999999998664

>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=97.50  E-value=0.00035  Score=63.31  Aligned_cols=83  Identities=13%  Similarity=0.170  Sum_probs=52.6

Q ss_pred             CeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHH
Q 023298          148 NVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKL  226 (284)
Q Consensus       148 ~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l  226 (284)
                      .+++++++|+.... +. ..+..++..   ....+.|.++|+||+|+..+. ...+..                      
T Consensus        85 ad~vilV~D~~~~~~s~-~~l~~~l~~---~~~~~~piilv~NK~DL~~~~-~v~~~~----------------------  137 (301)
T 1u0l_A           85 VDQVILVVTVKMPETST-YIIDKFLVL---AEKNELETVMVINKMDLYDED-DLRKVR----------------------  137 (301)
T ss_dssp             CCEEEEEECSSTTCCCH-HHHHHHHHH---HHHTTCEEEEEECCGGGCCHH-HHHHHH----------------------
T ss_pred             CCEEEEEEeCCCCCCCH-HHHHHHHHH---HHHCCCCEEEEEeHHHcCCch-hHHHHH----------------------
Confidence            46899999997543 32 234444332   223579999999999997543 221110                      


Q ss_pred             HHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          227 NKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       227 ~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                        .+++.....  ..++++||++|.|+++++..+.
T Consensus       138 --~~~~~~~~~--~~~~~~SAktg~gv~~lf~~l~  168 (301)
T 1u0l_A          138 --ELEEIYSGL--YPIVKTSAKTGMGIEELKEYLK  168 (301)
T ss_dssp             --HHHHHHTTT--SCEEECCTTTCTTHHHHHHHHS
T ss_pred             --HHHHHHhhh--CcEEEEECCCCcCHHHHHHHhc
Confidence              001111211  5799999999999999998765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=97.50  E-value=0.0011  Score=61.52  Aligned_cols=41  Identities=7%  Similarity=0.073  Sum_probs=35.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      |..-..++|.|++ +||||++.+++..++..|.+|+++.+.-
T Consensus        43 l~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlEm   84 (338)
T 4a1f_A           43 FNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLEM   84 (338)
T ss_dssp             BCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESSS
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCC
Confidence            3444568999999 9999999999999999999999999863

>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=97.49  E-value=0.00024  Score=66.04  Aligned_cols=42  Identities=10%  Similarity=0.139  Sum_probs=36.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +..-..+.|.|++ |||||+|.+++..+...|.+|++++++..
T Consensus        58 l~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~  100 (349)
T 2zr9_A           58 LPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHA  100 (349)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCC
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCC
Confidence            3455669999999 99999999999999999999999999753

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.49  E-value=8.5e-05  Score=61.37  Aligned_cols=35  Identities=20%  Similarity=0.141  Sum_probs=31.1

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..|+|+|++ |||||++..|++.+...|.++..++.
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~   37 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINY   37 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEEC
Confidence            468999999 99999999999999988888888854

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.48  E-value=0.00027  Score=70.44  Aligned_cols=31  Identities=16%  Similarity=0.040  Sum_probs=25.3

Q ss_pred             cccccccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           11 GYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        11 ~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |--.++.-|. +.|+||. |||||+...++..+
T Consensus        38 gv~~~l~lp~-iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           38 GVEQDLALPA-IAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             SCCSSCCCCC-EECCCCTTSCHHHHHHHHHSCC
T ss_pred             CCCCcccCCe-EEEECCCCChHHHHHHHHhCCC
Confidence            4444677777 9999999 99999999998853

>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=97.48  E-value=0.0001  Score=65.29  Aligned_cols=40  Identities=13%  Similarity=0.177  Sum_probs=34.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +|..|+++|++ |||||++..|+++|...|..++++|.|.-
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~   43 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLI   43 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHH
Confidence            35679999999 99999999999999988988887887753

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.34  E-value=8e-05  Score=66.50  Aligned_cols=84  Identities=12%  Similarity=0.085  Sum_probs=53.1

Q ss_pred             HHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHh
Q 023298          137 NFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSEL  215 (284)
Q Consensus       137 ~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l  215 (284)
                      .+.+.+..   .+++++++|+...... ...+.        +.  ++|.++|+||+|++... ..+.|.           
T Consensus        14 ~~~~~l~~---~D~vl~VvDar~P~~~~~~~l~--------ll--~k~~iivlNK~DL~~~~-~~~~~~-----------   68 (262)
T 3cnl_A           14 QIKDLLRL---VNTVVEVRDARAPFATSAYGVD--------FS--RKETIILLNKVDIADEK-TTKKWV-----------   68 (262)
T ss_dssp             HHHHHHTT---CSEEEEEEETTSTTTTSCTTSC--------CT--TSEEEEEEECGGGSCHH-HHHHHH-----------
T ss_pred             HHHHHHhh---CCEEEEEeeCCCCCcCcChHHH--------hc--CCCcEEEEECccCCCHH-HHHHHH-----------
Confidence            34444543   4789999999743211 11111        11  89999999999998643 333333           


Q ss_pred             hhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          216 NQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       216 ~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                                      +.++..+ ..+ ++||.++.|++.|++.+.+.
T Consensus        69 ----------------~~~~~~g-~~v-~iSa~~~~gi~~L~~~l~~~   98 (262)
T 3cnl_A           69 ----------------EFFKKQG-KRV-ITTHKGEPRKVLLKKLSFDR   98 (262)
T ss_dssp             ----------------HHHHHTT-CCE-EECCTTSCHHHHHHHHCCCT
T ss_pred             ----------------HHHHHcC-CeE-EEECCCCcCHHHHHHHHHHh
Confidence                            1122233 246 99999999999998877654

>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=97.34  E-value=0.00015  Score=59.78  Aligned_cols=36  Identities=11%  Similarity=0.091  Sum_probs=29.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ..++|.|++ |||||++..|++.+...|.+..++++|
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~~~   40 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   40 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEehH
Confidence            469999999 999999999999998777555566543

>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=97.32  E-value=0.00013  Score=60.32  Aligned_cols=46  Identities=2%  Similarity=-0.091  Sum_probs=35.4

Q ss_pred             hhhccccccc--CceEEEEECCC-CcHHHHHHHHHHHHH-hcCCceEEEe
Q 023298            8 LCKGYMSWLY--ALVIKCVFSPP-PNQSTYCSSLYRHCE-TVRRTMHIVN   53 (284)
Q Consensus         8 ~~~~~~~~~~--~~~~~~viG~~-sGKTT~~~~La~~l~-~~g~~v~iVd   53 (284)
                      .|+.|..+|.  +...++++||+ +||||++..++..+. ..|.++..++
T Consensus        25 ~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~   74 (180)
T 3ec2_A           25 TIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFD   74 (180)
T ss_dssp             HHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEE
T ss_pred             HHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEE
Confidence            3556666654  34668999999 999999999999987 6777766644

>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=97.28  E-value=0.00031  Score=58.98  Aligned_cols=40  Identities=5%  Similarity=-0.063  Sum_probs=36.0

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +..++|+|+. |||||++..|...+...|++|..+..||..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~~~~~   46 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHD   46 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccccCCceeEEeeCCCc
Confidence            4568999999 999999999999999999999999999865

>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=97.28  E-value=0.00035  Score=66.79  Aligned_cols=47  Identities=13%  Similarity=0.334  Sum_probs=28.6

Q ss_pred             EEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhh
Q 023298          150 CAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDY  203 (284)
Q Consensus       150 vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~  203 (284)
                      ++.|++|+....++.+.  .++.   . +..+.|+|+|+||+|.+.+. ++..+
T Consensus       151 ~v~fI~d~~~~l~~~Di--eilk---~-L~~~~~vI~Vi~KtD~Lt~~-E~~~l  197 (427)
T 2qag_B          151 CLYFIAPTGHSLKSLDL--VTMK---K-LDSKVNIIPIIAKADAISKS-ELTKF  197 (427)
T ss_dssp             EEEEECCCC---CHHHH--HHHH---H-TCSCSEEEEEESCGGGSCHH-HHHHH
T ss_pred             EEEEEeCCCCCCCHHHH--HHHH---H-HhhCCCEEEEEcchhccchH-HHHHH
Confidence            57778888655455442  1112   1 23678999999999998755 45443

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.26  E-value=0.00031  Score=59.53  Aligned_cols=43  Identities=7%  Similarity=0.074  Sum_probs=37.1

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ...+.++.|+|+. |||||++..|+..+...|.++.+++.|.-.
T Consensus        19 ~~~~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d~~~   62 (201)
T 1rz3_A           19 TAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDDHI   62 (201)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGC
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccCccc
Confidence            4566789999999 999999999999998888889999888643

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.22  E-value=0.00037  Score=59.83  Aligned_cols=50  Identities=10%  Similarity=0.118  Sum_probs=40.7

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ||-+..|   .+..-..++|+||+ |||||++.+++..++..|.+|++++.+..
T Consensus        12 LD~~l~g---Gl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e~~   62 (247)
T 2dr3_A           12 VDEILHG---GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEH   62 (247)
T ss_dssp             HHHHTTT---SEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESSSC
T ss_pred             HHHHcCC---CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccCC
Confidence            5555333   35556679999999 99999999999999888999999998764

>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=97.20  E-value=0.00028  Score=61.93  Aligned_cols=42  Identities=12%  Similarity=0.111  Sum_probs=33.9

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc-----CCceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV-----RRTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-----g~~v~iVdLDPq   57 (284)
                      -.+|..|.|.|++ |||||+|..|++.+...     ++++.++++|-=
T Consensus        19 ~~~~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~   66 (252)
T 1uj2_A           19 GGEPFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSF   66 (252)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGG
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCcc
Confidence            3467789999999 99999999999977643     678889999853

>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=97.13  E-value=0.00057  Score=57.65  Aligned_cols=48  Identities=19%  Similarity=0.170  Sum_probs=38.2

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ||-+..|   .+..-..++++||+ |||||++..++.   ..|.+|++++.+++.
T Consensus         9 LD~~l~G---gi~~G~~~~i~G~~GsGKTtl~~~l~~---~~~~~v~~i~~~~~~   57 (220)
T 2cvh_A            9 LDSLLGG---GFAPGVLTQVYGPYASGKTTLALQTGL---LSGKKVAYVDTEGGF   57 (220)
T ss_dssp             HHHHTTS---SBCTTSEEEEECSTTSSHHHHHHHHHH---HHCSEEEEEESSCCC
T ss_pred             HHHhhcC---CCcCCEEEEEECCCCCCHHHHHHHHHH---HcCCcEEEEECCCCC
Confidence            5555543   34556679999999 999999999998   678899999998744

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.10  E-value=0.00067  Score=61.79  Aligned_cols=43  Identities=7%  Similarity=0.000  Sum_probs=38.0

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ..++.++.++||. |||||++..|+.++...+.+|.+.+.|...
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~~r  140 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFR  140 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSC
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeecccc
Confidence            4567889999999 999999999999999888899999888643

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=97.09  E-value=0.00094  Score=62.42  Aligned_cols=131  Identities=16%  Similarity=0.251  Sum_probs=62.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-----C--HHHHHHHHHHHHHHHHh----cCCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-----D--VTKFISGCMASLSAMVQ----LELP  183 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-----~--~~~~i~~~l~~l~~~~~----~~~p  183 (284)
                      ..+.++||+||-.. .  .   .-...+   ....+++|++|.+...     +  ...+- ..+..+..+.+    .+.|
T Consensus       201 ~~l~i~Dt~Gq~~~-r--~---~w~~~f---~~~~~iIfv~dls~~dq~l~ed~~~n~~~-es~~~~~~i~~~~~~~~~p  270 (362)
T 1zcb_A          201 VPFKMVDVGGQRSE-R--K---RWFECF---DSVTSILFLVSSSEFDQVLMEDRQTNRLT-ESLNIFETIVNNRVFSNVS  270 (362)
T ss_dssp             EEEEEEEECC-------------CTTSC---TTCCEEEEEEETTCTTCEETTEEEEEHHH-HHHHHHHHHHTCGGGTTSE
T ss_pred             eEEEEEeccchhhh-h--h---hHHHHh---CCCCEEEEEEECccccccccccccccHHH-HHHHHHHHHhcchhhCCCC
Confidence            35789999998431 1  0   000111   2246899999997631     0  22332 11111222222    4689


Q ss_pred             EEEEecCCccccchh---hhhhhcCc--ch-HHHHHHhhhcchhHHHHHH-HHHHHHHhc--cCCceEEEEeccCcccHH
Q 023298          184 HVNILSKMDLVTNKK---EIEDYLNP--ES-QFLLSELNQHMAPQFAKLN-KSLIELVDE--YSMVSFMPLDLRKESSIR  254 (284)
Q Consensus       184 ~IlVlNK~Dll~~~~---~l~~~l~~--~~-~~l~~~l~~~~~~~~~~l~-~~i~~~l~~--~~~~~~ipiSa~~~~~l~  254 (284)
                      +|+|+||+|+...+-   .+..+..+  +. ... ++        ..++. ....++...  .....++..||++++|+.
T Consensus       271 iILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~-~e--------~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~  341 (362)
T 1zcb_A          271 IILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCL-RD--------VQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIR  341 (362)
T ss_dssp             EEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCH-HH--------HHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHH
T ss_pred             EEEEEEChhhhhhhccccchhhcCccccCCCCCH-HH--------HHHHHHHHHHHhhcccCCCceEEEEEecCCchhHH
Confidence            999999999964320   11111110  00 000 00        00110 000010010  123568899999999999


Q ss_pred             HHHHHHHHhc
Q 023298          255 YVLSQIDNCI  264 (284)
Q Consensus       255 ~Ll~~I~~~l  264 (284)
                      .++..+.+.+
T Consensus       342 ~vF~~v~~~i  351 (362)
T 1zcb_A          342 LVFRDVKDTI  351 (362)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998876543

>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=97.07  E-value=0.00057  Score=57.61  Aligned_cols=40  Identities=15%  Similarity=0.031  Sum_probs=33.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .++..++++||+ |||||+++.|+..+...|..+..+|-|.
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d~   63 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGDN   63 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCch
Confidence            456779999999 9999999999999987787767777553

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.06  E-value=0.00066  Score=57.46  Aligned_cols=42  Identities=5%  Similarity=0.017  Sum_probs=36.0

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +..-..++|+||+ |||||++..++..+...+.+|++++.+..
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~~~   62 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEES   62 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEESSSC
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEcccC
Confidence            3445668999999 99999999999988888889999998764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.04  E-value=0.00053  Score=57.50  Aligned_cols=35  Identities=6%  Similarity=-0.069  Sum_probs=31.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..+++.||+ +||||++..++..+...+.++..+++
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~   90 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYV   90 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEh
Confidence            679999999 99999999999999988888888765

>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=97.03  E-value=0.00055  Score=58.23  Aligned_cols=40  Identities=13%  Similarity=-0.044  Sum_probs=34.1

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH-hcCCceEEEecCc
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE-TVRRTMHIVNLDP   56 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~-~~g~~v~iVdLDP   56 (284)
                      ..+..++++|++ |||||++..|+..+. ..|.++..+|.|.
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~   64 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   64 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChH
Confidence            445679999999 999999999999998 7888888888554

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.99  E-value=0.00092  Score=62.46  Aligned_cols=42  Identities=7%  Similarity=0.005  Sum_probs=37.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..++.++.++||. |||||++..|+.++...+.+|.+.+.|..
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~~  196 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTF  196 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCS
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEeccccc
Confidence            4577889999999 99999999999999988889999988864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.99  E-value=0.00041  Score=62.70  Aligned_cols=41  Identities=12%  Similarity=-0.053  Sum_probs=33.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ++..|.|.||. |||||++..|++.+...|.++.+|++|--.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            56679999999 999999999999988888889999988644

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.98  E-value=0.00077  Score=56.42  Aligned_cols=32  Identities=16%  Similarity=0.053  Sum_probs=27.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEE
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHI   51 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~i   51 (284)
                      +..|+|.|++ |||||++..|++.+...| +++.
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~g-~~~~   36 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELKR-DVYL   36 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTTS-CEEE
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhcC-CEEE
Confidence            4569999999 999999999999988766 5543

>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=96.97  E-value=0.00081  Score=56.58  Aligned_cols=35  Identities=9%  Similarity=-0.005  Sum_probs=30.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      ++..|+|+|++ |||||++..|++.+...+.++..+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~~~~~v~~~   43 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   43 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence            45679999999 999999999999998888887544

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.96  E-value=0.00024  Score=59.15  Aligned_cols=40  Identities=20%  Similarity=0.332  Sum_probs=29.8

Q ss_pred             cccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           11 GYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        11 ~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +.++....+..|+++|++ |||||+|..|++.+.     ..++|.|
T Consensus         4 ~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~l~-----~~~i~~d   44 (199)
T 2bwj_A            4 GFMEDLRKCKIIFIIGGPGSGKGTQCEKLVEKYG-----FTHLSTG   44 (199)
T ss_dssp             CHHHHHHHSCEEEEEECTTSSHHHHHHHHHHHHT-----CEEEEHH
T ss_pred             ccccccCCCCEEEEECCCCCCHHHHHHHHHHHhC-----CeEEcHH
Confidence            344455556779999999 999999999999763     3455554

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.95  E-value=0.0013  Score=55.89  Aligned_cols=42  Identities=14%  Similarity=0.108  Sum_probs=35.1

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..+...+.|+||. |||||++..|+..+...|.++-.|.+|..
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~~g~~~g~v~~d~~   61 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVVPMDGF   61 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHHHHTTCCEEEEESGGG
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEecCCC
Confidence            4566779999999 99999999999998866777788887753

>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=96.94  E-value=0.00091  Score=56.70  Aligned_cols=39  Identities=8%  Similarity=0.174  Sum_probs=34.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .+..+++.||+ +||||++..++..+...+.++..++...
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGI   90 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            45669999999 9999999999999998899999988754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.91  E-value=0.0011  Score=54.77  Aligned_cols=33  Identities=9%  Similarity=0.065  Sum_probs=28.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      .++++|++ |||||++..|++.+...|..++..|
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            48899999 9999999999999988788766544

>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=96.91  E-value=0.00098  Score=54.91  Aligned_cols=38  Identities=8%  Similarity=-0.126  Sum_probs=31.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ...++++|+. |||||++..|+.++...|.+++.+|-|.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~~   43 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDN   43 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECChH
Confidence            3458899999 9999999999999977788777776443

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.89  E-value=0.00075  Score=55.00  Aligned_cols=33  Identities=18%  Similarity=0.201  Sum_probs=24.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |..++++|++ |||||++..|++.    .....+|+.|
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~~----~~~~~~i~~d   35 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIAK----NPGFYNINRD   35 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH----STTEEEECHH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHhh----cCCcEEecHH
Confidence            4679999999 9999999999882    2234555553

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.88  E-value=0.00075  Score=58.70  Aligned_cols=29  Identities=21%  Similarity=0.308  Sum_probs=25.6

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..+.++++|+|+||| |||||.|..|++.+
T Consensus        24 ~~~~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           24 QKLAKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             CCTTSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             hhccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            346788899999999 99999999999965

>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=96.84  E-value=0.00064  Score=57.42  Aligned_cols=45  Identities=13%  Similarity=0.144  Sum_probs=35.7

Q ss_pred             hcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           10 KGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        10 ~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      .|......++..+.|+|++ |||||++..|+..+.    .+.+|+.|+-.
T Consensus        12 ~~~~~~~~~~~~i~i~G~~GsGKSTl~~~L~~~~~----~~~~i~~D~~~   57 (207)
T 2qt1_A           12 SGLVPRGSKTFIIGISGVTNSGKTTLAKNLQKHLP----NCSVISQDDFF   57 (207)
T ss_dssp             --CCCCSCCCEEEEEEESTTSSHHHHHHHHHTTST----TEEEEEGGGGB
T ss_pred             ccccccCCCCeEEEEECCCCCCHHHHHHHHHHhcC----CcEEEeCCccc
Confidence            4677778888889999999 999999999987432    57889988654

>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=96.84  E-value=0.00082  Score=54.37  Aligned_cols=23  Identities=17%  Similarity=0.134  Sum_probs=20.5

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..++|+|++ |||||++..|++.+
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999 99999999999865

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=96.83  E-value=0.0036  Score=58.22  Aligned_cols=129  Identities=9%  Similarity=0.127  Sum_probs=65.8

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC-------HHHHHHHHHHHHHHHHh----cCCCE
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD-------VTKFISGCMASLSAMVQ----LELPH  184 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~-------~~~~i~~~l~~l~~~~~----~~~p~  184 (284)
                      .+-++||+||-..-...      ...+   .....++|++|.+...+       ...+ ..+...+..+.+    .+.|+
T Consensus       194 ~l~iwDt~GQe~~r~~w------~~yf---~~a~~iIfV~dls~~d~~l~ed~~~nr~-~e~~~~~~~i~~~~~~~~~pi  263 (353)
T 1cip_A          194 HFKMFDVGGQRSERKKW------IHCF---EGVTAIIFCVALSDYDLVLAEDEEMNRM-HESMKLFDSICNNKWFTDTSI  263 (353)
T ss_dssp             EEEEEEECCSGGGGGGG------GGGC---TTCSEEEEEEEGGGGGCEETTEEEEEHH-HHHHHHHHHHHTCGGGTTSEE
T ss_pred             eEEEEeCCCchhhhHHH------HHHH---hcCCEEEEEEECccccccccccchhhhH-HHHHHHHHHHHcCccccCCcE
Confidence            46789999986421100      0112   22468999999875321       2232 222222222322    46899


Q ss_pred             EEEecCCccccchh---hhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhc------cCCceEEEEeccCcccHHH
Q 023298          185 VNILSKMDLVTNKK---EIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDE------YSMVSFMPLDLRKESSIRY  255 (284)
Q Consensus       185 IlVlNK~Dll~~~~---~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~------~~~~~~ipiSa~~~~~l~~  255 (284)
                      |+|+||+|+...+-   .+..+...        ....  ..+.+...-+...+.+      .....++..||++++|+..
T Consensus       264 iLv~NK~DL~~~ki~~~~l~~~fp~--------~~g~--~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~  333 (353)
T 1cip_A          264 ILFLNKKDLFEEKIKKSPLTICYPE--------YAGS--NTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQF  333 (353)
T ss_dssp             EEEEECHHHHHHHHTTSCGGGTCTT--------CCSC--SCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHH
T ss_pred             EEEEECcCchhhhccccchhhcccc--------cCCC--CCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHH
Confidence            99999999864220   11111110        0000  0000000000111111      1236789999999999999


Q ss_pred             HHHHHHHhc
Q 023298          256 VLSQIDNCI  264 (284)
Q Consensus       256 Ll~~I~~~l  264 (284)
                      ++..+.+.+
T Consensus       334 vF~~v~~~i  342 (353)
T 1cip_A          334 VFDAVTDVI  342 (353)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998877654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.82  E-value=0.0013  Score=55.17  Aligned_cols=36  Identities=8%  Similarity=-0.117  Sum_probs=30.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ++..|+|+|++ |||||++..|++.+...+.++.++.
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~~~~~~~~~   45 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYLKNNNVEVKHLY   45 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            45679999999 9999999999999988888775443

>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=96.81  E-value=0.00095  Score=54.60  Aligned_cols=34  Identities=9%  Similarity=-0.018  Sum_probs=26.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +..++++|++ |||||+++.|++.+   +...+.++.|
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l---~~~~~~~~~D   37 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL---PEPWLAFGVD   37 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS---SSCEEEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc---CCCeEEeccc
Confidence            3569999999 99999999999854   3445555555

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.80  E-value=0.00096  Score=54.97  Aligned_cols=33  Identities=12%  Similarity=0.262  Sum_probs=25.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +|..|+++|++ |||||++..|++.+   |.  .+||.|
T Consensus         2 ~~~~I~l~G~~GsGKsT~a~~L~~~~---~~--~~i~~d   35 (196)
T 1tev_A            2 KPLVVFVLGGPGAGKGTQCARIVEKY---GY--THLSAG   35 (196)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh---CC--eEEeHH
Confidence            35679999999 99999999999865   32  345655

>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=96.75  E-value=0.00088  Score=55.36  Aligned_cols=25  Identities=16%  Similarity=0.165  Sum_probs=22.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++..++++|++ |||||++..|++.+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            46779999999 99999999999976

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.73  E-value=0.00099  Score=58.52  Aligned_cols=46  Identities=11%  Similarity=0.042  Sum_probs=34.2

Q ss_pred             hhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            7 LLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         7 ~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      -+-.++. ....|..++++|++ |||||++..|+..+.   ..+.++|-|.
T Consensus        21 ~~~~~~~-~~~~~~~i~l~G~~GsGKSTla~~L~~~l~---~~~~~~~~D~   67 (253)
T 2p5t_B           21 SLTRGKK-SSKQPIAILLGGQSGAGKTTIHRIKQKEFQ---GNIVIIDGDS   67 (253)
T ss_dssp             HHHTTCC-CCSSCEEEEEESCGGGTTHHHHHHHHHHTT---TCCEEECGGG
T ss_pred             HHHccCC-cccCCeEEEEECCCCCCHHHHHHHHHHhcC---CCcEEEecHH
Confidence            3444554 45667889999999 999999999998653   3466677764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.68  E-value=0.0017  Score=59.67  Aligned_cols=42  Identities=12%  Similarity=-0.020  Sum_probs=35.2

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHh--cCCceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCET--VRRTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~--~g~~v~iVdLDPq   57 (284)
                      -.+|.++.|+||. |||||++..|+..+..  .+.+|.+|.+|..
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f  133 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGF  133 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeeccc
Confidence            3467789999999 9999999999998874  3567899998864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.67  E-value=0.0019  Score=52.24  Aligned_cols=27  Identities=7%  Similarity=0.075  Sum_probs=23.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      .+..+++.||+ +||||++..+++.+..
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            35668999999 9999999999998876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.66  E-value=0.0011  Score=55.77  Aligned_cols=26  Identities=15%  Similarity=0.071  Sum_probs=22.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .++..++++|++ |||||++..|++.+
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            355679999999 99999999999976

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.66  E-value=0.0011  Score=55.67  Aligned_cols=33  Identities=12%  Similarity=0.141  Sum_probs=26.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      |..++++|++ |||||++..|+..+   |  ..++|.|.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l---g--~~~i~~d~   51 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC---G--YPFIEGDA   51 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH---T--CCEEEGGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh---C--CEEEeCCc
Confidence            4579999999 99999999999976   2  44566554

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.65  E-value=0.0011  Score=54.64  Aligned_cols=24  Identities=13%  Similarity=0.054  Sum_probs=21.4

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +..++++|++ |||||++..|++.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568999999 99999999999876

>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=96.65  E-value=0.0014  Score=59.26  Aligned_cols=42  Identities=12%  Similarity=0.030  Sum_probs=33.9

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcC--CceEEE-ecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVR--RTMHIV-NLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g--~~v~iV-dLDPq   57 (284)
                      ..++.++.|+|+. |||||++..|+..+...|  +++..+ ..|+-
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f   73 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   73 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccc
Confidence            4567889999999 999999999999998754  445544 88864

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.63  E-value=0.0028  Score=54.24  Aligned_cols=51  Identities=14%  Similarity=0.092  Sum_probs=38.1

Q ss_pred             ehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHH-HhcCCceEEEecCcC
Q 023298            4 YLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHC-ETVRRTMHIVNLDPA   57 (284)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l-~~~g~~v~iVdLDPq   57 (284)
                      -||-+..|   -+..-..++|.|++ +||||+|.+++... ...|.+|+++.+.-.
T Consensus        18 ~LD~~l~G---Gl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~   70 (251)
T 2zts_A           18 GFDELIEG---GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEER   70 (251)
T ss_dssp             TTGGGTTT---SEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             HHHHhhcC---CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCC
Confidence            36666543   13445568999999 99999999988764 557889999988743

>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=96.63  E-value=0.0016  Score=63.59  Aligned_cols=40  Identities=10%  Similarity=0.128  Sum_probs=35.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ..|..|+++|.+ |||||++..|+.+|...+.++.++|.|-
T Consensus        33 ~~~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D~   73 (520)
T 2axn_A           33 NSPTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGE   73 (520)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEecccH
Confidence            466789999999 9999999999999998888898998874

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

Probab=96.63  E-value=0.0018  Score=58.28  Aligned_cols=44  Identities=11%  Similarity=0.249  Sum_probs=33.4

Q ss_pred             hhhcccc--cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298            8 LCKGYMS--WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus         8 ~~~~~~~--~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      +++.|++  ....|.++++.||+ +|||+++..+|+.+   |.+++.+++
T Consensus        23 ~~k~~l~~~~~~~p~~lLl~GppGtGKT~la~aiA~~l---~~~~i~v~~   69 (293)
T 3t15_A           23 ITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKM---GINPIMMSA   69 (293)
T ss_dssp             HHHTTSCCTTCCCCSEEEEEECTTSCHHHHHHHHHHHH---TCCCEEEEH
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHh---CCCEEEEeH
Confidence            3466654  33467889999999 99999999999977   566666653

>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=96.59  E-value=0.0025  Score=56.93  Aligned_cols=41  Identities=15%  Similarity=0.065  Sum_probs=34.9

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDP   56 (284)
                      +..-..++|+||+ +||||++.+++..++.. |.+|++++.+.
T Consensus        32 l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e~   74 (296)
T 1cr0_A           32 ARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEE   74 (296)
T ss_dssp             BCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEESSS
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCcC
Confidence            4555679999999 99999999999998865 88999998764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.59  E-value=0.0023  Score=53.96  Aligned_cols=40  Identities=10%  Similarity=0.105  Sum_probs=32.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .++.++.|+||. |||||+++.|+..+..   ++.+|+.|+...
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~~~---~i~~v~~d~~~~   44 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTLGE---RVALLPMDHYYK   44 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHHGG---GEEEEEGGGCBC
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhCC---CeEEEecCcccc
Confidence            345678999999 9999999999997653   588898887543

>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=96.58  E-value=0.0008  Score=56.66  Aligned_cols=34  Identities=9%  Similarity=0.126  Sum_probs=30.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .++|.|+. |||||++..|+.++...|.+|.++.-
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~~g~~v~~~~~   36 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHEEEEEEEEEES
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEee
Confidence            48899999 99999999999999988888887754

>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=96.57  E-value=0.0013  Score=54.94  Aligned_cols=33  Identities=12%  Similarity=0.161  Sum_probs=26.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      +..|+++|+. |||||++..|++.+  .|.++..++
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l--~g~~~~~~~   37 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI--PANTIKYLN   37 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS--CGGGEEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH--CCCceEEEe
Confidence            4569999999 99999999999976  355665543

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.57  E-value=0.0027  Score=57.83  Aligned_cols=40  Identities=5%  Similarity=0.105  Sum_probs=35.6

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |..-..++|.|++ +||||++.+++..++..|.+|+++.+.
T Consensus        65 l~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE  105 (315)
T 3bh0_A           65 YKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  105 (315)
T ss_dssp             BCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECC
Confidence            4555669999999 999999999999999888999999987

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=96.56  E-value=0.0013  Score=60.21  Aligned_cols=46  Identities=13%  Similarity=0.206  Sum_probs=32.4

Q ss_pred             CeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccch
Q 023298          148 NVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNK  197 (284)
Q Consensus       148 ~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~  197 (284)
                      .+++++++|+... .+.+ ++..++.   .....++|.++|+||+|+..+.
T Consensus        87 vD~v~~V~~~~~p~~~~~-~i~r~L~---~~~~~~~~~vivlnK~DL~~~~  133 (307)
T 1t9h_A           87 VDQAVLVFSAVQPSFSTA-LLDRFLV---LVEANDIQPIICITKMDLIEDQ  133 (307)
T ss_dssp             CCEEEEEEESTTTTCCHH-HHHHHHH---HHHTTTCEEEEEEECGGGCCCH
T ss_pred             CCEEEEEEeCCCCCCCHH-HHHHHHH---HHHHCCCCEEEEEECCccCchh
Confidence            5788999999743 4444 5554432   2234689999999999998754

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.55  E-value=0.0021  Score=56.68  Aligned_cols=32  Identities=13%  Similarity=0.370  Sum_probs=26.0

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ..++|+||+ |||||++..|+..+   +  ..+|+.|-
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~---~--~~~i~~D~   34 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET---G--WPVVALDR   34 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH---C--CCEEECCS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC---C--CeEEeccH
Confidence            468999999 99999999999865   2  45677765

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.55  E-value=0.0024  Score=51.81  Aligned_cols=36  Identities=6%  Similarity=0.034  Sum_probs=30.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ...++++||. +||||++..++..+...|+++..++.
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~   72 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDA   72 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEET
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcH
Confidence            3458899999 99999999999998877887877764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.51  E-value=0.0022  Score=58.32  Aligned_cols=36  Identities=3%  Similarity=-0.014  Sum_probs=32.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHH-hcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCE-TVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~-~~g~~v~iVdL   54 (284)
                      ...+++.||+ +|||+++..++..+. ..|++|..++.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~  189 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHF  189 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEH
Confidence            3568999999 999999999999999 89999988875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.49  E-value=0.0023  Score=51.86  Aligned_cols=26  Identities=8%  Similarity=0.020  Sum_probs=23.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      +..+++.||+ +||||++..+++.+..
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            5568999999 9999999999998876

>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=96.49  E-value=0.0018  Score=53.46  Aligned_cols=37  Identities=16%  Similarity=-0.015  Sum_probs=27.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +.+...++++||+ |||||+++.|+..   .+...+.+|-|
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~---~~~g~i~i~~d   43 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANL---PGVPKVHFHSD   43 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTC---SSSCEEEECTT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhc---cCCCeEEEccc
Confidence            4556779999999 9999999999874   33444556655

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.48  E-value=0.0027  Score=53.35  Aligned_cols=34  Identities=9%  Similarity=0.106  Sum_probs=26.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ++..++++||. |||||+++.|+..+   |  ...+|-|.
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~---g--~~~i~~d~   62 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET---G--LEFAEADA   62 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH---C--CEEEEGGG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh---C--CeEEcccc
Confidence            34569999999 99999999999876   4  35566554

>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=96.45  E-value=0.0018  Score=56.59  Aligned_cols=34  Identities=12%  Similarity=0.047  Sum_probs=27.5

Q ss_pred             hhcccccccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298            9 CKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus         9 ~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ...|...-.+|..++++||+ |||||+|..|++.+
T Consensus        19 ~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           19 KRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             HHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            44455545578889999999 99999999999865

>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=96.45  E-value=0.0017  Score=53.29  Aligned_cols=32  Identities=16%  Similarity=0.278  Sum_probs=25.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |..++++|++ |||||++..|++.+.     ..++|.|
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~-----~~~i~~d   38 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG-----WVHLSAG   38 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC-----CEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC-----CeEeeHH
Confidence            5679999999 999999999998653     3455554

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.45  E-value=0.0023  Score=59.32  Aligned_cols=34  Identities=9%  Similarity=0.197  Sum_probs=28.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +..++|+||. |||||++..|+..+.     +.+|++|--
T Consensus         7 ~~lI~I~GptgSGKTtla~~La~~l~-----~~iis~Ds~   41 (340)
T 3d3q_A            7 PFLIVIVGPTASGKTELSIEVAKKFN-----GEIISGDSM   41 (340)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTT-----EEEEECCSS
T ss_pred             CceEEEECCCcCcHHHHHHHHHHHcC-----Cceeccccc
Confidence            3578999999 999999999999653     788999864

>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=96.44  E-value=0.0033  Score=51.29  Aligned_cols=34  Identities=12%  Similarity=0.076  Sum_probs=26.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ....++++|++ |||||++..|+..+   |  ..++|.|.
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~---g--~~~i~~d~   41 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL---H--AAFLDGDF   41 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH---T--CEEEEGGG
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh---C--cEEEeCcc
Confidence            34569999999 99999999999865   3  45667664

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.43  E-value=0.0013  Score=56.38  Aligned_cols=28  Identities=18%  Similarity=0.235  Sum_probs=21.7

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ...+|..++++|++ |||||++..|++.+
T Consensus         3 ~~~~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            3 ASARLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             ----CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             ccccCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34556779999999 99999999999864

>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=96.41  E-value=0.0023  Score=58.43  Aligned_cols=50  Identities=14%  Similarity=0.180  Sum_probs=38.5

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhc------CCceEEEecCcC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETV------RRTMHIVNLDPA   57 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~------g~~v~iVdLDPq   57 (284)
                      ||-+..|   .+.....+.|.|++ |||||+|.+++...+..      +.+|++|++.-.
T Consensus        96 LD~~L~G---Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~  152 (324)
T 2z43_A           96 LDGLLAG---GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGT  152 (324)
T ss_dssp             HHHHTTT---SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             HHHhcCC---CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            4444433   34556679999999 99999999999886654      789999998754

>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=96.41  E-value=0.0076  Score=56.22  Aligned_cols=53  Identities=9%  Similarity=0.328  Sum_probs=35.5

Q ss_pred             hcCCCEEEEecCCccccchhh---hhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHH
Q 023298          179 QLELPHVNILSKMDLVTNKKE---IEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRY  255 (284)
Q Consensus       179 ~~~~p~IlVlNK~Dll~~~~~---l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~  255 (284)
                      ..++|.++|+||+|+..+. .   +..|.                           ..+...++ .++++||.++.|+++
T Consensus       158 ~~~~~~iivlNK~DL~~~~-~~~~~~~~~---------------------------~~y~~~G~-~v~~~Sa~~~~gl~~  208 (358)
T 2rcn_A          158 TLQVEPLIVLNKIDLLDDE-GMDFVNEQM---------------------------DIYRNIGY-RVLMVSSHTQDGLKP  208 (358)
T ss_dssp             HHTCEEEEEEECGGGCCHH-HHHHHHHHH---------------------------HHHHTTTC-CEEECBTTTTBTHHH
T ss_pred             hcCCCEEEEEECccCCCch-hHHHHHHHH---------------------------HHHHhCCC-cEEEEecCCCcCHHH
Confidence            4688999999999998644 2   22222                           22233343 588888888888888


Q ss_pred             HHHHH
Q 023298          256 VLSQI  260 (284)
Q Consensus       256 Ll~~I  260 (284)
                      |...+
T Consensus       209 L~~~~  213 (358)
T 2rcn_A          209 LEEAL  213 (358)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            77654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.41  E-value=0.0033  Score=52.84  Aligned_cols=34  Identities=9%  Similarity=0.153  Sum_probs=30.0

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      +.+++.||+ |||||++..++..+...|++|+++.
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            458899998 9999999999988888899998874

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=96.41  E-value=0.0029  Score=62.20  Aligned_cols=41  Identities=15%  Similarity=0.064  Sum_probs=36.0

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ...+..++++|++ |||||++..|++.|...|+++.++|.|-
T Consensus       369 ~~~~~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D~  410 (546)
T 2gks_A          369 HKQGFCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGDV  410 (546)
T ss_dssp             GGCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHHH
T ss_pred             cccceEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECchH
Confidence            3456779999999 9999999999999999999999998763

>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=96.40  E-value=0.0023  Score=53.65  Aligned_cols=28  Identities=14%  Similarity=0.094  Sum_probs=23.8

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +-..|..|+++|++ |||||+|..|++.+
T Consensus        16 ~~~~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           16 PRGSHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCCSCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34556679999999 99999999999976

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.39  E-value=0.0021  Score=53.21  Aligned_cols=25  Identities=20%  Similarity=0.344  Sum_probs=22.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++..++++|++ |||||++..|++.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            55679999999 99999999999876

>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=96.39  E-value=0.0063  Score=57.58  Aligned_cols=34  Identities=18%  Similarity=0.132  Sum_probs=25.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +|..++++|++ |||||++..|++.+     ....||.|.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~-----~~~~i~~D~  291 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA-----GYVHVNRDT  291 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG-----TCEECCGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc-----CcEEEccch
Confidence            56789999999 99999999998743     244555443

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.38  E-value=0.0025  Score=52.42  Aligned_cols=25  Identities=20%  Similarity=0.220  Sum_probs=21.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++..++++|++ |||||++..|++.+
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34569999999 99999999999865

>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=96.37  E-value=0.004  Score=54.04  Aligned_cols=34  Identities=9%  Similarity=0.119  Sum_probs=29.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      +...+++.|++ |||||++..|++++.. |.+++..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~-~~~~~~~   59 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK-DYDVIMT   59 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT-TSCEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc-CCCceee
Confidence            55679999999 9999999999999988 8777544

>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=96.37  E-value=0.0037  Score=57.56  Aligned_cols=50  Identities=12%  Similarity=0.189  Sum_probs=38.7

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHh------cCCceEEEecCcC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCET------VRRTMHIVNLDPA   57 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~------~g~~v~iVdLDPq   57 (284)
                      ||.+..|   .+..-..+.|.|++ |||||+|.+++.....      .+.+|++|+....
T Consensus       111 LD~~LgG---Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~  167 (343)
T 1v5w_A          111 FDKLLGG---GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENT  167 (343)
T ss_dssp             HHHHTTS---SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSC
T ss_pred             HHHHhcC---CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            4544443   35566779999999 9999999999987554      4789999998753

>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=96.37  E-value=0.0031  Score=53.85  Aligned_cols=50  Identities=18%  Similarity=0.272  Sum_probs=37.2

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHh------cCCceEEEecCcC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCET------VRRTMHIVNLDPA   57 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~------~g~~v~iVdLDPq   57 (284)
                      ||-+..|   .+..-..+.++||+ |||||++..++.....      .+.+++.++....
T Consensus        13 LD~~l~g---gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~   69 (243)
T 1n0w_A           13 LDKLLQG---GIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGT   69 (243)
T ss_dssp             HHHHTTT---SEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSC
T ss_pred             HHHhhcC---CCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCC
Confidence            5555433   35556679999999 9999999999986433      3678999988753

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.36  E-value=0.0023  Score=57.59  Aligned_cols=38  Identities=8%  Similarity=0.163  Sum_probs=28.7

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ....|..++++||+ |||||++..|+..+.   .....|+.|
T Consensus        29 ~~~~~~livl~G~sGsGKSTla~~L~~~~~---~~~~~Is~D   67 (287)
T 1gvn_B           29 AVESPTAFLLGGQPGSGKTSLRSAIFEETQ---GNVIVIDND   67 (287)
T ss_dssp             CCSSCEEEEEECCTTSCTHHHHHHHHHHTT---TCCEEECTH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhC---CCeEEEech
Confidence            34567889999999 999999999988542   235566654

>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=96.35  E-value=0.0024  Score=52.50  Aligned_cols=25  Identities=16%  Similarity=0.095  Sum_probs=21.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++..++++|++ |||||++..|++.+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            44568999999 99999999999876

>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=96.32  E-value=0.0022  Score=51.44  Aligned_cols=18  Identities=17%  Similarity=0.335  Sum_probs=16.8

Q ss_pred             EEEEECCC-CcHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSL   38 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~L   38 (284)
                      .++|+||+ |||||++..|
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            58999999 9999999999

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.32  E-value=0.003  Score=70.38  Aligned_cols=51  Identities=18%  Similarity=0.219  Sum_probs=46.1

Q ss_pred             hhhhhh-cccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298            5 LDLLCK-GYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus         5 ~~~~~~-~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ||.+|. |   ++..+..+++.||+ +||||+|.+++....++|.+|++++..-..
T Consensus      1415 LD~lLG~G---Gi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~ 1467 (2050)
T 3cmu_A         1415 LDIALGAG---GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHAL 1467 (2050)
T ss_dssp             HHHHHSSS---SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCC
T ss_pred             HHHhcCCC---CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEccccc
Confidence            788887 7   78899999999999 999999999999999999999999987543

>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=96.29  E-value=0.004  Score=56.40  Aligned_cols=42  Identities=14%  Similarity=0.054  Sum_probs=34.3

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH--hcCCceEEEecCcCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE--TVRRTMHIVNLDPAA   58 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~--~~g~~v~iVdLDPq~   58 (284)
                      .++.++.|+||. |||||++..|+..+.  -.+-++.+|++|-..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~~~  122 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCCcc
Confidence            566789999999 999999999999886  345568888888543

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.29  E-value=0.0018  Score=52.65  Aligned_cols=23  Identities=17%  Similarity=0.103  Sum_probs=20.4

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..++++||+ |||||++..|+..+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999 99999999999864

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=96.28  E-value=0.0031  Score=53.94  Aligned_cols=37  Identities=16%  Similarity=0.144  Sum_probs=29.4

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHH-----hcC-CceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCE-----TVR-RTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~-----~~g-~~v~iVdLD   55 (284)
                      |-+++++|++ |||||+|..+...+.     +.| +++.+.|+|
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~   48 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIK   48 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCT
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCC
Confidence            3468999999 999999988766554     567 888788865

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.28  E-value=0.0032  Score=52.54  Aligned_cols=39  Identities=8%  Similarity=0.118  Sum_probs=31.5

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ..+.|+|+. |||||++..|+..+...|.++-.|-+|+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~g~~~G~I~~dg~~   42 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAHG   42 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHTTCCEEEEEC----
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhcCCceEEEEEcCcc
Confidence            468899999 999999999999999888888888887654

>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=96.27  E-value=0.0051  Score=53.04  Aligned_cols=37  Identities=14%  Similarity=0.188  Sum_probs=31.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..|++.|+. |||||.+..|+++|...|.+|.... .|.
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~~-~p~   44 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLTR-EPG   44 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE-SSC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHcCCCccccc-CCC
Confidence            458899999 9999999999999999999986653 454

>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=96.26  E-value=0.0023  Score=51.86  Aligned_cols=23  Identities=13%  Similarity=-0.063  Sum_probs=20.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..++++|++ |||||++..|++.|
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999 99999999999976

>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=96.26  E-value=0.0041  Score=52.55  Aligned_cols=49  Identities=16%  Similarity=0.192  Sum_probs=36.0

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHh------cCCceEEEecCc
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCET------VRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~------~g~~v~iVdLDP   56 (284)
                      ||-+..|   .+..-.++.|+||. |||||++..++..+..      .+.+++.++...
T Consensus        14 LD~~l~g---gi~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~   69 (231)
T 4a74_A           14 LDKLLGG---GIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   69 (231)
T ss_dssp             HHHHTTS---SEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             HHhHhcC---CCCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCC
Confidence            5555544   45666779999999 9999999999986554      245677777654

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.26  E-value=0.0023  Score=52.48  Aligned_cols=22  Identities=14%  Similarity=0.036  Sum_probs=20.0

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .++++|++ |||||++..|++.+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58999999 99999999999865

>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=96.25  E-value=0.0028  Score=52.62  Aligned_cols=33  Identities=3%  Similarity=0.059  Sum_probs=25.4

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +..++++|++ |||||++..|++.+  .|  ..++|+|
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l--~g--~~~id~d   43 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAEL--DG--FQHLEVG   43 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHS--TT--EEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc--CC--CEEeeHH
Confidence            3459999999 99999999999852  13  5566766

>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=96.24  E-value=0.003  Score=53.79  Aligned_cols=24  Identities=17%  Similarity=0.325  Sum_probs=21.4

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +..++++|++ |||||++..|++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3459999999 99999999999976

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.23  E-value=0.0047  Score=59.13  Aligned_cols=43  Identities=5%  Similarity=0.080  Sum_probs=36.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      |..-..++|.|+| +||||++.+++..++..|.+|+++.+.-..
T Consensus       194 l~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEms~  237 (444)
T 3bgw_A          194 YKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGK  237 (444)
T ss_dssp             BCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSSCT
T ss_pred             CCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCCCH
Confidence            3444568999999 999999999999999889999999887444

>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=96.23  E-value=0.0039  Score=55.27  Aligned_cols=40  Identities=13%  Similarity=0.099  Sum_probs=30.5

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc----------CCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV----------RRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~----------g~~v~iVdLD   55 (284)
                      +..-..++|+||+ |||||++..++..++..          +.+|++++..
T Consensus        27 l~~G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e   77 (279)
T 1nlf_A           27 MVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAE   77 (279)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESS
T ss_pred             ccCCCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECC
Confidence            5556679999999 99999999999977642          3456666554

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.20  E-value=0.0023  Score=54.57  Aligned_cols=26  Identities=12%  Similarity=0.239  Sum_probs=22.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +|..|+|+|++ |||||++..|++.+.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45569999999 999999999999764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.19  E-value=0.0028  Score=53.03  Aligned_cols=34  Identities=15%  Similarity=0.289  Sum_probs=26.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      .+|..|+|+|++ |||||+|..|++.+   |  ..+++.|
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~---g--~~~i~~d   47 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDY---S--FVHLSAG   47 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS---S--CEEEEHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc---C--ceEEeHH
Confidence            456779999999 99999999999864   3  3556665

>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=96.19  E-value=0.0024  Score=53.50  Aligned_cols=32  Identities=9%  Similarity=-0.060  Sum_probs=25.3

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..+.|+|+. |||||++..|+. +   |  +.+++.|--
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~-~---g--~~~i~~d~~   34 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE-L---G--AYVLDADKL   34 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH-T---T--CEEEEHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH-C---C--CEEEEccHH
Confidence            358999999 999999999998 4   3  556676643

>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=96.18  E-value=0.0021  Score=52.97  Aligned_cols=22  Identities=18%  Similarity=0.172  Sum_probs=19.9

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .|+++|++ |||||++..|++.+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc
Confidence            38999999 99999999999865

>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=96.18  E-value=0.0032  Score=54.65  Aligned_cols=25  Identities=20%  Similarity=0.553  Sum_probs=22.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +|..++|+||. |||||+++.|++.+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46779999999 99999999999876

>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=96.17  E-value=0.0062  Score=53.06  Aligned_cols=34  Identities=9%  Similarity=0.055  Sum_probs=31.2

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..+++.|++ +||||++..++..+..+|++|+++.
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~   47 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFK   47 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEE
Confidence            458899998 9999999999999999999999993

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.16  E-value=0.0031  Score=50.95  Aligned_cols=22  Identities=23%  Similarity=0.019  Sum_probs=20.0

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .|+++|++ |||||++..|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999 99999999999976

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=96.16  E-value=0.0035  Score=56.61  Aligned_cols=36  Identities=0%  Similarity=-0.070  Sum_probs=31.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      +..+++.||+ +||||++..++..+...+.++..+|.
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~   73 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSA   73 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEH
Confidence            3458999999 99999999999999887888888764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.16  E-value=0.0058  Score=53.14  Aligned_cols=42  Identities=17%  Similarity=0.157  Sum_probs=31.2

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhc-----CCceEEEecCc
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETV-----RRTMHIVNLDP   56 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-----g~~v~iVdLDP   56 (284)
                      .+.++.++.|+||. |||||+++.|+..+...     .+++.+++.|+
T Consensus        21 ~i~~g~iigI~G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~v~~d~   68 (245)
T 2jeo_A           21 QSMRPFLIGVSGGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQDR   68 (245)
T ss_dssp             --CCSEEEEEECSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEEEEGGG
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhchhcccccCCceEEEeCCc
Confidence            34566779999999 99999999999977322     34566777774

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.13  E-value=0.0033  Score=53.58  Aligned_cols=23  Identities=13%  Similarity=0.274  Sum_probs=20.8

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..|+++|++ |||||++..|++++
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999 99999999999977

>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=96.11  E-value=0.0028  Score=52.65  Aligned_cols=33  Identities=18%  Similarity=0.185  Sum_probs=26.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +|..+.|+|+. |||||++..|++.    |  ..++|.|.
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~----g--~~~id~d~   40 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW----G--YPVLDLDA   40 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT----T--CCEEEHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC----C--CEEEcccH
Confidence            46779999999 9999999999883    4  45677774

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.11  E-value=0.0025  Score=53.76  Aligned_cols=28  Identities=11%  Similarity=0.119  Sum_probs=23.6

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +...+..++|+||+ |||||++..|+..+
T Consensus         8 ~~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            8 HMARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             -CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45566779999999 99999999999865

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.10  E-value=0.0067  Score=57.92  Aligned_cols=41  Identities=12%  Similarity=0.220  Sum_probs=35.2

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLDP   56 (284)
                      +..-..++|.|++ +||||++.+++..++. .|.+|+++.+.-
T Consensus       200 l~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~  242 (454)
T 2r6a_A          200 FQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLEM  242 (454)
T ss_dssp             BCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC
Confidence            4455669999999 9999999999999986 588999999763

>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=96.10  E-value=0.0069  Score=51.44  Aligned_cols=34  Identities=9%  Similarity=0.240  Sum_probs=31.8

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      +.++++||. |||||.+..++.-+..+|++|+++.
T Consensus         9 ~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k   43 (191)
T 1xx6_A            9 WVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFK   43 (191)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            579999998 9999999999999999999999996

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.10  E-value=0.0022  Score=52.54  Aligned_cols=25  Identities=12%  Similarity=0.044  Sum_probs=18.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +|..++++|++ |||||++..|++.+
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35679999999 99999999998864

>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=96.09  E-value=0.005  Score=60.11  Aligned_cols=49  Identities=8%  Similarity=-0.102  Sum_probs=39.6

Q ss_pred             hhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHh-c-CCceEEEecCc
Q 023298            8 LCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCET-V-RRTMHIVNLDP   56 (284)
Q Consensus         8 ~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~-~-g~~v~iVdLDP   56 (284)
                      |-+.|-..+.+...++++|.+ |||||+++.|++.|.. . ++.+.++|.|-
T Consensus       384 Lr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD~  435 (511)
T 1g8f_A          384 LRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN  435 (511)
T ss_dssp             HHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             HHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHHhhcCcceEEecCCC
Confidence            445555556667889999999 9999999999999986 5 47788888876

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.08  E-value=0.0067  Score=57.74  Aligned_cols=40  Identities=10%  Similarity=0.167  Sum_probs=34.5

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLD   55 (284)
                      |..-..++|.|++ +||||+|.+++...+. .|.+|+++.+.
T Consensus       197 l~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE  238 (444)
T 2q6t_A          197 LGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLE  238 (444)
T ss_dssp             CCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            3444568999999 9999999999999887 58899999986

>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=96.07  E-value=0.0071  Score=53.07  Aligned_cols=40  Identities=8%  Similarity=-0.001  Sum_probs=32.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCc-eEEEecCcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRT-MHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~-v~iVdLDPq~   58 (284)
                      ++..|++.|+. |||||.+..|+++|...|.+ +.+. -.|+.
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~-rep~~   67 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRT-REPGG   67 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEE-ESSCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCeeeee-cCCCC
Confidence            45569999999 99999999999999999998 5444 35643

>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=96.06  E-value=0.0039  Score=53.53  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .++++||| |||||.|..|++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999 99999999999965

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.03  E-value=0.0079  Score=52.38  Aligned_cols=41  Identities=7%  Similarity=-0.007  Sum_probs=35.0

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecCcCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLDPAAE   59 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq~~   59 (284)
                      +..|++.|+. |||||.+..|+++|.. .|++|.++--.|+.+
T Consensus        21 ~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t   63 (223)
T 3ld9_A           21 SMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGT   63 (223)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCC
Confidence            4558899999 9999999999999999 999988755677643

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.02  E-value=0.0022  Score=55.56  Aligned_cols=27  Identities=11%  Similarity=0.030  Sum_probs=23.6

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .-++.++++.||| +||||+|..++..+
T Consensus        55 iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           55 TPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3345689999999 99999999999987

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.99  E-value=0.0046  Score=51.23  Aligned_cols=23  Identities=13%  Similarity=0.213  Sum_probs=20.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .|+++|+. |||||++..|++++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            48899999 999999999999874

>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=95.98  E-value=0.0066  Score=60.02  Aligned_cols=38  Identities=8%  Similarity=-0.024  Sum_probs=33.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcC-CceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVR-RTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g-~~v~iVdLD   55 (284)
                      ++..|+++|++ |||||++..|++.|...| +++..+|-|
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D  434 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGD  434 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcH
Confidence            45779999999 999999999999999888 888888754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.96  E-value=0.0038  Score=60.08  Aligned_cols=42  Identities=12%  Similarity=0.134  Sum_probs=34.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCC-ceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRR-TMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~-~v~iVdLDPq~~   59 (284)
                      .|++ +.|+||. |||||+++.|+.++...+. +++.+|.||...
T Consensus       137 ~Ge~-v~IvGpnGsGKSTLlr~L~Gl~~p~~G~~pI~vdg~~~~~  180 (460)
T 2npi_A          137 EGPR-VVIVGGSQTGKTSLSRTLCSYALKFNAYQPLYINLDPQQP  180 (460)
T ss_dssp             SCCC-EEEEESTTSSHHHHHHHHHHTTHHHHCCCCEEEECCTTSC
T ss_pred             CCCE-EEEECCCCCCHHHHHHHHhCcccccCCceeEEEcCCccCC
Confidence            4555 9999999 9999999999999876555 667889888654

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=95.94  E-value=0.0047  Score=51.09  Aligned_cols=36  Identities=11%  Similarity=0.137  Sum_probs=28.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .+++.||+ +||||++..+++.+...+..+.++.++.
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~   76 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNA   76 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEET
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhccccccceEEecc
Confidence            38999999 9999999999999876665554554443

>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=95.93  E-value=0.0058  Score=61.08  Aligned_cols=38  Identities=8%  Similarity=-0.123  Sum_probs=32.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ++..|+++|++ |||||++..|++.|...|.+++.+|-|
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDgD   89 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGD   89 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEechH
Confidence            34569999999 999999999999998889888887644

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.93  E-value=0.0051  Score=56.65  Aligned_cols=34  Identities=12%  Similarity=0.222  Sum_probs=28.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +..++|+||. |||||++..||+.+     ...+||.|--
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l-----~~~iis~Ds~   39 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL-----PCELISVDSA   39 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS-----CEEEEEECTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc-----CCcEEeccch
Confidence            3469999999 99999999999854     3678898864

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.92  E-value=0.007  Score=52.81  Aligned_cols=39  Identities=8%  Similarity=0.015  Sum_probs=30.2

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhc----CCceEEEecCcC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETV----RRTMHIVNLDPA   57 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~----g~~v~iVdLDPq   57 (284)
                      +...|++-|+. |||||.+..|+++|...    |.+|.+.- .|+
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~r-ep~   67 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTR-EPG   67 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEE-SSS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeec-CCC
Confidence            34458999999 99999999999999988    99886553 454

>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=95.92  E-value=0.011  Score=50.53  Aligned_cols=41  Identities=7%  Similarity=-0.019  Sum_probs=36.0

Q ss_pred             CceEEEEECCCCcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           18 ALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +..+++..|+|.||||.+..++-.++.+|+||+++-..++.
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~   68 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGT   68 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCC
Confidence            44557777777999999999999999999999999999864

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.85  E-value=0.0073  Score=55.95  Aligned_cols=36  Identities=14%  Similarity=0.220  Sum_probs=29.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ++..++|+||. |||||++..||+.+     ..-+||.|--.
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l-----~~eiIs~Ds~q   75 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF-----PLEVINSDKMQ   75 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS-----CEEEEECCSST
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC-----CCcEEcccccc
Confidence            34579999999 99999999999843     46799999864

>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=95.84  E-value=0.0078  Score=57.70  Aligned_cols=39  Identities=10%  Similarity=0.089  Sum_probs=32.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      .++..|+++|.+ |||||++..|+..+...+.++..+|.|
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~~~~~t~~~~~d   76 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVG   76 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhccCCCceEEecc
Confidence            356679999999 999999999999998777777777744

>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=95.82  E-value=0.0054  Score=54.60  Aligned_cols=33  Identities=18%  Similarity=0.171  Sum_probs=25.0

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |..++++|++ |||||++..|++.+  .  ...+|+.|
T Consensus         2 ~~~I~l~G~~GsGKST~a~~L~~~~--~--~~~~i~~D   35 (301)
T 1ltq_A            2 KKIILTIGCPGSGKSTWAREFIAKN--P--GFYNINRD   35 (301)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHS--T--TEEEECHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhC--C--CcEEeccc
Confidence            4569999999 99999999998832  1  34556555

>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=95.79  E-value=0.012  Score=53.54  Aligned_cols=42  Identities=17%  Similarity=-0.013  Sum_probs=34.6

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc-C-CceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV-R-RTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g-~~v~iVdLDPq   57 (284)
                      ..++.++.|+||. |||||++..|+..+... | +++.+|-.|+.
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~~  131 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGF  131 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGGG
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecCcc
Confidence            4667789999999 99999999999998753 4 56888887764

>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=95.78  E-value=0.0061  Score=58.84  Aligned_cols=41  Identities=15%  Similarity=0.023  Sum_probs=35.2

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDP   56 (284)
                      +..-..++|.|++ +||||++.+++..++.. |.+|+++.+.-
T Consensus       239 l~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~  281 (503)
T 1q57_A          239 ARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEE  281 (503)
T ss_dssp             CCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSS
T ss_pred             cCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccC
Confidence            4445568999999 99999999999999886 99999999854

>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=95.77  E-value=0.01  Score=54.55  Aligned_cols=35  Identities=9%  Similarity=0.132  Sum_probs=28.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ++..++|+||. |||||++..|++.+     ...+|+.|.-
T Consensus         2 ~~~~i~i~GptgsGKt~la~~La~~~-----~~~iis~Ds~   37 (322)
T 3exa_A            2 KEKLVAIVGPTAVGKTKTSVMLAKRL-----NGEVISGDSM   37 (322)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHTT-----TEEEEECCGG
T ss_pred             CCcEEEEECCCcCCHHHHHHHHHHhC-----ccceeecCcc
Confidence            35568999999 99999999999853     4678888875

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.76  E-value=0.0063  Score=51.34  Aligned_cols=21  Identities=10%  Similarity=0.222  Sum_probs=19.2

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++|+|++ |||||+|..|++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999 99999999998865

>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=95.76  E-value=0.0088  Score=55.16  Aligned_cols=35  Identities=6%  Similarity=0.075  Sum_probs=31.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhc--CCceEEEecC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETV--RRTMHIVNLD   55 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~--g~~v~iVdLD   55 (284)
                      .+.|.||+ +||||+|..++..+++.  |.+|+.||.-
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E   67 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSE   67 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecc
Confidence            48899999 99999999999998876  8899999853

>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=95.75  E-value=0.0066  Score=52.27  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=22.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+..++++|++ |||||++..|++.+.
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            44569999999 999999999999763

>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=95.75  E-value=0.0052  Score=51.56  Aligned_cols=33  Identities=12%  Similarity=0.102  Sum_probs=25.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +..+.++|+. |||||++..|+.    .|  ..++|.|.-
T Consensus         2 ~~~i~l~G~~GsGKST~~~~La~----lg--~~~id~d~~   35 (206)
T 1jjv_A            2 TYIVGLTGGIGSGKTTIANLFTD----LG--VPLVDADVV   35 (206)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHT----TT--CCEEEHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH----CC--CcccchHHH
Confidence            3568999999 999999999987    34  345677654

>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=95.75  E-value=0.011  Score=53.79  Aligned_cols=38  Identities=8%  Similarity=0.035  Sum_probs=32.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCcCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDPAA   58 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq~   58 (284)
                      .++|.||+ +||||++..++..+... +..++.+|+.+..
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~   85 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYR   85 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCC
Confidence            79999999 99999999999988776 6788888865443

>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=95.74  E-value=0.0061  Score=51.65  Aligned_cols=21  Identities=10%  Similarity=0.213  Sum_probs=19.7

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++|+|++ |||||++..|++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999 99999999999976

>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=95.70  E-value=0.0092  Score=54.49  Aligned_cols=38  Identities=11%  Similarity=0.085  Sum_probs=32.0

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhc--------CCceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETV--------RRTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~--------g~~v~iVdLD   55 (284)
                      .+..+++.||+ +||||++..+++.+...        +..++.+|+-
T Consensus        44 ~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~   90 (384)
T 2qby_B           44 VKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCR   90 (384)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECc
Confidence            35679999999 99999999999998765        7777777763

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.66  E-value=0.0054  Score=48.97  Aligned_cols=35  Identities=9%  Similarity=0.068  Sum_probs=27.9

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      .-+++.|++ +|||+++..++......+..+. +|+.
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~   60 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YREL   60 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEEC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECC
Confidence            348999999 9999999999987666666655 6653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.66  E-value=0.0096  Score=52.87  Aligned_cols=38  Identities=8%  Similarity=0.054  Sum_probs=32.8

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..+++.||+ +||||++..++..+...+.++..+|+..-
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~   86 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEY   86 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGC
T ss_pred             eEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccc
Confidence            368999999 99999999999999877778888887543

>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=95.62  E-value=0.014  Score=50.27  Aligned_cols=36  Identities=6%  Similarity=0.031  Sum_probs=28.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ..+..+++.||+ +||||++..++..+   +.++..++..
T Consensus        37 ~~~~~vll~G~~GtGKT~la~~la~~~---~~~~~~~~~~   73 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAKAVATEA---QVPFLAMAGA   73 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH---TCCEEEEETT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEechH
Confidence            456779999999 99999999999865   5566666553

>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=95.61  E-value=0.0092  Score=50.55  Aligned_cols=34  Identities=26%  Similarity=0.338  Sum_probs=26.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      -..+.++|+. |||||++..|++.+   |  ..+||.|--
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~l---g--~~vid~D~~   46 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNKY---G--AHVVNVDRI   46 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH---C--CEEEEHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc---C--CEEEECcHH
Confidence            4568899999 99999999999854   4  566777644

>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=95.61  E-value=0.0091  Score=50.57  Aligned_cols=32  Identities=13%  Similarity=0.193  Sum_probs=25.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ++..+.|+|+. |||||++..|+.    .|  ..++|.|
T Consensus         3 ~~~~I~i~G~~GSGKST~~~~L~~----lg--~~~id~D   35 (218)
T 1vht_A            3 LRYIVALTGGIGSGKSTVANAFAD----LG--INVIDAD   35 (218)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH----TT--CEEEEHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH----cC--CEEEEcc
Confidence            45679999999 999999999987    24  4567776

>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=95.59  E-value=0.0088  Score=54.12  Aligned_cols=42  Identities=2%  Similarity=-0.062  Sum_probs=33.2

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHH------------hcC----CceEEEecCcC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCE------------TVR----RTMHIVNLDPA   57 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~------------~~g----~~v~iVdLDPq   57 (284)
                      +.....+.|.|++ |||||+|.+++...+            ..|    .+|++|++.-.
T Consensus        95 l~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~  153 (322)
T 2i1q_A           95 LESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGT  153 (322)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSC
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCC
Confidence            4556779999999 999999999998643            234    68999987654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.58  E-value=0.0086  Score=48.49  Aligned_cols=26  Identities=8%  Similarity=-0.038  Sum_probs=21.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+..++++|++ |||||.+..|++.|.
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            35578999999 999999999998653

>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=95.57  E-value=0.012  Score=53.38  Aligned_cols=39  Identities=3%  Similarity=-0.029  Sum_probs=32.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhc---CCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETV---RRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~---g~~v~iVdLDP   56 (284)
                      .+..++|.||+ +||||++..++..+...   +..++.+|+.+
T Consensus        44 ~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~   86 (386)
T 2qby_A           44 KPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQ   86 (386)
T ss_dssp             CCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCC
Confidence            45679999999 99999999999988765   77888888654

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.55  E-value=0.015  Score=49.35  Aligned_cols=36  Identities=14%  Similarity=0.078  Sum_probs=30.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      |++=|+- |||||.+..|+++|...|++|...- -|+.
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tr-eP~~   39 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKR-EPGG   39 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE-SSCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE-CCCC
Confidence            6677998 9999999999999999999987764 3543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.55  E-value=0.01  Score=53.91  Aligned_cols=41  Identities=10%  Similarity=-0.017  Sum_probs=32.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhc------CCceEEEecCcC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETV------RRTMHIVNLDPA   57 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~------g~~v~iVdLDPq   57 (284)
                      ..+..++|.||+ +||||++..+++.+...      +..++.+|..+.
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~   89 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHR   89 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTS
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcC
Confidence            445679999999 99999999999998765      666777776443

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.55  E-value=0.0058  Score=50.89  Aligned_cols=25  Identities=8%  Similarity=0.139  Sum_probs=21.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ....+.++||. |||||++..|+..+
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            44568999999 99999999999865

>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=95.53  E-value=0.0068  Score=51.22  Aligned_cols=21  Identities=10%  Similarity=0.170  Sum_probs=18.9

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++|+|++ |||||+|..|++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999 99999999998753

>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=95.52  E-value=0.014  Score=53.50  Aligned_cols=36  Identities=11%  Similarity=0.225  Sum_probs=29.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      .|..++|+||. |||||++..|++.+     ..-+|+.|.-.
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~-----~~~iis~Ds~q   45 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL-----PVELISVDSAL   45 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS-----CEEEEECCTTT
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC-----CCcEEeccccc
Confidence            35678999999 99999999999863     46789998743

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

Probab=95.51  E-value=0.013  Score=52.01  Aligned_cols=29  Identities=7%  Similarity=0.012  Sum_probs=25.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRR   47 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~   47 (284)
                      +..+++.||+ +||||++..++..+...+.
T Consensus        67 ~~~vll~G~~GtGKT~la~~la~~l~~~~~   96 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMAGLLHRLGY   96 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            3459999999 9999999999999987654

>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=95.51  E-value=0.0069  Score=51.15  Aligned_cols=31  Identities=10%  Similarity=0.030  Sum_probs=25.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ++|+|++ |||||++..|+..    |.+++.|+...
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            7899999 9999999998863    67788877643

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.47  E-value=0.0094  Score=51.06  Aligned_cols=22  Identities=14%  Similarity=0.163  Sum_probs=20.2

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .++++|++ |||||++..|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999 99999999999976

>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=95.47  E-value=0.0095  Score=53.23  Aligned_cols=35  Identities=14%  Similarity=0.130  Sum_probs=28.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      .+|..|.|+|++ |||||++..|+.    .|  ..+||.|.-
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~----lg--~~~id~D~~  108 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN----LG--AYIIDSDHL  108 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH----HT--CEEEEHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH----CC--CcEEehhHH
Confidence            457789999999 999999999984    24  456888764

>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=95.45  E-value=0.013  Score=54.17  Aligned_cols=42  Identities=10%  Similarity=0.079  Sum_probs=33.2

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhc------CCceEEEecCc
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETV------RRTMHIVNLDP   56 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~------g~~v~iVdLDP   56 (284)
                      .+..-.++.|+||+ |||||+|..++..++..      |-+|+.||...
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            35566779999999 99999999999986432      35788898754

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

Probab=95.45  E-value=0.016  Score=50.39  Aligned_cols=33  Identities=6%  Similarity=0.152  Sum_probs=26.1

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      -|..++++||+ +||||+++.++..+   +.++..+|
T Consensus        44 ~~~~vll~G~~GtGKT~la~~la~~~---~~~~~~i~   77 (257)
T 1lv7_A           44 IPKGVLMVGPPGTGKTLLAKAIAGEA---KVPFFTIS   77 (257)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH---TCCEEEEC
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHc---CCCEEEEe
Confidence            36679999999 99999999999865   44555454

>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=95.44  E-value=0.0099  Score=50.36  Aligned_cols=23  Identities=13%  Similarity=0.323  Sum_probs=20.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..+.++||+ |||||+++.|+..+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999 99999999999865

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.41  E-value=0.02  Score=49.34  Aligned_cols=37  Identities=11%  Similarity=0.087  Sum_probs=30.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCC-ceEEEecCcCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRR-TMHIVNLDPAA   58 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~-~v~iVdLDPq~   58 (284)
                      .|++-|+. |||||.+..|+++|...|. .|.+. -.|++
T Consensus         5 ~i~~eG~~gsGKsT~~~~l~~~l~~~~~~~v~~~-rep~~   43 (213)
T 4tmk_A            5 YIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT-REPGG   43 (213)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE-ESSCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCCcceee-eCCCC
Confidence            48899999 9999999999999999998 55433 44644

>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=95.39  E-value=0.014  Score=51.50  Aligned_cols=36  Identities=8%  Similarity=0.044  Sum_probs=29.0

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .+..+++.||+ +||||++..++..+   +.++..+|...
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l---~~~~~~i~~~~   85 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATK   85 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEcchh
Confidence            35668999999 99999999999977   56677777543

>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=95.36  E-value=0.01  Score=50.24  Aligned_cols=25  Identities=8%  Similarity=0.173  Sum_probs=21.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++..++++||. |||||++..|+..+
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45568999999 99999999998854

>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=95.33  E-value=0.011  Score=49.27  Aligned_cols=30  Identities=10%  Similarity=0.115  Sum_probs=24.2

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      .+.|.|+. |||||++..|+..+.     ..++|.|
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg-----~~~~d~d   34 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG-----VPYLSSG   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT-----CCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC-----Cceeccc
Confidence            68999999 999999999998653     4455655

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=95.32  E-value=0.019  Score=51.48  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=19.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      .+..++++|.+ |||||+...|..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~  142 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAK  142 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCceEEEEecCCCchHHHHHHHhc
Confidence            45679999999 999999998873

>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=95.32  E-value=0.012  Score=56.09  Aligned_cols=36  Identities=3%  Similarity=-0.086  Sum_probs=29.7

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhc--CCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETV--RRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~--g~~v~iVdL   54 (284)
                      +..+++.||+ +||||++..++..+...  +.++..++.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~  168 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS  168 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence            4568999999 99999999999998765  666666654

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=95.29  E-value=0.0075  Score=55.67  Aligned_cols=33  Identities=6%  Similarity=-0.025  Sum_probs=28.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ...+++.||+ +||||++..++..   .|.+|++|++
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~---~G~~VlyIs~  156 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA---LGGKDKYATV  156 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH---HHTTSCCEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh---CCCCEEEEEe
Confidence            3457899999 9999999999886   6778999988

>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=95.27  E-value=0.019  Score=55.84  Aligned_cols=47  Identities=13%  Similarity=0.198  Sum_probs=37.1

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ||-++.|   .+..-.++.|+|++ |||||++..++..+...|.+++.+..
T Consensus       270 ld~vL~g---~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~  317 (525)
T 1tf7_A          270 LDEMCGG---GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAY  317 (525)
T ss_dssp             HHHHTTS---SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             HHHHhCC---CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            3444444   55666679999999 99999999999988878888877764

>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=95.26  E-value=0.016  Score=50.23  Aligned_cols=27  Identities=7%  Similarity=0.054  Sum_probs=22.9

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +.-+.+++++||+ +||||+++.++..+
T Consensus        46 ~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           46 ARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             CCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3446679999999 99999999999865

>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=95.22  E-value=0.014  Score=55.25  Aligned_cols=49  Identities=20%  Similarity=0.264  Sum_probs=35.5

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHh------cCCceEEEecCc
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCET------VRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~------~g~~v~iVdLDP   56 (284)
                      ||-+..|   -+..-.++.|+||+ |||||||..++.....      .+.++++|+...
T Consensus       167 LD~lLgG---GI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          167 LDTLLGG---GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             HHHHTTT---SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             HHHHhcC---CcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            4544433   34555679999999 9999999998866543      356799998764

>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=95.21  E-value=0.013  Score=51.44  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=21.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +|..+.|.||+ |||||++..|++.+
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            56679999999 99999999999876

>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=95.17  E-value=0.025  Score=49.08  Aligned_cols=35  Identities=9%  Similarity=0.033  Sum_probs=32.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      -+..++.||. |||||.+..++.-+..+|++|+++.
T Consensus        28 G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k   63 (214)
T 2j9r_A           28 GWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFK   63 (214)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            3678899998 9999999999999999999999986

>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=95.15  E-value=0.013  Score=51.24  Aligned_cols=37  Identities=8%  Similarity=-0.070  Sum_probs=30.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +..+++.|++ +|||+++..++..+...+.++..||+-
T Consensus        29 ~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~   66 (265)
T 2bjv_A           29 DKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCA   66 (265)
T ss_dssp             CSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGG
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecC
Confidence            3458999999 999999999999877666777777764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.11  E-value=0.014  Score=48.24  Aligned_cols=23  Identities=4%  Similarity=0.001  Sum_probs=20.3

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..++++||. |||||++..|+..+
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            358999999 99999999999864

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

Probab=95.09  E-value=0.02  Score=50.24  Aligned_cols=35  Identities=11%  Similarity=0.071  Sum_probs=27.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..+..+++.||+ +||||++..++..+   +.++..++.
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~~---~~~~~~v~~   84 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATET---NATFIRVVG   84 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHHT---TCEEEEEEG
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEeh
Confidence            456789999999 99999999998854   556666654

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

Probab=95.08  E-value=0.021  Score=51.86  Aligned_cols=36  Identities=14%  Similarity=0.171  Sum_probs=28.1

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..++.+++.||+ +||||++..++..+  .+..++.|+.
T Consensus        43 ~~~~~iLL~GppGtGKT~la~ala~~~--~~~~~~~i~~   79 (322)
T 1xwi_A           43 TPWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISS   79 (322)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHHHT--TSCEEEEEEC
T ss_pred             CCCceEEEECCCCccHHHHHHHHHHHc--CCCcEEEEEh
Confidence            345789999999 99999999999875  2455555554

>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=95.05  E-value=0.023  Score=48.56  Aligned_cols=36  Identities=11%  Similarity=0.205  Sum_probs=28.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      .|++=|+- |||||.|..|+++|. +|.+|... --|+.
T Consensus         4 FI~~EG~dGsGKsTq~~~L~~~L~-~~~~v~~~-~eP~~   40 (205)
T 4hlc_A            4 FITFEGPEGSGKTTVINEVYHRLV-KDYDVIMT-REPGG   40 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT-TTSCEEEE-ESSTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH-CCCCEEEe-eCCCC
Confidence            37788998 999999999999996 47777654 34543

>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=95.03  E-value=0.024  Score=52.64  Aligned_cols=38  Identities=16%  Similarity=0.155  Sum_probs=31.9

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ...+|+||. |||||+++.+...+...|.+++++|  |..+
T Consensus        36 ~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D--~~~~   74 (392)
T 4ag6_A           36 SNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIID--PERE   74 (392)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE--SSCC
T ss_pred             CceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEe--CCcC
Confidence            348999999 9999999999998888888888874  5554

>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=95.00  E-value=0.015  Score=48.06  Aligned_cols=21  Identities=24%  Similarity=0.360  Sum_probs=18.8

Q ss_pred             eEEEEECCC-CcHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~   40 (284)
                      .+++++||. |||||+++.|+.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            357899999 999999999986

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

Probab=94.98  E-value=0.021  Score=54.50  Aligned_cols=35  Identities=11%  Similarity=0.133  Sum_probs=28.4

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..|+++++.||| +|||++++++|..+   |...+.|+.
T Consensus       204 ~~prGiLL~GPPGtGKT~lakAiA~~~---~~~~~~v~~  239 (428)
T 4b4t_K          204 DPPRGVLLYGPPGTGKTMLVKAVANST---KAAFIRVNG  239 (428)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHHHH---TCEEEEEEG
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHh---CCCeEEEec
Confidence            468899999999 99999999999865   455555543

>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=94.94  E-value=0.033  Score=51.86  Aligned_cols=38  Identities=13%  Similarity=0.107  Sum_probs=30.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEe
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVN   53 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVd   53 (284)
                      ..+...++|+||. |||||+...|+.++... ..++.+++
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e  172 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIE  172 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEE
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEec
Confidence            3445568999999 99999999999998875 55676766

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

Probab=94.90  E-value=0.024  Score=49.99  Aligned_cols=27  Identities=7%  Similarity=0.054  Sum_probs=22.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +.-+.+++++||+ +||||+++.++..+
T Consensus        70 ~~~~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           70 ARIPKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             CCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCCeEEEECCCcChHHHHHHHHHHHc
Confidence            3445679999999 99999999999865

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.89  E-value=0.018  Score=56.73  Aligned_cols=43  Identities=12%  Similarity=0.003  Sum_probs=34.1

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHHHhcC-CceEEEecCc
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVR-RTMHIVNLDP   56 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g-~~v~iVdLDP   56 (284)
                      ..+.+...++++|+. |||||+++.|+..+...+ +++.++|-|.
T Consensus       364 ~~~~~G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~  408 (552)
T 3cr8_A          364 PRERQGFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGDI  408 (552)
T ss_dssp             CGGGSCEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHH
T ss_pred             cccccceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCcH
Confidence            345567789999999 999999999999987543 5676777664

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.89  E-value=0.043  Score=48.59  Aligned_cols=39  Identities=13%  Similarity=0.071  Sum_probs=30.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEec
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNL   54 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdL   54 (284)
                      +..--.+.|+||. |||||+...++..+... ..++.+..-
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~   62 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIED   62 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEES
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCC
Confidence            5555678999999 99999999999998765 556666553

>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=94.85  E-value=0.024  Score=62.49  Aligned_cols=44  Identities=14%  Similarity=0.196  Sum_probs=39.0

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +.....++|.|++ +||||++.+++..++..|.+|+++++.-...
T Consensus       729 l~~G~lVlI~G~PG~GKTtLal~lA~~aa~~g~~VlyiS~Ees~~  773 (1706)
T 3cmw_A          729 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALD  773 (1706)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCC
T ss_pred             cCCCceEEEECCCCCCcHHHHHHHHHHHHHcCCCeEEEeccchHH
Confidence            6677789999999 9999999999999999999999999876543

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

Probab=94.85  E-value=0.028  Score=49.64  Aligned_cols=34  Identities=15%  Similarity=0.286  Sum_probs=26.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .+..+++.||+ +||||++..++..+   +.....++.
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~---~~~~~~i~~   87 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC---SATFLNISA   87 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT---TCEEEEEES
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh---CCCeEEeeH
Confidence            36789999999 99999999999854   445555554

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

Probab=94.82  E-value=0.029  Score=49.87  Aligned_cols=27  Identities=11%  Similarity=0.123  Sum_probs=23.1

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +.-|.+++++||+ +||||+++.++..+
T Consensus        41 l~~~~GvlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           41 LVTPAGVLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             CCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             CCCCCeEEEECCCCCcHHHHHHHHHHHc
Confidence            4556779999999 99999999999854

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.82  E-value=0.019  Score=47.62  Aligned_cols=24  Identities=8%  Similarity=0.193  Sum_probs=20.7

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..++.++||. |||||++..|+..+
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3458899999 99999999999864

>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=94.81  E-value=0.026  Score=51.89  Aligned_cols=40  Identities=13%  Similarity=-0.052  Sum_probs=32.1

Q ss_pred             CceEEEE--ECCC-CcHHHHHHHHHHHHHhc------CCceEEEecCcC
Q 023298           18 ALVIKCV--FSPP-PNQSTYCSSLYRHCETV------RRTMHIVNLDPA   57 (284)
Q Consensus        18 ~~~~~~v--iG~~-sGKTT~~~~La~~l~~~------g~~v~iVdLDPq   57 (284)
                      .+..++|  .||+ +||||++..+++.+...      +..++.+++.+.
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA   97 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCC
Confidence            4566778  8999 99999999999988764      567888887544

>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=94.78  E-value=0.029  Score=53.43  Aligned_cols=32  Identities=6%  Similarity=0.060  Sum_probs=28.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCC-ceEEE
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRR-TMHIV   52 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~-~v~iV   52 (284)
                      .++|.|+| +||||++..++.+|...|. +++++
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~   80 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILA   80 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEe
Confidence            68999999 9999999999999998887 56655

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

Probab=94.75  E-value=0.026  Score=54.00  Aligned_cols=34  Identities=6%  Similarity=0.080  Sum_probs=27.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..|+++++.||| +|||++++++|..+   |.+.+.|+
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~e~---~~~~~~v~  247 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAATI---GANFIFSP  247 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEE
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEe
Confidence            457899999999 99999999999964   45555554

>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=94.66  E-value=0.027  Score=50.49  Aligned_cols=26  Identities=12%  Similarity=0.273  Sum_probs=22.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..+.++++.||+ +||||++..++..+
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHHHh
Confidence            456789999999 99999999999864

>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=94.65  E-value=0.023  Score=47.28  Aligned_cols=23  Identities=9%  Similarity=0.115  Sum_probs=20.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+.++||. |||||+.+.++..+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            37899999 999999999999884

>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=94.64  E-value=0.031  Score=55.12  Aligned_cols=34  Identities=12%  Similarity=0.132  Sum_probs=30.4

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      ...++|.|+| +||||++..+...+...|.+|+++
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~  238 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLC  238 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEe
Confidence            3458899999 999999999999999999888876

>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=94.63  E-value=0.038  Score=48.34  Aligned_cols=34  Identities=12%  Similarity=0.165  Sum_probs=27.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..+..+++.||+ +||||++..++..   .+.+++.+|
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~---~~~~~~~i~   96 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE---SNFPFIKIC   96 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH---HTCSEEEEE
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH---hCCCEEEEe
Confidence            456789999999 9999999999996   355555554

>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=94.63  E-value=0.037  Score=50.03  Aligned_cols=34  Identities=15%  Similarity=0.210  Sum_probs=26.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .+..+++.||+ +|||+++..++..+   +.+++.|+.
T Consensus        50 ~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~v~~   84 (322)
T 3eie_A           50 PTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSS   84 (322)
T ss_dssp             CCCEEEEECSSSSCHHHHHHHHHHHH---TCEEEEEEH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH---CCCEEEEch
Confidence            46789999999 99999999998864   455555543

>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=94.60  E-value=0.023  Score=52.17  Aligned_cols=34  Identities=9%  Similarity=0.124  Sum_probs=26.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .+..+++.||+ +||||++..+++.+   +.+.+.+|.
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~---~~~~~~~~~   84 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL---DVPFTMADA   84 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEech
Confidence            45669999999 99999999999976   455555543

>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=94.58  E-value=0.034  Score=51.24  Aligned_cols=34  Identities=15%  Similarity=0.210  Sum_probs=26.5

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..+..+++.||+ +||||++..++..+   +.+++.|+
T Consensus        82 ~~~~~iLL~GppGtGKT~la~ala~~~---~~~~~~v~  116 (355)
T 2qp9_X           82 KPTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVS  116 (355)
T ss_dssp             CCCCCEEEECSTTSCHHHHHHHHHHHH---TCEEEEEE
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHh---CCCEEEee
Confidence            345679999999 99999999999976   44455444

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

Probab=94.58  E-value=0.03  Score=53.49  Aligned_cols=35  Identities=11%  Similarity=0.122  Sum_probs=27.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..|+++++.||| +|||++++++|..+   |...+.|+.
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e~---~~~f~~v~~  248 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQT---NATFLKLAA  248 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEG
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHHh---CCCEEEEeh
Confidence            358899999999 99999999999854   455555543

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.53  E-value=0.019  Score=49.48  Aligned_cols=26  Identities=12%  Similarity=-0.006  Sum_probs=22.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +|..|++.|+. |||||++..|+++|.
T Consensus         1 ~~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            1 GPRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35679999999 999999999999874

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.50  E-value=0.021  Score=48.09  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.0

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      ..+.|+||. |||||++..|...+.
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            458999999 999999999998764

>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=94.49  E-value=0.037  Score=50.92  Aligned_cols=35  Identities=11%  Similarity=0.130  Sum_probs=28.3

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..+..+++.||+ +||||++..++..+   +..++.||.
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~i~~  150 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIASQS---GATFFSISA  150 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHHHT---TCEEEEEEG
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHc---CCeEEEEeh
Confidence            356789999999 99999999998854   566666665

>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=94.48  E-value=0.036  Score=52.52  Aligned_cols=33  Identities=12%  Similarity=0.136  Sum_probs=27.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +..++|.||. |||||++..|+..+.     ..+|+.|-
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~-----~~iis~Ds   35 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFN-----GEVINSDS   35 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHT-----EEEEECCT
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCC-----CeEeecCc
Confidence            3468899999 999999999999763     35788876

>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=94.45  E-value=0.027  Score=46.88  Aligned_cols=26  Identities=4%  Similarity=-0.110  Sum_probs=22.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETV   45 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~   45 (284)
                      ..++|.||+ +||||++..+++.+...
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~~~~   72 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGLNCE   72 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHHHCT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            468999999 99999999999987643

>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=94.42  E-value=0.044  Score=50.89  Aligned_cols=36  Identities=17%  Similarity=0.269  Sum_probs=28.6

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhc-CCceEEEecCcC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETV-RRTMHIVNLDPA   57 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~-g~~v~iVdLDPq   57 (284)
                      .++|+||. |||||+...++..+... +.+++.+. ||-
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~e-d~~  162 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIE-DPI  162 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEE-SSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEcc-CcH
Confidence            68899999 99999999999998875 55555443 554

>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=94.37  E-value=0.03  Score=51.53  Aligned_cols=34  Identities=12%  Similarity=0.178  Sum_probs=27.7

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +..+++.||+ +||||++..++..+   +.++..+|.-
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l---~~~~~~~~~~  106 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDAT  106 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGG
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh---CCCEEEecch
Confidence            4458999999 99999999999876   5667777653

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.36  E-value=0.019  Score=48.38  Aligned_cols=33  Identities=15%  Similarity=0.142  Sum_probs=25.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      |..+.++|+. |||||++..|+..+   |  ..++|.|-
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~---g--~~~~~~d~   36 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASEL---S--MIYVDTGA   36 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT---T--CEEEEHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc---C--CceecCCh
Confidence            4568999999 99999999998854   3  34566653

>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=94.35  E-value=0.039  Score=60.80  Aligned_cols=44  Identities=14%  Similarity=0.196  Sum_probs=38.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +..-..++|.|++ +||||+|.+++...++.|.+|++|++.-..+
T Consensus       380 l~~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis~E~s~~  424 (1706)
T 3cmw_A          380 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALD  424 (1706)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCC
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEccCchH
Confidence            4456679999999 9999999999999999999999999987654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=94.33  E-value=0.034  Score=45.57  Aligned_cols=23  Identities=13%  Similarity=0.273  Sum_probs=19.3

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSL   38 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~L   38 (284)
                      +.+.-++.++||. |||||+++.+
T Consensus         6 i~~gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            6 IPELSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EESSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHH
Confidence            4556679999999 9999999973

>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=94.32  E-value=0.038  Score=47.57  Aligned_cols=32  Identities=9%  Similarity=0.005  Sum_probs=24.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ..+++++||+ |||||++..|++.    |.  -+|+.|-
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~----g~--~iIsdDs   66 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR----GH--RLIADDR   66 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT----TC--EEEESSE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh----CC--eEEecch
Confidence            4569999999 9999999888763    33  5666663

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.30  E-value=0.025  Score=49.42  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ...+.|+||. |||||+++.|++.|
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhc
Confidence            3469999999 99999999999644

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=94.22  E-value=0.063  Score=47.79  Aligned_cols=49  Identities=6%  Similarity=-0.129  Sum_probs=40.4

Q ss_pred             ehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298            4 YLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      -||-+|.|   -+..-..++|.|.| +||||++..+.....++|.++++++++
T Consensus         9 ~LD~~l~G---Gl~~gs~~li~g~p~~~~~~l~~qfl~~g~~~Ge~~~~~~~~   58 (260)
T 3bs4_A            9 ELDREIGK---IKKHSLILIHEEDASSRGKDILFYILSRKLKSDNLVGMFSIS   58 (260)
T ss_dssp             HHHHHHCC---BCTTCEEEEEECSGGGCHHHHHHHHHHHHHHTTCEEEEEECS
T ss_pred             HHHHHhCC---CCCCCcEEEEEeCCCccHHHHHHHHHHHHHHCCCcEEEEEEe
Confidence            36766666   35666778889777 999999999999888899999999987

>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=94.12  E-value=0.036  Score=47.30  Aligned_cols=28  Identities=7%  Similarity=-0.013  Sum_probs=21.7

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ..+.+ ..++++||. |||||++..|...+
T Consensus        15 ~~~~g-~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           15 YFQGR-KTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             -CCSC-CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCC-CEEEEECcCCCCHHHHHHHHHhhC
Confidence            33444 458899999 99999999998754

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

Probab=94.11  E-value=0.037  Score=52.45  Aligned_cols=34  Identities=12%  Similarity=0.169  Sum_probs=27.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..|+++++.||| +|||++++++|..+   |...+.|+
T Consensus       180 ~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f~~v~  214 (405)
T 4b4t_J          180 AQPKGVILYGPPGTGKTLLARAVAHHT---DCKFIRVS  214 (405)
T ss_dssp             CCCCCEEEESCSSSSHHHHHHHHHHHH---TCEEEEEE
T ss_pred             CCCCceEEeCCCCCCHHHHHHHHHHhh---CCCceEEE
Confidence            457899999999 99999999999854   44444444

>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=94.06  E-value=0.046  Score=51.85  Aligned_cols=35  Identities=20%  Similarity=0.121  Sum_probs=28.9

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      -.++|+||. |||||+...+...+...+.++.++.-
T Consensus       168 gii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed  203 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQELNSSERNILTVED  203 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEES
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEecc
Confidence            458899999 99999999999988766566777663

>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=94.06  E-value=0.029  Score=47.26  Aligned_cols=28  Identities=14%  Similarity=0.000  Sum_probs=22.2

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ...+-.++.++||. |||||+++.++..+
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34555678999999 99999999999875

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.06  E-value=0.035  Score=46.73  Aligned_cols=26  Identities=12%  Similarity=0.103  Sum_probs=23.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVR   46 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g   46 (284)
                      .+.++||. |||||++..++..+...|
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~~~G   29 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHHhhcccCC
Confidence            37899999 999999999999998556

>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=94.03  E-value=0.038  Score=53.52  Aligned_cols=33  Identities=12%  Similarity=0.163  Sum_probs=27.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      +..+++.||+ +||||++..+++.+   |..++.+|.
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~l---~~~~i~in~  110 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQEL---GYDILEQNA  110 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHT---TCEEEEECT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc---CCCEEEEeC
Confidence            4679999999 99999999999976   677776665

>1s1m_A CTP synthase; CTP synthetase, UTP:ammonia ligase (ADP-forming), cytidine 5 triphosphate synthase, ammonia lyase; 2.30A {Escherichia coli} SCOP: c.23.16.1 c.37.1.10 PDB: 2ad5_A*

Probab=94.00  E-value=0.33  Score=47.63  Aligned_cols=39  Identities=21%  Similarity=0.098  Sum_probs=33.4

Q ss_pred             eEEEEE-CCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           20 VIKCVF-SPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        20 ~~~~vi-G~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +.++|. |..  +|||+++..|+..|.+.|.+|..+=.||--
T Consensus         4 ~~i~v~gg~~s~~gk~~~~~~l~~~l~~~g~~v~~~k~~py~   45 (545)
T 1s1m_A            4 NYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYI   45 (545)
T ss_dssp             EEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECCS
T ss_pred             eEEEEeCCcccCcchHHHHHHHHHHHHhCCceeeeeeccccc
Confidence            469999 876  999999999999999999999987665433

>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=93.96  E-value=0.029  Score=49.77  Aligned_cols=35  Identities=17%  Similarity=0.152  Sum_probs=26.4

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      .+++.||+ +||||++..++..+...+....++.++
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~   83 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARELFGENWRHNFLELN   83 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEee
Confidence            48999999 999999999999886544333344444

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=93.96  E-value=0.053  Score=53.96  Aligned_cols=33  Identities=9%  Similarity=0.171  Sum_probs=29.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..+|.||| +||||+...+..++...|.+|+++=
T Consensus       207 ~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a  240 (646)
T 4b3f_X          207 LAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCA  240 (646)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEc
Confidence            47899999 9999999999999999999998864

>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=93.88  E-value=0.037  Score=47.67  Aligned_cols=29  Identities=14%  Similarity=0.164  Sum_probs=22.5

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +...-..++|+||. |||||++..|+..+.
T Consensus        12 ~~~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           12 HMAQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            34555679999999 999999999998653

>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=93.84  E-value=0.054  Score=50.87  Aligned_cols=40  Identities=18%  Similarity=0.054  Sum_probs=33.0

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ....++|+|+. |||||+...+...+...|.+++++|  |.++
T Consensus        52 ~~~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~D--pkge   92 (437)
T 1e9r_A           52 EPRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVD--PNGD   92 (437)
T ss_dssp             GGGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEE--ETTH
T ss_pred             CcceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe--CCCc
Confidence            45568999999 9999999888888888888888875  5544

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

Probab=93.81  E-value=0.045  Score=52.73  Aligned_cols=35  Identities=11%  Similarity=0.126  Sum_probs=27.9

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ...|+++++.||| +|||++++++|..+   |...+.|+
T Consensus       240 i~pprGILLyGPPGTGKTlLAkAiA~e~---~~~fi~vs  275 (467)
T 4b4t_H          240 IDPPKGILLYGPPGTGKTLCARAVANRT---DATFIRVI  275 (467)
T ss_dssp             CCCCSEEEECSCTTSSHHHHHHHHHHHH---TCEEEEEE
T ss_pred             CCCCCceEeeCCCCCcHHHHHHHHHhcc---CCCeEEEE
Confidence            3568999999999 99999999999854   44455444

>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=93.81  E-value=0.063  Score=47.89  Aligned_cols=35  Identities=11%  Similarity=-0.001  Sum_probs=28.5

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..++|.||+ +||||++..+++.+   +.+++.+|+...
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~---~~~~~~~~~~~~   66 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINEL---NLPYIYLDLRKF   66 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH---TCCEEEEEGGGG
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhc---CCCEEEEEchhh
Confidence            369999999 99999999998765   345788888653

>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=93.79  E-value=0.036  Score=46.77  Aligned_cols=20  Identities=20%  Similarity=0.350  Sum_probs=17.8

Q ss_pred             EEEECCC-CcHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRH   41 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~   41 (284)
                      |+|+||. |||||++..|.+.
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            7899999 9999999988763

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=93.76  E-value=0.029  Score=47.99  Aligned_cols=27  Identities=11%  Similarity=0.185  Sum_probs=21.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +.+..++.|+||. |||||++..|+..+
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            3445568999999 99999999999866

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=93.76  E-value=0.047  Score=50.01  Aligned_cols=27  Identities=4%  Similarity=-0.041  Sum_probs=24.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      .+..++|.||+ +|||+++..++..|..
T Consensus        44 ~~~~lli~GpPGTGKT~~v~~v~~~L~~   71 (318)
T 3te6_A           44 QNKLFYITNADDSTKFQLVNDVMDELIT   71 (318)
T ss_dssp             CCCEEEEECCCSHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence            56679999999 9999999999999975

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

Probab=93.74  E-value=0.055  Score=51.68  Aligned_cols=34  Identities=6%  Similarity=0.066  Sum_probs=26.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      .-|+++++.||| +|||++++++|..+   |...+.|+
T Consensus       214 ~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~fi~v~  248 (437)
T 4b4t_I          214 KPPKGVILYGAPGTGKTLLAKAVANQT---SATFLRIV  248 (437)
T ss_dssp             CCCSEEEEESSTTTTHHHHHHHHHHHH---TCEEEEEE
T ss_pred             CCCCCCceECCCCchHHHHHHHHHHHh---CCCEEEEE
Confidence            347899999999 99999999999864   44444444

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.70  E-value=0.037  Score=48.81  Aligned_cols=24  Identities=8%  Similarity=-0.101  Sum_probs=21.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ...++++|+. |||||++..|+..+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3459999999 99999999999966

>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=93.63  E-value=0.056  Score=51.38  Aligned_cols=35  Identities=14%  Similarity=0.194  Sum_probs=27.0

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .+..+++.||+ +||||++..++..+  .+..++.|+.
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~~~--~~~~~~~v~~  201 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISS  201 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHC--CSSEEEEECC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHc--CCCCEEEEeH
Confidence            45789999999 99999999999975  2445555544

>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=93.59  E-value=0.036  Score=50.28  Aligned_cols=36  Identities=14%  Similarity=0.275  Sum_probs=28.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      +++.||+ +||||++..++..+...+.++.++.++..
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~   85 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS   85 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCc
Confidence            7899999 99999999999998765555555555543

---

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	284
d1yrba1	244	c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB09	4e-34

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]} Length = 244

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]

 Score =  122 bits (306), Expect = 4e-34
 Identities = 45/231 (19%), Positives = 98/231 (42%), Gaps = 7/231 (3%)

Query: 32  STYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLI 91
           +T      R+ E   +    VNLD   +   Y  ++D+RE +++E++M E G GPNG ++
Sbjct: 14  TTLTGEFGRYLEDNYKV-AYVNLDTGVKELPYEPSIDVREFVTVEEIMRE-GYGPNGAIV 71

Query: 92  YCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCA 151
              + L +  +++L + L    ++DY++ D PGQ+E F         +++L         
Sbjct: 72  ESYDRLMEKFNEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVRLMENL----PYPLV 127

Query: 152 VYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFL 211
           VY+ D + +     +      +L   ++L    +  L+K+DL++ +++       E    
Sbjct: 128 VYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEEKERHRKYFEDIDY 187

Query: 212 LSELNQHMAPQFAKLNKSLIELVDE-YSMVSFMPLDLRKESSIRYVLSQID 261
           L+   +        +   +  ++ E    V  + L  +       + +   
Sbjct: 188 LTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAY 238

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	284
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.96
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.75
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.61
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.6
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.56
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.55
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.54
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.52
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.51
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.51
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	99.51
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	99.49
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.49
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.48
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.46
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.46
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.46
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.43
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.39
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	99.38
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	99.32
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.28
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	99.25
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.24
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.22
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.21
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.2
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.2
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.19
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.17
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.17
d1j8yf2	211	GTPase domain of the signal sequence recognition p	99.17
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.15
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.14
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.13
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.12
d1okkd2	207	GTPase domain of the signal recognition particle r	99.12
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.11
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.11
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	99.11
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.11
d1ls1a2	207	GTPase domain of the signal sequence recognition p	99.1
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.1
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.09
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.09
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.08
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.08
d1vmaa2	213	GTPase domain of the signal recognition particle r	99.08
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.07
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.07
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.06
d2qy9a2	211	GTPase domain of the signal recognition particle r	99.06
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.06
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.06
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.06
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.05
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.05
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.05
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.04
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.03
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.03
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.01
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.01
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.01
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.01
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	98.99
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	98.98
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	98.98
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	98.97
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.97
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	98.97
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	98.96
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	98.96
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	98.95
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	98.94
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	98.92
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	98.91
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	98.91
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	98.9
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	98.89
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.89
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	98.88
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	98.87
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.85
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	98.84
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.84
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	98.82
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.8
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.76
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	98.67
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	98.65
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.64
d2fh5b1	207	Signal recognition particle receptor beta-subunit	98.63
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	98.24
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.15
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.11
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	98.11
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.03
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.0
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	97.96
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.86
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.86
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.84
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	97.81
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	97.73
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.69
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.63
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.6
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.6
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.52
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.51
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	97.5
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	97.41
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.41
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.35
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.35
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.3
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.3
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.3
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.26
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.25
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.25
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.22
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.21
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.2
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.19
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.18
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.18
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.16
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.09
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.07
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	97.07
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.0
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.98
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.97
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.96
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.95
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.92
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.9
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.89
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.87
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.87
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.85
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.83
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.81
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.77
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.76
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.69
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.65
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.62
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.57
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.55
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.52
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.52
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.5
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.46
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.44
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.42
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.42
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.34
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.21
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.16
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.12
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.11
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.07
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.95
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	95.93
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.86
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.85
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.83
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	95.74
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.74
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.71
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.67
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.61
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.5
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.48
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.33
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.25
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.16
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.16
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.14
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.14
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.12
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.1
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.99
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	94.95
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	94.85
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.8
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.7
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.6
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.56
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	94.52
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.46
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	94.46
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.33
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	94.3
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	94.29
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	94.28
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	94.1
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.07
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.88
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	93.87
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	93.86
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.79
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	93.56
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.4
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	93.24
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.08
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	93.03
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	93.03
d2jfga1	93	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	92.94
d1s1ma2	266	CTP synthase PyrG, N-terminal domain {Escherichia	92.84
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	92.8
d2vo1a1	273	CTP synthase PyrG, N-terminal domain {Human (Homo	92.49
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.43
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.22
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	92.18
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.98
d1e8ca3	234	UDP-N-acetylmuramyl tripeptide synthetase MurE {Es	91.72
d1vcoa2	272	CTP synthase PyrG, N-terminal domain {Thermus ther	91.67
d2awna2	232	Maltose transport protein MalK, N-terminal domain	91.3
d1j6ua3	207	UDP-N-acetylmuramate-alanine ligase MurC {Thermoto	90.93
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	90.93
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	90.84
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	90.76
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	90.72
d2jfga3	204	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	90.52
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	90.46
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.46
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.28
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	90.25
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	90.23
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.21
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	89.88
d1g2912	240	Maltose transport protein MalK, N-terminal domain	89.87
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	89.79
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	89.75
d1a9xa4	121	Carbamoyl phosphate synthetase (CPS), large subuni	89.71
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	89.61
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	89.57
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	89.54
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	89.49
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	89.36
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	89.23
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	89.13
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	88.95
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	88.92
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	88.9
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	88.71
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	88.71
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	88.69
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	88.65
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.49
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	88.49
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	88.3
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	88.25
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	88.24
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	87.87
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	87.53
d2bcgg1	297	Guanine nucleotide dissociation inhibitor, GDI {Ba	87.35
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	87.13
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	86.76
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	86.68
d1p3da3	215	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	86.45
d2iida1	370	L-aminoacid oxidase {Malayan pit viper (Calloselas	86.36
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	86.33
d1xpua3	289	Transcription termination factor Rho, ATPase domai	86.27
d1e5qa1	182	Saccharopine reductase {Rice blast fungus (Magnapo	85.93
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	85.74
d1a9xa3	127	Carbamoyl phosphate synthetase (CPS), large subuni	85.72
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	85.2
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	85.01
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	84.86
d1mv8a2	202	GDP-mannose 6-dehydrogenase {Pseudomonas aeruginos	84.29
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	83.78
d1lssa_	132	Ktn Mja218 {Archaeon Methanococcus jannaschii [Tax	83.71
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	83.59
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	83.33
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	83.25
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	82.48
d1d5ta1	336	Guanine nucleotide dissociation inhibitor, GDI {Co	82.25
d1ryia1	276	Glycine oxidase ThiO {Bacillus sp. [TaxId: 1409]}	82.14
d1gg4a4	214	UDP-murNac-tripeptide D-alanyl-D-alanine-adding en	81.23
d1seza1	373	Protoporphyrinogen oxidase {Tobacco (Nicotiana tab	81.03
d1li4a1	163	S-adenosylhomocystein hydrolase {Human (Homo sapie	80.89
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	80.89
d1o5za2	296	Folylpolyglutamate synthetase {Thermotoga maritima	80.31

>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=99.96  E-value=3.5e-28  Score=210.91  Aligned_cols=236  Identities=20%  Similarity=0.351  Sum_probs=179.2

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      +++|+|++ ||||||+.+|.+++. .++++.+||+||++...+|++.+|+++.+...+.+.. ..+|+++...|+..+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~-~~~~~~ivn~d~~~~~~~~~~~id~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   79 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMRE-GYGPNGAIVESYDRLME   79 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCSSCSCCSSCCSEEGGGTCCHHHHHTT-TCCHHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh-hCCeEEEEecCcccccCCCcccchHHHHHHHHHHhHh-hhccCCchhhhhHhHHh
Confidence            58899999 999999999999875 6789999999999999999999999999999999865 57788888888887777


Q ss_pred             cHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHh
Q 023298          100 NLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQ  179 (284)
Q Consensus       100 ~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~  179 (284)
                      ++..+.........+.+++++||||+.+.+.+...+..+.+.+   . ..++++++|+....+|..+.+..+.......+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~id~~g~~~~~~~~~~~~~~~~~~---~-~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~  155 (244)
T d1yrba1          80 KFNEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVRLMENL---P-YPLVVYISDPEILKKPNDYCFVRFFALLIDLR  155 (244)
T ss_dssp             THHHHHHHHHHHHHHCSEEEEECCSSHHHHHHSHHHHHHHHTS---S-SCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhhccccceeeeccccchhHHHHHHHHHHHHhhc---c-CceEEEEeccccccCchhHhhHHHHHHHHHHH
Confidence            7733322221111256899999999998776655555444332   2 35788999998888888887777766667778


Q ss_pred             cCCCEEEEecCCccccchhhhhhhcC--cchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccHHHH
Q 023298          180 LELPHVNILSKMDLVTNKKEIEDYLN--PESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSIRYV  256 (284)
Q Consensus       180 ~~~p~IlVlNK~Dll~~~~~l~~~l~--~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~L  256 (284)
                      .+.|.++|+||+|++..+ +......  .....+...+.. .....+.+...+...++++ +...++|+||.+|+|+++|
T Consensus       156 ~~~~~ivvinK~D~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L  233 (244)
T d1yrba1         156 LGATTIPALNKVDLLSEE-EKERHRKYFEDIDYLTARLKL-DPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDL  233 (244)
T ss_dssp             HTSCEEEEECCGGGCCHH-HHHHHHHHHHCHHHHHHHHHH-CCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHH
T ss_pred             hCCCceeeeeccccccHH-HHHHHHHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHH
Confidence            899999999999998754 3333221  123333333332 2335667778888887774 5689999999999999999


Q ss_pred             HHHHHHhc
Q 023298          257 LSQIDNCI  264 (284)
Q Consensus       257 l~~I~~~l  264 (284)
                      +..|.+.+
T Consensus       234 ~~~l~e~~  241 (244)
T d1yrba1         234 ETLAYEHY  241 (244)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998863

>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=99.75  E-value=3.8e-18  Score=141.74  Aligned_cols=125  Identities=10%  Similarity=0.044  Sum_probs=83.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH-HhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL-KSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l-~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+.+.  .......+.+.. .....+++++|++|+....... ..+...+.    ....++|+++|+||+
T Consensus        52 ~~~~~~~DtpG~~~~--~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~----~~~~~~piilv~NK~  125 (178)
T d1wf3a1          52 RRQIVFVDTPGLHKP--MDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALK----PLVGKVPILLVGNKL  125 (178)
T ss_dssp             TEEEEEEECCCCCCC--CSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHG----GGTTTSCEEEEEECG
T ss_pred             eeeeeeccccccccc--ccccchhcccccccccccccceeeeechhhhhcccccchhhhee----ccccchhhhhhhccc
Confidence            457899999998763  222233343332 2334467899999997654433 33333221    122468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDAD  271 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~~  271 (284)
                      |+.+...+..+                             .+.+.++...++++||++|.|+++|++.|.+.+|+||...
T Consensus       126 Dl~~~~~~~~~-----------------------------~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~~~lpe~p~~~  176 (178)
T d1wf3a1         126 DAAKYPEEAMK-----------------------------AYHELLPEAEPRMLSALDERQVAELKADLLALMPEGPFFY  176 (178)
T ss_dssp             GGCSSHHHHHH-----------------------------HHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTCCBCCCSS
T ss_pred             ccccCHHHHHH-----------------------------HHHhhcccCceEEEecCCCCCHHHHHHHHHHhCCCCCCCC
Confidence            99764311111                             1113456678999999999999999999999999999887


Q ss_pred             CC
Q 023298          272 LK  273 (284)
Q Consensus       272 ~~  273 (284)
                      |+
T Consensus       177 p~  178 (178)
T d1wf3a1         177 PE  178 (178)
T ss_dssp             CT
T ss_pred             CC
Confidence            64

>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=99.61  E-value=8.3e-16  Score=127.40  Aligned_cols=123  Identities=14%  Similarity=0.227  Sum_probs=75.8

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      +.++.++||||+..... .......+.+.+.   ..+++++++|+.... .........+.. ......++|+|+|+||+
T Consensus        48 ~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~d~~~~~~~~~~~~~~~~~~-~~~~~~~~p~iiv~NK~  123 (180)
T d1udxa2          48 EERFTLADIPGIIEGASEGKGLGLEFLRHIA---RTRVLLYVLDAADEPLKTLETLRKEVGA-YDPALLRRPSLVALNKV  123 (180)
T ss_dssp             SCEEEEEECCCCCCCGGGSCCSCHHHHHHHT---SSSEEEEEEETTSCHHHHHHHHHHHHHH-HCHHHHHSCEEEEEECC
T ss_pred             CCeEEEcCCCeeecCchHHHHHHHHHHHHHH---hhhhhhhhcccccccccchhhhhhhhhc-cccccchhhhhhhhhhh
Confidence            45789999999865332 1222233444443   346889999975331 111111122211 11223468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGED  269 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d  269 (284)
                      |+..++ +.+...                           +.+.. ....++++||++|+|+++|++.|.+.++..+.
T Consensus       124 D~~~~~-~~~~~~---------------------------~~~~~-~~~~~~~iSA~tg~gid~L~~~i~~~l~~~~~  172 (180)
T d1udxa2         124 DLLEEE-AVKALA---------------------------DALAR-EGLAVLPVSALTGAGLPALKEALHALVRSTPP  172 (180)
T ss_dssp             TTSCHH-HHHHHH---------------------------HHHHT-TTSCEEECCTTTCTTHHHHHHHHHHHHHTSCC
T ss_pred             hhhhHH-HHHHHH---------------------------HHHHh-cCCeEEEEEcCCCCCHHHHHHHHHHHHhhcCC
Confidence            998654 333222                           11121 24689999999999999999999999987654

>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=99.60  E-value=6e-15  Score=121.11  Aligned_cols=118  Identities=8%  Similarity=0.039  Sum_probs=74.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..++.+.||||+...-............+......+++++++|+.....+ ...+..      .+.+.++|+|+|+||+|
T Consensus        47 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~~~~~~------~l~~~~~pviiv~NK~D  120 (171)
T d1mkya1          47 GKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLAD------FLRKSTVDTILVANKAE  120 (171)
T ss_dssp             TEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHH------HHHHHTCCEEEEEESCC
T ss_pred             ccccccccccceeeeeccccccccccccccccccCcEEEEeeccccccccccccccc------ccccccccccccchhhh
Confidence            45789999999765332222222222222223335688999998755333 333322      23367899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +.++. +. +.                           .+-+...++.+++|+||++|.|+++|++.|.+.+++
T Consensus       121 l~~~~-~~-~~---------------------------~~~~~~~~~~~~i~iSAk~g~gid~L~~~i~~~l~e  165 (171)
T d1mkya1         121 NLREF-ER-EV---------------------------KPELYSLGFGEPIPVSAEHNINLDTMLETIIKKLEE  165 (171)
T ss_dssp             SHHHH-HH-HT---------------------------HHHHGGGSSCSCEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             hhhhh-hh-HH---------------------------HHHHHhcCCCCeEEEecCCCCCHHHHHHHHHHhCCC
Confidence            86422 11 11                           111133456788999999999999999999988765

>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=99.56  E-value=1.5e-14  Score=125.12  Aligned_cols=130  Identities=18%  Similarity=0.184  Sum_probs=74.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..++.++||||+.. |....        ..++...+++++++|+...-++ ...+.      ..+...++|+|+|+||+|
T Consensus        69 ~~~~~~iDtPGh~~-f~~~~--------~~~~~~~D~~ilVvda~~g~~~~~~~~~------~~~~~~~~p~iivlNK~D  133 (227)
T d1g7sa4          69 LPGLFFIDTPGHEA-FTTLR--------KRGGALADLAILIVDINEGFKPQTQEAL------NILRMYRTPFVVAANKID  133 (227)
T ss_dssp             CCEEEEECCCTTSC-CTTSB--------CSSSBSCSEEEEEEETTTCCCHHHHHHH------HHHHHTTCCEEEEEECGG
T ss_pred             ccccccccccceec-ccccc--------hhcccccceEEEEEecccCcccchhHHH------HHhhcCCCeEEEEEECcc
Confidence            56899999999644 22111        1123346789999999764333 33232      334467899999999999


Q ss_pred             cccchhhhhhhcC------cchHHHHHHhhhcchhHHHHHHHHHHHHHhc------------c-CCceEEEEeccCcccH
Q 023298          193 LVTNKKEIEDYLN------PESQFLLSELNQHMAPQFAKLNKSLIELVDE------------Y-SMVSFMPLDLRKESSI  253 (284)
Q Consensus       193 ll~~~~~l~~~l~------~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~------------~-~~~~~ipiSa~~~~~l  253 (284)
                      +.... .......      .........+       ...+...+..+.++            + +...++|+||.+|.|+
T Consensus       134 ~~~~~-~~~~~~~~~~~~~~~~~~v~~~~-------~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gi  205 (227)
T d1g7sa4         134 RIHGW-RVHEGRPFMETFSKQDIQVQQKL-------DTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGI  205 (227)
T ss_dssp             GSTTC-CCCTTCCHHHHHTTSCHHHHHHH-------HHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTH
T ss_pred             CCCch-hhhhhHHHHHhhhcchHHHHHHH-------HHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCH
Confidence            97643 2211110      0000000000       01111222222221            1 2357999999999999


Q ss_pred             HHHHHHHHHhcCC
Q 023298          254 RYVLSQIDNCIQW  266 (284)
Q Consensus       254 ~~Ll~~I~~~l~~  266 (284)
                      ++|++.|....+.
T Consensus       206 d~Ll~~l~~l~~~  218 (227)
T d1g7sa4         206 PELLTMLMGLAQQ  218 (227)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999876543

>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=99.55  E-value=9.1e-15  Score=121.67  Aligned_cols=119  Identities=16%  Similarity=0.228  Sum_probs=75.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      +..+.++||||+...      ...+..   .....+++++++|+...-.+. ..+..      .+...++|+++|+||+|
T Consensus        58 ~~~~~~~d~~g~~~~------~~~~~~---~l~~~d~~ilv~d~~~g~~~~~~~~~~------~~~~~~~p~iiv~NKiD  122 (179)
T d1wb1a4          58 NYRITLVDAPGHADL------IRAVVS---AADIIDLALIVVDAKEGPKTQTGEHML------ILDHFNIPIIVVITKSD  122 (179)
T ss_dssp             TEEEEECCCSSHHHH------HHHHHH---HTTSCCEEEEEEETTTCSCHHHHHHHH------HHHHTTCCBCEEEECTT
T ss_pred             Ccccccccccccccc------ccchhh---hhhhccccccccccccccchhhhhhhh------hhhhcCCcceecccccc
Confidence            456889999995431      111222   233457889999998654443 22322      23467899999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      +...+ +.....                    .+.+.+.+.........++|+||++|+|+++|++.|.+.+|+.|
T Consensus       123 ~~~~~-~~~~~~--------------------~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~~e  177 (179)
T d1wb1a4         123 NAGTE-EIKRTE--------------------MIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNNAE  177 (179)
T ss_dssp             SSCHH-HHHHHH--------------------HHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHHSC
T ss_pred             ccCHH-HHHHHH--------------------HHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHhcCCccc
Confidence            98644 332211                    01111111112233468999999999999999999999988765

>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=99.54  E-value=2.3e-15  Score=125.09  Aligned_cols=125  Identities=18%  Similarity=0.242  Sum_probs=73.8

Q ss_pred             CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCCCC--CCHHHHHHHHHHHHHHH---HhcCCCEEEE
Q 023298          114 DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQFI--TDVTKFISGCMASLSAM---VQLELPHVNI  187 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~~~--~~~~~~i~~~l~~l~~~---~~~~~p~IlV  187 (284)
                      ..+++++||||+.+... .......+++.+..+   ..++++++....  .......... ......   ...++|.++|
T Consensus        48 ~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~---~~i~~~v~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~kp~ivv  123 (185)
T d1lnza2          48 GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERT---RVIVHVIDMSGLEGRDPYDDYLTI-NQELSEYNLRLTERPQIIV  123 (185)
T ss_dssp             SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC---CEEEEEEESSCSSCCCHHHHHHHH-HHHHHHSCSSTTTSCBCBE
T ss_pred             CcEEEEecCCCcccCchHHHHHHHHHHHHHHHh---hhhhheeeecccccchhhhhhhhh-hhccchhhhhccCCcchhh
Confidence            34689999999765322 223345555666543   355666655433  2222211111 111111   1236899999


Q ss_pred             ecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          188 LSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       188 lNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +||+|+...+..++.+.                              +.+ ...+++++||++|+|+++|++.|.+.++.
T Consensus       124 ~NK~Dl~~~~~~~~~~~------------------------------~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~~  173 (185)
T d1lnza2         124 ANKMDMPEAAENLEAFK------------------------------EKLTDDYPVFPISAVTREGLRELLFEVANQLEN  173 (185)
T ss_dssp             EECTTSTTHHHHHHHHH------------------------------HHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             ccccchHhHHHHHHHHH------------------------------HHhccCCcEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            99999975431111111                              112 23578999999999999999999999987


Q ss_pred             CCCCCC
Q 023298          267 GEDADL  272 (284)
Q Consensus       267 g~d~~~  272 (284)
                      .+..+.
T Consensus       174 ~p~~~~  179 (185)
T d1lnza2         174 TPEFPL  179 (185)
T ss_dssp             CCCCCS
T ss_pred             CCCCCC
Confidence            665443

>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=99.52  E-value=2.5e-14  Score=117.89  Aligned_cols=120  Identities=17%  Similarity=0.264  Sum_probs=69.1

Q ss_pred             CEEEEeCCCCccccc-cc----chHHHHHHHHH-hcCCCeEEEEEecCCCC------------CCHHHHHHHHHHHHHHH
Q 023298          116 DYLVFDCPGQIELFT-HV----PVLRNFVDHLK-SRNFNVCAVYLLDSQFI------------TDVTKFISGCMASLSAM  177 (284)
Q Consensus       116 ~~viiDtPg~~e~~~-~~----~~~~~l~~~l~-~~d~~~vil~LiDa~~~------------~~~~~~i~~~l~~l~~~  177 (284)
                      ++.++||||.-.... ..    .....+..... .....+++++++|+...            ...+..+      +..+
T Consensus        44 ~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~------~~~l  117 (184)
T d2cxxa1          44 NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEF------YQFL  117 (184)
T ss_dssp             TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHH------HHHH
T ss_pred             cceecccCCceeccccccccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhccccHHHHHH------HHHH
Confidence            578899999532111 11    11222233222 22335689999998521            1111111      2233


Q ss_pred             HhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC--CceEEEEeccCcccHHH
Q 023298          178 VQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS--MVSFMPLDLRKESSIRY  255 (284)
Q Consensus       178 ~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~--~~~~ipiSa~~~~~l~~  255 (284)
                      ...++|.|+|+||+|++++.....+.+.       +.+.                  ..+.  ...++|+||++|.|+++
T Consensus       118 ~~~~~p~iiv~NK~D~~~~~~~~~~~~~-------~~~~------------------~~~~~~~~~~~~vSA~~g~gi~~  172 (184)
T d2cxxa1         118 RELDIPTIVAVNKLDKIKNVQEVINFLA-------EKFE------------------VPLSEIDKVFIPISAKFGDNIER  172 (184)
T ss_dssp             HHTTCCEEEEEECGGGCSCHHHHHHHHH-------HHHT------------------CCGGGHHHHEEECCTTTCTTHHH
T ss_pred             HHcCCCEEEEEeeeehhhhHHHHHHHHH-------HHhc------------------ccccccCCeEEEEECCCCCCHHH
Confidence            4578999999999998864422222110       0000                  0011  13589999999999999


Q ss_pred             HHHHHHHhcCC
Q 023298          256 VLSQIDNCIQW  266 (284)
Q Consensus       256 Ll~~I~~~l~~  266 (284)
                      |++.|.+.+++
T Consensus       173 L~~~i~~~l~e  183 (184)
T d2cxxa1         173 LKNRIFEVIRE  183 (184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHccC
Confidence            99999998874

>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=99.51  E-value=3.9e-14  Score=116.18  Aligned_cols=122  Identities=11%  Similarity=0.119  Sum_probs=79.9

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHH----Hh-cCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHL----KS-RNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l----~~-~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVl  188 (284)
                      ..+++.+|+||.....     ........    .. ....++++++.|+.........+..      .+.+...|.++|+
T Consensus        52 ~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~------~l~~~~~~~i~v~  120 (179)
T d1egaa1          52 AYQAIYVDTPGLHMEE-----KRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLN------KLREGKAPVILAV  120 (179)
T ss_dssp             TEEEEEESSSSCCHHH-----HHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCHHHHHHHH------HHHSSSSCEEEEE
T ss_pred             CceeEeecCCCceecc-----hhhhhhhhhhccccchhhcceeEEEEecCccchhHHHHHH------HhhhccCceeeee
Confidence            3467888999965411     11121111    11 2345678888887654333332222      2235678999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCC
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGE  268 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~  268 (284)
                      ||+|.+.++.++...                          +....+.++...++|+||++|+|+++|++.|.+.+|++|
T Consensus       121 ~k~d~~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~lpe~~  174 (179)
T d1egaa1         121 NKVDNVQEKADLLPH--------------------------LQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEAT  174 (179)
T ss_dssp             ESTTTCCCHHHHHHH--------------------------HHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCCBCC
T ss_pred             eeeeccchhhhhhhH--------------------------hhhhhhhcCCCCEEEEeCcCCCCHHHHHHHHHHhCCCCC
Confidence            999987654222221                          123345677789999999999999999999999999998


Q ss_pred             CCCC
Q 023298          269 DADL  272 (284)
Q Consensus       269 d~~~  272 (284)
                      ...|
T Consensus       175 ~~yp  178 (179)
T d1egaa1         175 HHFP  178 (179)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            8765

>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=99.51  E-value=3.7e-14  Score=114.52  Aligned_cols=111  Identities=13%  Similarity=0.169  Sum_probs=70.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCC--HHHHHHHHHHHHHHHHhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITD--VTKFISGCMASLSAMVQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~--~~~~i~~~l~~l~~~~~~~~p~IlVlNK  190 (284)
                      +.++.++||||..+.  .........+. .......+++++++|+.....  ........+    .....++|+++|+||
T Consensus        48 ~~~~~~~d~~g~~~~--~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~----~~~~~~~~iilv~NK  121 (161)
T d2gj8a1          48 GMPLHIIDTAGLREA--SDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFI----ARLPAKLPITVVRNK  121 (161)
T ss_dssp             TEEEEEEECCCCSCC--SSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHH----HHSCTTCCEEEEEEC
T ss_pred             Cceeeeccccccccc--cccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhh----hhcccccceeeccch
Confidence            457899999998773  22222222222 222222467889999875432  222222221    122347999999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+..++..+                                  .+.+...++++||++|+|+++|++.|.+.+
T Consensus       122 ~Dl~~~~~~~----------------------------------~~~~~~~~~~iSAk~~~gi~~L~~~l~~~l  161 (161)
T d2gj8a1         122 ADITGETLGM----------------------------------SEVNGHALIRLSARTGEGVDVLRNHLKQSM  161 (161)
T ss_dssp             HHHHCCCCEE----------------------------------EEETTEEEEECCTTTCTTHHHHHHHHHHHC
T ss_pred             hhhhhhHHHH----------------------------------HHhCCCcEEEEECCCCCCHHHHHHHHHhhC
Confidence            9987543111                                  223457899999999999999999998754

>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=99.51  E-value=8.9e-14  Score=122.11  Aligned_cols=43  Identities=19%  Similarity=0.272  Sum_probs=40.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      ++.|.|.|.| |||||++.|||.+|++.|+||++||+|||++.+
T Consensus         1 mr~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~q~~~t   44 (269)
T d1cp2a_           1 MRQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADST   44 (269)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTSCSS
T ss_pred             CCEEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCCCCCch
Confidence            4678899999 999999999999999999999999999998864

>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=99.49  E-value=1.5e-13  Score=122.09  Aligned_cols=43  Identities=19%  Similarity=0.244  Sum_probs=40.0

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      ++.|.|-|.| |||||++.|||.+|++.|+||++||+|||++.+
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~DpQ~~st   45 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADST   45 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSSCSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCCCCCcc
Confidence            5677888999 999999999999999999999999999999864

>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=99.49  E-value=2.1e-13  Score=112.68  Aligned_cols=121  Identities=16%  Similarity=0.147  Sum_probs=75.1

Q ss_pred             CCCEEEEeCCCCccccc------ccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEE
Q 023298          114 DDDYLVFDCPGQIELFT------HVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVN  186 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~------~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~Il  186 (284)
                      +.++.++||||......      +......+.+.+..   .+++++++|+........ .+..      .+.+.+.|+|+
T Consensus        55 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~---~dvii~v~d~~~~~~~~~~~~~~------~~~~~~~~~i~  125 (186)
T d1mkya2          55 GRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEK---ADVVVIVLDATQGITRQDQRMAG------LMERRGRASVV  125 (186)
T ss_dssp             TEEEEESSCSCC-----------CCSCCHHHHHHHHH---CSEEEEEEETTTCCCHHHHHHHH------HHHHTTCEEEE
T ss_pred             CceeeeeccCCccccccccccccccchhHHHHHHHhc---CCEEEEeecccccchhhHHHHHH------HHHHcCCceee
Confidence            44678889999754221      11112334555544   368999999976543333 2322      23467899999


Q ss_pred             EecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          187 ILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       187 VlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+||+|+.......   .                   .++...+.+.+...++.+++|+||++|.|+++|++.|.+.+.
T Consensus       126 v~nK~D~~~~~~~~---~-------------------~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~  182 (186)
T d1mkya2         126 VFNKWDLVVHREKR---Y-------------------DEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYA  182 (186)
T ss_dssp             EEECGGGSTTGGGC---H-------------------HHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             eccchhhhcchhhh---h-------------------hhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            99999997544111   0                   011112233334456778999999999999999999988753

>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=99.48  E-value=1.8e-13  Score=116.22  Aligned_cols=114  Identities=13%  Similarity=0.197  Sum_probs=72.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCC-CEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLEL-PHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~-p~IlVlNK~D  192 (284)
                      +.+.+|||||+..      ....+   +.++...++++++||+... ..+...-  .   +......+. |.|+++||+|
T Consensus        86 r~~~iiD~PGH~d------f~~~~---~~~~~~ad~ailvVda~~gi~~~~t~e--~---~~~~~~~~i~~iIV~vNK~D  151 (205)
T d2qn6a3          86 RRISFIDAPGHEV------LMATM---LSGAALMDGAILVVAANEPFPQPQTRE--H---FVALGIIGVKNLIIVQNKVD  151 (205)
T ss_dssp             EEEEEEECSCHHH------HHHHH---HHTSSCCSEEEEEEETTSCSSCHHHHH--H---HHHHHHTTCCCEEEEEECGG
T ss_pred             EEEEEeccchHHH------HHhhh---hcceeccccccccccccccccchhHHH--H---HHHHHHcCCceeeeccccCC
Confidence            4689999999654      11222   3344456889999999864 3433211  1   111223454 7888899999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +...+ +.....                       ..+.+.+..+.+  ..|+|+||++|.|+++|++.|.+++|+
T Consensus       152 l~~~~-~~~~~~-----------------------~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip~  203 (205)
T d2qn6a3         152 VVSKE-EALSQY-----------------------RQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKT  203 (205)
T ss_dssp             GSCHH-HHHHHH-----------------------HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             Cccch-HHHHHH-----------------------HHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhCCC
Confidence            98644 221111                       011223333333  579999999999999999999999885

>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=99.46  E-value=5.6e-13  Score=113.18  Aligned_cols=115  Identities=17%  Similarity=0.193  Sum_probs=74.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcC-CCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLE-LPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~-~p~IlVlNK~  191 (284)
                      ++++.++||||+..      +...+   +.++...++++++||+...-.+.. .....      ...++ +|+|+++||+
T Consensus        65 ~~~~~~iDtPGh~~------f~~~~---~~~~~~aD~allVVda~~G~~~QT~~~~~~------a~~~~~~~iIv~iNK~  129 (196)
T d1d2ea3          65 ARHYAHTDCPGHAD------YVKNM---ITGTAPLDGCILVVAANDGPMPQTREHLLL------ARQIGVEHVVVYVNKA  129 (196)
T ss_dssp             SCEEEEEECSSHHH------HHHHH---HHTSSCCSEEEEEEETTTCSCHHHHHHHHH------HHHTTCCCEEEEEECG
T ss_pred             eeeEEeecCcchHH------HHHHH---HHHHhhcCeEEEEEEcCCCCchhHHHHHHH------HHHhcCCcEEEEEecc
Confidence            56899999999543      12222   234455689999999986544432 22221      22444 4678899999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCc----------ccHHHHH
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKE----------SSIRYVL  257 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~----------~~l~~Ll  257 (284)
                      |++.++ +..+..                      ...+.+++..+++    ..|+|+||++|          .++..|+
T Consensus       130 D~~~~~-~~~~~i----------------------~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Ll  186 (196)
T d1d2ea3         130 DAVQDS-EMVELV----------------------ELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLL  186 (196)
T ss_dssp             GGCSCH-HHHHHH----------------------HHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHH
T ss_pred             cccccH-HHHHHH----------------------HHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHH
Confidence            998644 221111                      1122344444444    56999999998          6999999


Q ss_pred             HHHHHhcCC
Q 023298          258 SQIDNCIQW  266 (284)
Q Consensus       258 ~~I~~~l~~  266 (284)
                      +.|++.+|.
T Consensus       187 dai~~~iP~  195 (196)
T d1d2ea3         187 DAVDTYIPV  195 (196)
T ss_dssp             HHHHHHSCC
T ss_pred             HHHHhhCCC
Confidence            999998874

>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=99.46  E-value=1.1e-12  Score=109.50  Aligned_cols=121  Identities=11%  Similarity=0.114  Sum_probs=73.4

Q ss_pred             CCCEEEEeCCCCcccccccc---hHHHHHHH-HHhcCCCeEEEEEecCCCCCCH-HHHHHHHHHHHHHHHhcCCCEEEEe
Q 023298          114 DDDYLVFDCPGQIELFTHVP---VLRNFVDH-LKSRNFNVCAVYLLDSQFITDV-TKFISGCMASLSAMVQLELPHVNIL  188 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~---~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~-~~~i~~~l~~l~~~~~~~~p~IlVl  188 (284)
                      ...+.++|+|+.-..-....   ....+... .......+++++++|+...-.+ ...+..      .+...++|+++|+
T Consensus        68 ~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~viD~~~~~~~~~~~~~~------~l~~~~~piivv~  141 (195)
T d1svia_          68 NDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYE------FLKYYGIPVIVIA  141 (195)
T ss_dssp             TTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHH------HHHHTTCCEEEEE
T ss_pred             cccceEEEEEeeccccccccccchhhhHHhhhhccccchhhhhhhhhcccccccccccccc------ccccccCcceech
Confidence            34556777777432211111   11222222 3333445789999999754332 222322      2346789999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ||+|+++++ ++.+.++                       .+.+.+.......++|+||++|.|+++|++.|.+.+
T Consensus       142 NK~D~~~~~-~~~~~~~-----------------------~~~~~l~~~~~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         142 TKADKIPKG-KWDKHAK-----------------------VVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             ECGGGSCGG-GHHHHHH-----------------------HHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             hhccccCHH-HHHHHHH-----------------------HHHHHhcccCCCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            999997654 4433321                       112233344557899999999999999999998876

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon 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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.46  E-value=3.2e-13  Score=113.58  Aligned_cols=113  Identities=12%  Similarity=0.217  Sum_probs=70.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CHHHHHHHHHHHHHHHHhcCCC-EEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DVTKFISGCMASLSAMVQLELP-HVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~~~~i~~~l~~l~~~~~~~~p-~IlVlNK~D  192 (284)
                      .++.++||||+..      ....+.+.+   ...+++++++|+.... .+...  ..   +..+...+.| .|+|+||+|
T Consensus        78 ~~~~~iDtPGh~~------f~~~~~~~~---~~~d~~ilvvda~~g~~~~~t~--e~---~~~~~~~~~~~iiv~inK~D  143 (195)
T d1kk1a3          78 RRVSFIDAPGHEA------LMTTMLAGA---SLMDGAILVIAANEPCPRPQTR--EH---LMALQIIGQKNIIIAQNKIE  143 (195)
T ss_dssp             EEEEEEECSSHHH------HHHHHHHCG---GGCSEEEEEEETTSCSSCHHHH--HH---HHHHHHHTCCCEEEEEECGG
T ss_pred             eeEeeeccchhhh------hhHHhhccc---ccccccccccchhhhhhhhhhH--HH---HHHHHHhcCccceeeeeccc
Confidence            4689999999532      122222223   2357889999997642 33211  11   1122234545 788899999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... ......                       ..+.+.++.+.+  ..|+|+||++|+|+++|++.|++.+|
T Consensus       144 ~~d~~-~~~~~~-----------------------~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~iP  194 (195)
T d1kk1a3         144 LVDKE-KALENY-----------------------RQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  194 (195)
T ss_dssp             GSCHH-HHHHHH-----------------------HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             chhhH-HHHHHH-----------------------HHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHCc
Confidence            97644 221111                       122344455443  57999999999999999999999887

>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=99.43  E-value=1.1e-13  Score=111.67  Aligned_cols=150  Identities=13%  Similarity=0.102  Sum_probs=91.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      |+++|.+ |||||+...|..      .++..++-.|+.......      ..                            
T Consensus         3 I~liG~~n~GKSSLin~l~g------~~~~~~~~~~~~~~~~~~------~~----------------------------   42 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLN------EDRAIVTDIPGTTRDVIS------EE----------------------------   42 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHH------HTBCCCCCSSCCSSCSCC------EE----------------------------
T ss_pred             EEEECCCCCCHHHHHHHHhC------CCceeeecccccccccee------EE----------------------------
Confidence            8899999 999999999875      234444444433321110      00                            


Q ss_pred             HHHHHHHHhhccCCCCEEEEeCCCCcccccc---cchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-HHHHHHHHHH
Q 023298          101 LDDWLAEELDNYLDDDYLVFDCPGQIELFTH---VPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-ISGCMASLSA  176 (284)
Q Consensus       101 ~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~---~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i~~~l~~l~~  176 (284)
                              . ...+.++.++||||.......   .....+..+.+..   .+++++++|+......... +..       
T Consensus        43 --------~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~---ad~ii~v~d~~~~~~~~~~~~~~-------  103 (160)
T d1xzpa2          43 --------I-VIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEK---ADIVLFVLDASSPLDEEDRKILE-------  103 (160)
T ss_dssp             --------E-EETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHH---CSEEEEEEETTSCCCHHHHHHHH-------
T ss_pred             --------E-EeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHh---CCEEEEEEeCCCCcchhhhhhhh-------
Confidence                    0 011446789999996543211   1112333444544   3689999999865443332 111       


Q ss_pred             HHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhcc-CCceEEEEeccCcccHHH
Q 023298          177 MVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEY-SMVSFMPLDLRKESSIRY  255 (284)
Q Consensus       177 ~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~  255 (284)
                       .....+.++++||+|+..+. +..+..                              +.+ ....++++||++|+|+++
T Consensus       104 -~~~~~~~i~~~~k~d~~~~~-~~~~~~------------------------------~~~~~~~~~~~vSA~~g~gi~~  151 (160)
T d1xzpa2         104 -RIKNKRYLVVINKVDVVEKI-NEEEIK------------------------------NKLGTDRHMVKISALKGEGLEK  151 (160)
T ss_dssp             -HHTTSSEEEEEEECSSCCCC-CHHHHH------------------------------HHHTCSTTEEEEEGGGTCCHHH
T ss_pred             -hcccccceeeeeeccccchh-hhHHHH------------------------------HHhCCCCcEEEEECCCCCCHHH
Confidence             12467999999999997644 222111                              111 235799999999999999


Q ss_pred             HHHHHHH
Q 023298          256 VLSQIDN  262 (284)
Q Consensus       256 Ll~~I~~  262 (284)
                      |++.|.+
T Consensus       152 L~~~I~k  158 (160)
T d1xzpa2         152 LEESIYR  158 (160)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998865

>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=99.39  E-value=4.2e-12  Score=108.09  Aligned_cols=69  Identities=19%  Similarity=0.271  Sum_probs=46.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCE-EEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPH-VNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~-IlVlNK~  191 (284)
                      ++++.||||||+..      ....+.+.+..   .++++++||+...-.+.. ..+.      .....+.|. |+++||+
T Consensus        66 ~~~i~iiDtPGh~d------f~~~~~~~~~~---aD~avlVvda~~Gv~~qt~~~~~------~~~~~gi~~iiv~iNK~  130 (204)
T d2c78a3          66 KRHYSHVDCPGHAD------YIKNMITGAAQ---MDGAILVVSAADGPMPQTREHIL------LARQVGVPYIVVFMNKV  130 (204)
T ss_dssp             SCEEEEEECCCSGG------GHHHHHHHHTT---CSSEEEEEETTTCCCHHHHHHHH------HHHHTTCCCEEEEEECG
T ss_pred             CeEEEEEeCCCchh------hHHHHHHHHHH---CCEEEEEEECCCCCcHHHHHHHH------HHHHcCCCeEEEEEEec
Confidence            67899999999543      34455555644   467899999976544432 2322      233568775 5679999


Q ss_pred             ccccch
Q 023298          192 DLVTNK  197 (284)
Q Consensus       192 Dll~~~  197 (284)
                      |++..+
T Consensus       131 D~~~~~  136 (204)
T d2c78a3         131 DMVDDP  136 (204)
T ss_dssp             GGCCCH
T ss_pred             ccCCCH
Confidence            997644

>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=99.38  E-value=6.3e-12  Score=106.88  Aligned_cols=156  Identities=12%  Similarity=0.201  Sum_probs=84.2

Q ss_pred             ceEEEEE-CCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC----CCc-cccccc----cccHHHHh----hhcC
Q 023298           19 LVIKCVF-SPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD----YPV-AMDIRE----LISLEDVM----EELG   83 (284)
Q Consensus        19 ~~~~~vi-G~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~----~~~-~~dir~----~i~~~~vm----~~~~   83 (284)
                      ++.|.|+ |.| +||||++.|||.+|++.|++|++||+||+.....    .+. .....+    ...+.+.+    ..+.
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYVGPGGVK   80 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEECGGGCE
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCCCCCCCHHHHhCCCcCcchhhhhhccccccccccccCCccce
Confidence            3567777 557 9999999999999999999999999999986322    111 011111    11122221    1222


Q ss_pred             cccCchhhhhhHhhhhcHHHHHHHHhhccC-CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCC
Q 023298           84 LGPNGGLIYCMEHLEDNLDDWLAEELDNYL-DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITD  162 (284)
Q Consensus        84 lgPng~l~~~~e~~~~~~~~~l~~~l~~~~-~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~  162 (284)
                      +.|.+......+....   +++++.++... .+++|++|||+.....        ....+..+   +.++.++...    
T Consensus        81 ~l~~~~~~~~~~~~~~---~~l~~~l~~l~~~~D~viiD~~~~~~~~--------~~~~l~~a---d~v~~v~~~~----  142 (232)
T d1hyqa_          81 VVPAGVSLEGLRKANP---EKLEDVLTQIMESTDILLLDAPAGLERS--------AVIAIAAA---QELLLVVNPE----  142 (232)
T ss_dssp             EEECCSCHHHHHHHCH---HHHHHHHHHHHHTCSEEEEECCSSSSHH--------HHHHHHHS---SEEEEEECSS----
T ss_pred             eEeeecccccccccch---hhHHHHHHHHhhccceeeecccccccch--------hHHHhhhh---heeeeecccc----
Confidence            3344333332222111   22222232221 6899999999976521        12223333   4455666552    


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCEE-EEecCCcc
Q 023298          163 VTKFISGCMASLSAMVQLELPHV-NILSKMDL  193 (284)
Q Consensus       163 ~~~~i~~~l~~l~~~~~~~~p~I-lVlNK~Dl  193 (284)
                      ... +......+....+.+.+.+ +|+||.+.
T Consensus       143 ~~~-~~~~~~~~~~~~~~~~~~~~iv~N~~~~  173 (232)
T d1hyqa_         143 ISS-ITDGLKTKIVAERLGTKVLGVVVNRITT  173 (232)
T ss_dssp             HHH-HHHHHHHHHHHHHHTCEEEEEEEEEECT
T ss_pred             ccc-hhhhhhhhhhhhhccccccccccccccc
Confidence            222 2223333344445666654 67898864

>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=99.32  E-value=9.8e-12  Score=105.67  Aligned_cols=155  Identities=15%  Similarity=0.185  Sum_probs=82.4

Q ss_pred             EEEEECC-C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCC-----CCccccccc----cccHHHHhhh-----cCc
Q 023298           21 IKCVFSP-P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFD-----YPVAMDIRE----LISLEDVMEE-----LGL   84 (284)
Q Consensus        21 ~~~viG~-~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~-----~~~~~dir~----~i~~~~vm~~-----~~l   84 (284)
                      +|.|.|+ | |||||++.|||.+|++.|++|++||+|++.....     ...+....+    ..+.++.+..     ...
T Consensus         4 vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   83 (237)
T d1g3qa_           4 IISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDNVYV   83 (237)
T ss_dssp             EEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTTEEE
T ss_pred             EEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCCCCCCChhHHhCCCCcccchhhhccCCCcHHHhhhccccccccc
Confidence            4677755 6 9999999999999999999999999998765321     111111111    1111111110     111


Q ss_pred             ccCchhhhhhHhh-hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCH
Q 023298           85 GPNGGLIYCMEHL-EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDV  163 (284)
Q Consensus        85 gPng~l~~~~e~~-~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~  163 (284)
                      .|.+......... ...+.+++ +.+++  .+++|++||||.....        ....+..   .+.++.++...    .
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~-~~l~~--~~d~IiiD~~~~~~~~--------~~~~l~~---aD~viiv~~~~----~  145 (237)
T d1g3qa_          84 LPGAVDWEHVLKADPRKLPEVI-KSLKD--KFDFILIDCPAGLQLD--------AMSAMLS---GEEALLVTNPE----I  145 (237)
T ss_dssp             ECCCCSHHHHHHCCGGGHHHHH-HTTGG--GCSEEEEECCSSSSHH--------HHHHHTT---CSEEEEEECSC----H
T ss_pred             cccccchhhhhhhhhHHHHHHH-HHHHh--cCCEEEEccccccccc--------chhhhhh---hhccccccccc----c
Confidence            1111111111111 11221222 23332  6899999999976522        2233433   35566666652    2


Q ss_pred             HHHHHHHHHHHHHHHhcCCCEE-EEecCCccc
Q 023298          164 TKFISGCMASLSAMVQLELPHV-NILSKMDLV  194 (284)
Q Consensus       164 ~~~i~~~l~~l~~~~~~~~p~I-lVlNK~Dll  194 (284)
                      .. +......+..+.+.+.|.+ +|+||.+..
T Consensus       146 ~s-~~~~~~~~~~~~~~~~~~~giv~N~~~~~  176 (237)
T d1g3qa_         146 SC-LTDTMKVGIVLKKAGLAILGFVLNRYGRS  176 (237)
T ss_dssp             HH-HHHHHHHHHHHHHTTCEEEEEEEEEETSC
T ss_pred             ee-cchhhHHHHHHhhhhhhhhhhhhcccccc
Confidence            22 2222233344456777876 789998764

>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=99.28  E-value=9.7e-11  Score=104.19  Aligned_cols=138  Identities=12%  Similarity=0.185  Sum_probs=84.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++-|+||||+.....      .+...+..+   +.++++||+...-.+. ..++..      ..+.++|.|+++||+|
T Consensus        70 ~~~~n~iDtPG~~dF~~------e~~~~l~~~---D~avlVvda~~Gv~~~T~~~w~~------a~~~~lP~i~fINKmD  134 (276)
T d2bv3a2          70 DHRINIIDAPGHVDFTI------EVERSMRVL---DGAIVVFDSSQGVEPQSETVWRQ------AEKYKVPRIAFANKMD  134 (276)
T ss_dssp             TEEEEEECCCSSSSCST------THHHHHHHC---CEEEEEEETTTSSCHHHHHHHHH------HHTTTCCEEEEEECTT
T ss_pred             CeEEEEecCCchhhhHH------HHHHHHHhh---hheEEeccccCCcchhHHHHHHH------HHHcCCCEEEEEeccc
Confidence            56899999999877432      234556553   5788899998654433 334433      3467999999999999


Q ss_pred             cccchh-----hhhhhcC-----------------------------------------cchHHH-----------HHHh
Q 023298          193 LVTNKK-----EIEDYLN-----------------------------------------PESQFL-----------LSEL  215 (284)
Q Consensus       193 ll~~~~-----~l~~~l~-----------------------------------------~~~~~l-----------~~~l  215 (284)
                      .-....     ++.+.+.                                         +-++++           .+.+
T Consensus       135 r~~ad~~~~l~ei~~~l~~~~vp~~~Pig~~~~f~GvvDl~~~~a~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~l~e~v  214 (276)
T d2bv3a2         135 KTGADLWLVIRTMQERLGARPVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDQAREYHEKLVEVA  214 (276)
T ss_dssp             STTCCHHHHHHHHHHTTCCCEEECEEEESCGGGCCEEEETTTTEEEEESSSSSCCEEEECCCGGGHHHHHHHHHHHHHHH
T ss_pred             ccccccchhHHHHHHHhCCCeEEEEecccCCCceeEEeeccceEEEEecCCCCccceeccCchHHHHHHHHHHHHHhhhh
Confidence            854221     0110000                                         001111           1111


Q ss_pred             hhcch-----------hHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          216 NQHMA-----------PQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       216 ~~~~~-----------~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .+...           .....+...+.+.+....+..++.-||.++.|+..|++.|.+++|.
T Consensus       215 ae~Dd~L~e~yle~~e~~~eel~~~l~~a~~~g~i~PV~~GSA~~n~GV~~LLD~i~~~~PS  276 (276)
T d2bv3a2         215 ADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPS  276 (276)
T ss_dssp             HTTCHHHHHHHHHTCCCCHHHHHHHHHHHHHTTSCEEEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             hcccHHHHHHHhcCCCCCHHHHHHHHHHHHhcCcEEEEEEeECCCCcCHHHHHHHHHHhCCC
Confidence            11110           1122344455555555567888999999999999999999999873

>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=99.25  E-value=1.4e-10  Score=101.62  Aligned_cols=44  Identities=9%  Similarity=0.025  Sum_probs=41.1

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ..|+++++.|.| |||||++.+||.+|+++|+||++||+|||.+.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp~~~l   50 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPASNV   50 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCCH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCCCCCH
Confidence            358889999999 99999999999999999999999999999873

>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=99.24  E-value=5.5e-11  Score=102.50  Aligned_cols=106  Identities=16%  Similarity=0.280  Sum_probs=65.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCC-EEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELP-HVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p-~IlVlNK~D  192 (284)
                      ++.+.+|||||+..      ....+++.+   ...++++++||+...-.+...=     .+.....++.| .|+++||+|
T Consensus        88 ~~~~~iiD~PGH~d------fv~~~~~g~---~~aD~ailVvda~~G~~~Qt~e-----~~~~~~~~gv~~iiv~vNK~D  153 (222)
T d1zunb3          88 KRKFIIADTPGHEQ------YTRNMATGA---STCDLAIILVDARYGVQTQTRR-----HSYIASLLGIKHIVVAINKMD  153 (222)
T ss_dssp             SEEEEEEECCCSGG------GHHHHHHHH---TTCSEEEEEEETTTCSCHHHHH-----HHHHHHHTTCCEEEEEEECTT
T ss_pred             ceEEEEEeccchhh------hhhhhcccc---ccCceEEEEeccccCcccchHH-----HHHHHHHcCCCEEEEEEEccc
Confidence            45799999999654      234444444   3357899999998664444321     12223356766 578899999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIRY  255 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~~  255 (284)
                      ++....+...                      .....+..+++..++    ..|+|+||.+|+|+.+
T Consensus       154 ~~~~~~~~~~----------------------~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         154 LNGFDERVFE----------------------SIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             TTTSCHHHHH----------------------HHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             cccccceehh----------------------hhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            9753311111                      112223344555544    4689999999999843

>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=99.22  E-value=5.8e-11  Score=96.78  Aligned_cols=115  Identities=13%  Similarity=0.084  Sum_probs=66.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH-HHHHHhcCCCEEEEecCC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS-LSAMVQLELPHVNILSKM  191 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~-l~~~~~~~~p~IlVlNK~  191 (284)
                      +..+.+.|+||+....       .+.+ .+..   .+++++++|+....+.... ..++.. .......++|+++|.||+
T Consensus        59 ~~~~~i~d~~g~~~~~-------~~~~~~~~~---~~~ii~v~d~~d~~s~~~~-~~~~~~~~~~~~~~~~pillv~nK~  127 (176)
T d1fzqa_          59 GFKLNVWDIGGQRKIR-------PYWRSYFEN---TDILIYVIDSADRKRFEET-GQELTELLEEEKLSCVPVLIFANKQ  127 (176)
T ss_dssp             TEEEEEEECSSCGGGH-------HHHHHHHTT---CSEEEEEEETTCGGGHHHH-HHHHHHHTTCGGGTTCCEEEEEECT
T ss_pred             CeeEeEeeccccccch-------hHHHHHhhc---cceeEEeeccccccchhhh-hhhhhhhhhhhccCCCeEEEEEEec
Confidence            3467889999975421       1222 2322   4679999998754332221 122211 112223478999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      |+.... +.....        +.+..               .........++++||++|+|++++++.+.+.
T Consensus       128 Dl~~~~-~~~~~~--------~~~~~---------------~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         128 DLLTAA-PASEIA--------EGLNL---------------HTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             TSTTCC-CHHHHH--------HHTTG---------------GGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             cccccc-cHHHHH--------HHHHH---------------HHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            997533 221111        01100               0011224679999999999999999987654

>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=99.21  E-value=4.6e-11  Score=96.51  Aligned_cols=117  Identities=9%  Similarity=-0.008  Sum_probs=65.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +..+.+.||||+...-.       +.+.  .....+.+++++|+............+...+......+.|+++|.||+|+
T Consensus        45 ~~~~~~~D~~G~~~~~~-------~~~~--~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl  115 (165)
T d1ksha_          45 GFKLNIWDVGGQKSLRS-------YWRN--YFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL  115 (165)
T ss_dssp             TEEEEEEEECCSHHHHT-------TGGG--GCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             ccceeeeecCcchhhhh-------HHHh--hhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEecccc
Confidence            44789999999654211       1111  11224678999998654333322222212122222357899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      .... ...+..        ..+.              .+.+ ......++++||++|+|++++++.|.+.
T Consensus       116 ~~~~-~~~~~~--------~~~~--------------~~~~-~~~~~~~~~~Sa~~g~gv~e~~~~l~~~  161 (165)
T d1ksha_         116 PGAL-SCNAIQ--------EALE--------------LDSI-RSHHWRIQGCSAVTGEDLLPGIDWLLDD  161 (165)
T ss_dssp             TTCC-CHHHHH--------HHTT--------------GGGC-CSSCEEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             cccc-CHHHHH--------HHHH--------------hhhh-hcCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            5432 221111        0000              0000 1123578999999999999999977654

>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=99.20  E-value=1.8e-10  Score=101.93  Aligned_cols=138  Identities=17%  Similarity=0.167  Sum_probs=84.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHH-HHHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTK-FISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~-~i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ++++.+|||||+...      ...+...+..+   +.++++||+...-.+.. .++.      ...+.++|.++++||+|
T Consensus        66 ~~~~n~iDtPGh~dF------~~e~~~al~~~---D~avlvvda~~Gv~~~t~~~~~------~~~~~~~p~~i~iNk~D  130 (267)
T d2dy1a2          66 GHRVFLLDAPGYGDF------VGEIRGALEAA---DAALVAVSAEAGVQVGTERAWT------VAERLGLPRMVVVTKLD  130 (267)
T ss_dssp             TEEEEEEECCCSGGG------HHHHHHHHHHC---SEEEEEEETTTCSCHHHHHHHH------HHHHTTCCEEEEEECGG
T ss_pred             ccceeEEccCchhhh------hhhhhhhhccc---CceEEEeeccCCccchhHHHHH------hhhhccccccccccccc
Confidence            557899999997762      33455566553   57888999986544433 2332      33467899999999999


Q ss_pred             cccchhh----hhhhcC----------------------------------------cc--------hHHHHHHhhhcch
Q 023298          193 LVTNKKE----IEDYLN----------------------------------------PE--------SQFLLSELNQHMA  220 (284)
Q Consensus       193 ll~~~~~----l~~~l~----------------------------------------~~--------~~~l~~~l~~~~~  220 (284)
                      ...+..+    +.+.+.                                        .+        -+.|.+.+.+...
T Consensus       131 ~~~~~~~~l~~~~~~lg~~vp~~~Pi~~~~~f~GvvDl~~~~a~~~~~~~~~~~~ip~~~~~~~~~~r~~L~E~vae~Dd  210 (267)
T d2dy1a2         131 KGGDYYALLEDLRSTLGPILPIDLPLYEGGKWVGLIDVFHGKAYRYENGEEREAEVPPEERERVQRFRQEVLEAIVETDE  210 (267)
T ss_dssp             GCCCHHHHHHHHHHHHCSEEECEEEEEETTEEEEEEETTTTEEEEEETTEEEEECCCGGGHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccchhhhhhHHHHhccCcCeEeeeccCCceeEEeecCcceEEEecCCCCceeeCCHHHHHHHHHHHHHHHHHHHhcCH
Confidence            7421100    000000                                        00        0112222222111


Q ss_pred             h-----------HHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          221 P-----------QFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       221 ~-----------~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .           ....+...+.+.+..-.+..++.-||.++.|+..|++.|.+++|.
T Consensus       211 ~Lle~yle~~~l~~eel~~~l~~ai~~g~i~PV~~GSA~~n~GV~~LLd~i~~~~Ps  267 (267)
T d2dy1a2         211 GLLEKYLEGEEVTGEALEKAFHEAVRRGLLYPVALASGEREIGVLPLLELILEALPS  267 (267)
T ss_dssp             HHHHHHHHTCCCCHHHHHHHHHHHHHTTSCEEEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHHcCcEEEEEeCcCCCCcCHHHHHHHHHHhCCC
Confidence            1           133455566666666667778888999999999999999999873

>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=99.20  E-value=1e-10  Score=94.89  Aligned_cols=119  Identities=10%  Similarity=-0.004  Sum_probs=66.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.++.+.|++++-.....   .   ...+..   ...+++++|.....+..................+.|.++|.||+|+
T Consensus        58 ~~~~~~~d~~~~~~~~~~---~---~~~~~~---~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl  128 (177)
T d1zj6a1          58 NTRFLMWDIGGQESLRSS---W---NTYYTN---TEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  128 (177)
T ss_dssp             TEEEEEEECCC----CGG---G---HHHHTT---CCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTS
T ss_pred             ceEEEEeccccccccccc---h---hhhhcc---ceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccc
Confidence            447899999986542211   1   112222   3568888888755443332222222222223468899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... ...+..+        .+.               ..........++++||++|+|++++++.|.+.+.
T Consensus       129 ~~~~-~~~~i~~--------~~~---------------~~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~lk  176 (177)
T d1zj6a1         129 KECM-TVAEISQ--------FLK---------------LTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK  176 (177)
T ss_dssp             TTCC-CHHHHHH--------HHT---------------GGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHC
T ss_pred             cccC-cHHHHHH--------HHH---------------HHhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            5433 2211110        000               0001112367999999999999999999887664

>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=99.19  E-value=1.4e-10  Score=105.47  Aligned_cols=197  Identities=11%  Similarity=0.099  Sum_probs=100.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhh--h-
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIY--C-   93 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~--~-   93 (284)
                      +...|-|.||| ||||||...|+.++...|++|.++-.||.........   ..+-+.    |..++..|+..+..  + 
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggai---lgdr~r----m~~~~~~~~~~ir~~~~~  125 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSI---LGDKTR----MNDLARAEAAFIRPVPSS  125 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC----------------------CTTTTCTTEEEEEECC-
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeecccc---ccchhH----HHHhcccccccccccccc
Confidence            35568899999 9999999999999999999999999999987532110   001110    11111112111100  0 


Q ss_pred             --hHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           94 --MEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        94 --~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                        +.-+..+..+ ....++.. ++++++|.|-|.-..       +     .......+.+++++.+....+ -..+...+
T Consensus       126 g~lgg~~~~~~~-~~~~~~~~-g~d~iliEtvG~gq~-------e-----~~i~~~aD~~l~v~~P~~Gd~-iq~~k~gi  190 (327)
T d2p67a1         126 GHLGGASQRARE-LMLLCEAA-GYDVVIVETVGVGQS-------E-----TEVARMVDCFISLQIAGGGDD-LQGIKKGL  190 (327)
T ss_dssp             ----CHHHHHHH-HHHHHHHT-TCSEEEEEEECCTTH-------H-----HHHHTTCSEEEEEECC-------CCCCHHH
T ss_pred             cccccchhhhhH-HHHHHHhc-CCCeEEEeecccccc-------c-----hhhhhccceEEEEecCCCchh-hhhhchhh
Confidence              0001111101 11223333 789999999994320       0     111122345555555432211 11111111


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHH-hccC--CceEEEEecc
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELV-DEYS--MVSFMPLDLR  248 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l-~~~~--~~~~ipiSa~  248 (284)
                              ++.+-++|+||+|.-... .......    .               +. +....+ ...+  ...++.+||.
T Consensus       191 --------~e~aDi~VvNKaD~~~~~-~~~~~~~----~---------------~~-~al~~~~~~~~~w~p~V~~~SA~  241 (327)
T d2p67a1         191 --------MEVADLIVINKDDGDNHT-NVAIARH----M---------------YE-SALHILRRKYDEWQPRVLTCSAL  241 (327)
T ss_dssp             --------HHHCSEEEECCCCTTCHH-HHHHHHH----H---------------HH-HHHHHSCCSBTTBCCEEEECBGG
T ss_pred             --------hccccEEEEEeecccchH-HHHHHHH----H---------------HH-HHhhhcccCCCCCcceeEEEEee
Confidence                    234679999999975432 2211110    0               00 001111 1111  2579999999


Q ss_pred             CcccHHHHHHHHHHhcC
Q 023298          249 KESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       249 ~~~~l~~Ll~~I~~~l~  265 (284)
                      +|+|+++|.+.|.+...
T Consensus       242 ~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         242 EKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             GTBSHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            99999999999987653

>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=99.17  E-value=1e-10  Score=94.40  Aligned_cols=112  Identities=13%  Similarity=0.238  Sum_probs=69.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+-+.||||+.+...       +.+ .+..   .+++++++|..   ++..+  +..++.........+.|.++|.||+
T Consensus        49 ~~~~i~d~~g~~~~~~-------~~~~~~~~---~~~~ilv~d~~---~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~  115 (164)
T d1yzqa1          49 IRLQLWDTAGQERFRS-------LIPSYIRD---SAAAVVVYDIT---NVNSFQQTTKWIDDVRTERGSDVIIMLVGNKT  115 (164)
T ss_dssp             EEEEEEEECCSGGGGG-------GHHHHHTT---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHHTTSSEEEEEEECT
T ss_pred             eeeeecccCCcchhcc-------chHHHhhc---cceEEEeeccc---cccchhhhHhhHHHHHHhcCCCceEEEEeccc
Confidence            3567999999865321       111 1322   36788888875   33333  3444433333334578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+.+.. ...  .+                ..       .++..+++ ..++.+||++|+|++++++.|.+.+|+
T Consensus       116 Dl~~~~-~~~--~~----------------~~-------~~~~~~~~-~~~~e~SAk~g~~v~e~f~~i~~~l~g  163 (164)
T d1yzqa1         116 DLADKR-QVS--IE----------------EG-------ERKAKELN-VMFIETSAKAGYNVKQLFRRVAAALPG  163 (164)
T ss_dssp             TCGGGC-CSC--HH----------------HH-------HHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHSCC
T ss_pred             chhhhh-hhh--HH----------------HH-------HHHHHHcC-CEEEEecCCCCcCHHHHHHHHHHhhCC
Confidence            986433 110  00                00       11113333 478999999999999999999999983

>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=99.17  E-value=1.1e-10  Score=94.46  Aligned_cols=108  Identities=16%  Similarity=0.256  Sum_probs=65.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.||||+.+.....   .   ..++.   .+++++++|...   +..+  +..++..+... ..+.|.++|.||+|
T Consensus        51 ~~~~i~d~~g~~~~~~~~---~---~~~~~---~~~~i~v~d~~~---~~s~~~~~~~~~~i~~~-~~~~~iilVgnK~D  117 (164)
T d1z2aa1          51 VRLMLWDTAGQEEFDAIT---K---AYYRG---AQACVLVFSTTD---RESFEAISSWREKVVAE-VGDIPTALVQNKID  117 (164)
T ss_dssp             EEEEEECCTTGGGTTCCC---H---HHHTT---CCEEEEEEETTC---HHHHHTHHHHHHHHHHH-HCSCCEEEEEECGG
T ss_pred             eeeeeeccCCccchhhhh---h---hhhcc---CceEEEEEeccc---hhhhhhccccccccccc-CCCceEEEeeccCC
Confidence            467899999977633211   1   12333   357888999863   3333  33333322221 24789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      +.+++ .+..-                         .+.++.+.++. .++++||++|.|++++++.|.+
T Consensus       118 l~~~~-~v~~~-------------------------~~~~~~~~~~~-~~~e~Sak~g~~v~e~f~~l~~  160 (164)
T d1z2aa1         118 LLDDS-CIKNE-------------------------EAEGLAKRLKL-RFYRTSVKEDLNVSEVFKYLAE  160 (164)
T ss_dssp             GGGGC-SSCHH-------------------------HHHHHHHHHTC-EEEECBTTTTBSSHHHHHHHHH
T ss_pred             cccce-eeeeh-------------------------hhHHHHHHcCC-EEEEeccCCCcCHHHHHHHHHH
Confidence            86533 21100                         00112234454 7999999999999999988754

>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=99.17  E-value=2.6e-10  Score=97.64  Aligned_cols=43  Identities=9%  Similarity=-0.006  Sum_probs=35.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+|.+++++||. |||||++.-||.++...|++|.+|.+|....
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~   53 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRP   53 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeecccc
Confidence            378999999999 9999999999999999999999999997764

>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=99.15  E-value=5.1e-10  Score=91.04  Aligned_cols=111  Identities=17%  Similarity=0.209  Sum_probs=61.6

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh----cCCCEEEEec
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ----LELPHVNILS  189 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~----~~~p~IlVlN  189 (284)
                      .+.+.||||+.+...       +...  .....+++++++|..   ++..|  +..++..+.....    .+.|+++|.|
T Consensus        53 ~~~~~d~~g~~~~~~-------~~~~--~~~~~~~~ilv~d~~---~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~n  120 (175)
T d1ky3a_          53 TMQVWDTAGQERFQS-------LGVA--FYRGADCCVLVYDVT---NASSFENIKSWRDEFLVHANVNSPETFPFVILGN  120 (175)
T ss_dssp             EEEEECCC-----------------C--CSTTCCEEEEEEETT---CHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEE
T ss_pred             cceeeccCCchhhhh-------HHHH--HhhccceEEEEeecc---cccccchhhhcchhhhhhhhhcccccCcEEEEec
Confidence            467889999754221       1111  122346788888885   33333  2333322222111    3679999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      |+|+...+ ......                        ...++...++...++++||++|.|+++++..|.+.
T Consensus       121 K~Dl~~~~-~~v~~~------------------------~~~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l~~~  169 (175)
T d1ky3a_         121 KIDAEESK-KIVSEK------------------------SAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARS  169 (175)
T ss_dssp             CTTSCGGG-CCSCHH------------------------HHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             ccchhhhh-cchhHH------------------------HHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHH
Confidence            99986433 111000                        00122355677889999999999999998877653

>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=99.14  E-value=6.4e-10  Score=88.01  Aligned_cols=118  Identities=13%  Similarity=0.060  Sum_probs=66.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..++.+.|+||+.....      .....+..   .+.+++++|.....+.......+...+........|.++|.||.|+
T Consensus        43 ~~~~~~~d~~g~~~~~~------~~~~~~~~---~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~  113 (160)
T d1r8sa_          43 NISFTVWDVGGQDKIRP------LWRHYFQN---TQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDL  113 (160)
T ss_dssp             SCEEEEEECCCCGGGHH------HHHHHTTT---CSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             eEEEEEecCCCcccchh------hhhhhhcc---ceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccc
Confidence            45789999999765211      11111222   3578888888644333332222222222222346899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .... ...+...        ...               ..........++++||++|+|++++++.|.+.+
T Consensus       114 ~~~~-~~~~i~~--------~~~---------------~~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         114 PNAM-NAAEITD--------KLG---------------LHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             TTCC-CHHHHHH--------HTT---------------GGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             cccc-cHHHHHH--------HHH---------------HHHHhhCCCEEEEeECCCCCCHHHHHHHHHhcC
Confidence            6432 1111110        000               000112236799999999999999999887643

>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=99.13  E-value=2.2e-10  Score=93.72  Aligned_cols=109  Identities=14%  Similarity=0.128  Sum_probs=63.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+-+.||||+........      ..++.   .+++++++|..   ++..|  +..++..+......+.|+++|.||+|
T Consensus        53 ~~~~i~d~~g~e~~~~~~~------~~~~~---~~~~i~v~d~~---~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~D  120 (175)
T d2f9la1          53 IKAQIWDTAGQERYRRITS------AYYRG---AVGALLVYDIA---KHLTYENVERWLKELRDHADSNIVIMLVGNKSD  120 (175)
T ss_dssp             EEEEEEECSSGGGTTCCCH------HHHTT---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEecccCCcHHHHHHHH------HHhhc---cCeEEEEEECC---CcccchhHHHHHHHHHHhcCCCCcEEEEEeeec
Confidence            3678999999754221111      11222   35788889886   44444  33333333333334689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      +.+........                           ...........++++||++|.|+++++..+.+
T Consensus       121 l~~~~~~~~~~---------------------------~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~~  163 (175)
T d2f9la1         121 LRHLRAVPTDE---------------------------ARAFAEKNNLSFIETSALDSTNVEEAFKNILT  163 (175)
T ss_dssp             CGGGCCSCHHH---------------------------HHHHHHHTTCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             ccccccchHHH---------------------------HHHhhcccCceEEEEecCCCcCHHHHHHHHHH
Confidence            86432011000                           00011122368999999999999998776554

>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=99.12  E-value=5.8e-10  Score=90.09  Aligned_cols=117  Identities=12%  Similarity=0.148  Sum_probs=65.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH-HHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS-LSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~-l~~~~~~~~p~IlVlNK~D  192 (284)
                      +..+.+.|+||+......   .   ...+..   .+.+++++|+....+-.. ....+.. +......+.|+++|.||.|
T Consensus        46 ~~~~~i~D~~G~~~~~~~---~---~~~~~~---~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~pi~lv~nK~D  115 (164)
T d1zd9a1          46 NVTIKLWDIGGQPRFRSM---W---ERYCRG---VSAIVYMVDAADQEKIEA-SKNELHNLLDKPQLQGIPVLVLGNKRD  115 (164)
T ss_dssp             TEEEEEEEECCSHHHHTT---H---HHHHTT---CSEEEEEEETTCGGGHHH-HHHHHHHHHTCGGGTTCCEEEEEECTT
T ss_pred             eEEEEEeecccccccccc---c---cccccc---cchhhcccccccccccch-hhhhhhhhhhhhcccCCcEEEEEeccc
Confidence            346789999997542211   1   112322   467899999864322222 1122211 1111224789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +.... ...+..        +.++.              ..+. -....++++||++|+|++++++.|.+..
T Consensus       116 l~~~~-~~~~i~--------~~~~~--------------~~~~-~~~~~~~e~Sa~~g~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         116 LPGAL-DEKELI--------EKMNL--------------SAIQ-DREICCYSISCKEKDNIDITLQWLIQHS  163 (164)
T ss_dssp             STTCC-CHHHHH--------HHTTG--------------GGCC-SSCEEEEECCTTTCTTHHHHHHHHHHTC
T ss_pred             cchhh-hHHHHH--------HHHHH--------------HHHH-hCCCEEEEEeCcCCcCHHHHHHHHHHcc
Confidence            86432 221111        11110              0001 1236789999999999999999887653

>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=99.12  E-value=5.7e-10  Score=95.15  Aligned_cols=42  Identities=12%  Similarity=0.025  Sum_probs=38.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +|++++++||. |||||++.-||.|+.++|++|.+|.+|....
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~   47 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRA   47 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSST
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccc
Confidence            67889999999 9999999999999999999999999998664

>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=99.11  E-value=2.8e-10  Score=94.86  Aligned_cols=113  Identities=11%  Similarity=0.132  Sum_probs=66.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.++||||+........      ..+..   ++++++++|+..   +..+  +..+...+........|.++|.||+|
T Consensus        55 ~~l~i~Dt~G~e~~~~~~~------~~~~~---a~~~i~v~d~t~---~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D  122 (194)
T d2bcgy1          55 VKLQIWDTAGQERFRTITS------SYYRG---SHGIIIVYDVTD---QESFNGVKMWLQEIDRYATSTVLKLLVGNKCD  122 (194)
T ss_dssp             EEEEEECCTTTTTTTCCCG------GGGTT---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEECCCchhhHHHHH------HHhcc---CCEEEEEEeCcc---hhhhhhHhhhhhhhhhcccCCceEEEEEeccc
Confidence            3678899999865322111      01222   467889999863   3333  22232223333445789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      +.... ....-.                          +..........++.+||++|.|++++++.+.+.+..
T Consensus       123 ~~~~~-~~~~~~--------------------------~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~~~i~~  169 (194)
T d2bcgy1         123 LKDKR-VVEYDV--------------------------AKEFADANKMPFLETSALDSTNVEDAFLTMARQIKE  169 (194)
T ss_dssp             CTTTC-CSCHHH--------------------------HHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccccc-chhHHH--------------------------HhhhhhccCcceEEEecCcCccHHHHHHHHHHHHHH
Confidence            86432 111000                          000011223678999999999999999888776544

>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=99.11  E-value=9.7e-11  Score=95.65  Aligned_cols=117  Identities=10%  Similarity=0.061  Sum_probs=66.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH-HHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS-LSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~-l~~~~~~~~p~IlVlNK~D  192 (284)
                      ...+.+.||||+....       .+.+..  ..-.+.++|++|++...+..... ..+.. +........|.++|.||+|
T Consensus        55 ~~~~~i~D~~g~~~~~-------~~~~~~--~~~~~~ii~v~D~s~~~~~~~~~-~~l~~~~~~~~~~~~piiiv~NK~D  124 (173)
T d1e0sa_          55 NVKFNVWDVGGQDKIR-------PLWRHY--YTGTQGLIFVVDCADRDRIDEAR-QELHRIINDREMRDAIILIFANKQD  124 (173)
T ss_dssp             TEEEEEEEESCCGGGH-------HHHGGG--TTTCCEEEEEEETTCGGGHHHHH-HHHHHHHTSGGGTTCEEEEEEECTT
T ss_pred             ceeeEEecCCCcchhh-------hHHHhh--hcccceEEEEEecccchhHHHHH-HHHHHHhhhcccccceeeeeeeccc
Confidence            3467899999976521       111111  12246799999987543333322 22221 1111234689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +.... ...+..        .++.              .+.+... ...++++||++|+|++++++.|.+.+
T Consensus       125 l~~~~-~~~~i~--------~~~~--------------~~~~~~~-~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         125 LPDAM-KPHEIQ--------EKLG--------------LTRIRDR-NWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             STTCC-CHHHHH--------HHTT--------------GGGCCSS-CEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             ccccc-cHHHHH--------HHHH--------------HHHHHhC-CCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            85422 111111        0000              0000111 24689999999999999999987654

>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=99.11  E-value=7e-11  Score=103.35  Aligned_cols=46  Identities=13%  Similarity=0.109  Sum_probs=39.5

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      =.+.+++++.|.| |||||++.|||.+|++.|+||++||+|||.+..
T Consensus        17 ~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp~~~l~   63 (279)
T d1ihua2          17 RNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAAHLS   63 (279)
T ss_dssp             TTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC----
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCCChH
Confidence            4577888899999 999999999999999999999999999998754

>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=99.11  E-value=2.8e-10  Score=92.30  Aligned_cols=110  Identities=15%  Similarity=0.228  Sum_probs=68.1

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .+.+.||+|+.+...       +.+. +..   .+.+++++|..   ++..|  +..+..........+.|+++|.||+|
T Consensus        54 ~~~i~d~~g~~~~~~-------~~~~~~~~---~~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~D  120 (167)
T d1z0ja1          54 KFLIWDTAGLERFRA-------LAPMYYRG---SAAAIIVYDIT---KEETFSTLKNWVRELRQHGPPSIVVAIAGNKCD  120 (167)
T ss_dssp             EEEEEEECCSGGGGG-------GTHHHHTT---CSEEEEEEETT---CHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTT
T ss_pred             ceeeeecCCchhhhH-------HHHHHHhh---ccceEEEeeec---hhhhhhhHHHhhhhhhhccCCcceEEEecccch
Confidence            467889999876321       1111 222   35788888875   44444  33333333333346789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... ....-                         ...++.+.++ ..++.+||++|.|+++++..|.+.+|
T Consensus       121 l~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~e~SAk~~~nV~e~f~~l~~~i~  166 (167)
T d1z0ja1         121 LTDVR-EVMER-------------------------DAKDYADSIH-AIFVETSAKNAININELFIEISRRIP  166 (167)
T ss_dssp             CGGGC-CSCHH-------------------------HHHHHHHHTT-CEEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             hcccc-chhHH-------------------------HHHHHHHHcC-CEEEEEecCCCCCHHHHHHHHHHhCC
Confidence            85432 11000                         0011223344 57899999999999999999988876

>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=99.10  E-value=5e-10  Score=95.49  Aligned_cols=43  Identities=12%  Similarity=0.005  Sum_probs=39.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ..+.+++++||+ |||||++.-||.++..+|++|.+|.+|....
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~   51 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRP   51 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccc
Confidence            356778899999 9999999999999999999999999997664

>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=99.10  E-value=5.1e-10  Score=91.05  Aligned_cols=108  Identities=10%  Similarity=0.188  Sum_probs=61.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.||||+.+..       .+.+..  ....+++++++|...   +..+  +..+...+........|.++|.||+|
T Consensus        54 ~~l~i~Dt~G~e~~~-------~~~~~~--~~~~~~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D  121 (171)
T d2ew1a1          54 VKLQIWDTAGQERFR-------SITQSY--YRSANALILTYDITC---EESFRCLPEWLREIEQYASNKVITVLVGNKID  121 (171)
T ss_dssp             EEEEEEEECCSGGGH-------HHHGGG--STTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             EEEEEEECCCchhhH-------HHHHHH--HhccceEEEeeeccc---chhhhhhhhhhhhhcccccccccEEEEEeecc
Confidence            357889999975421       111111  122467888888753   3332  23333333333345689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHH
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQID  261 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~  261 (284)
                      +..+. ....-.                  .       .++.+..+ ..++++||++|+|+++++..|.
T Consensus       122 ~~~~~-~v~~~~------------------~-------~~~~~~~~-~~~~~~SAktg~gV~e~f~~l~  163 (171)
T d2ew1a1         122 LAERR-EVSQQR------------------A-------EEFSEAQD-MYYLETSAKESDNVEKLFLDLA  163 (171)
T ss_dssp             GGGGC-SSCHHH------------------H-------HHHHHHHT-CCEEECCTTTCTTHHHHHHHHH
T ss_pred             ccccc-chhhhH------------------H-------HHHHHhCC-CEEEEEccCCCCCHHHHHHHHH
Confidence            75432 111000                  0       11112233 4789999999999999976544

>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=99.09  E-value=7.5e-10  Score=89.97  Aligned_cols=110  Identities=10%  Similarity=0.142  Sum_probs=64.4

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      .+-+.||||+.+..       .+.+.  .....+++++++|+..   +..+  +..+............|+++|.||+|+
T Consensus        55 ~l~~wDt~G~e~~~-------~~~~~--~~~~ad~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~  122 (169)
T d3raba_          55 KLQIWDTAGQERYR-------TITTA--YYRGAMGFILMYDITN---EESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDM  122 (169)
T ss_dssp             EEEEEEECCSGGGH-------HHHHT--TTTTCCEEEEEEETTC---HHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTC
T ss_pred             EEEEEECCCchhhH-------HHHHH--HHhcCCEEEEEEECcc---chhhhhhhhhhhhhhcccCCcceEEEEEeeccc
Confidence            57789999976421       12221  1222468899999864   3333  222222222223346788999999997


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      .... ....-          +               +.++..+.+ .+++.+||++|+|++++++.|.+.+
T Consensus       123 ~~~~-~v~~~----------~---------------~~~~~~~~~-~~~~e~Sak~g~gv~e~f~~l~~~i  166 (169)
T d3raba_         123 EDER-VVSSE----------R---------------GRQLADHLG-FEFFEASAKDNINVKQTFERLVDVI  166 (169)
T ss_dssp             GGGC-CSCHH----------H---------------HHHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             cccc-ccchh----------h---------------hHHHHHHcC-CEEEEecCCCCcCHHHHHHHHHHHH
Confidence            5432 11000          0               011112334 4799999999999999999887764

>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=99.09  E-value=3.1e-10  Score=93.17  Aligned_cols=118  Identities=14%  Similarity=0.035  Sum_probs=64.7

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHH-HHHHHhcCCCEEEEecCCc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMAS-LSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~-l~~~~~~~~p~IlVlNK~D  192 (284)
                      +..+.+.||||+........       .  .....+++++++|+....+..... .++.. +......+.|+++|.||+|
T Consensus        60 ~~~~~i~D~~g~~~~~~~~~-------~--~~~~~~~ii~v~d~~d~~s~~~~~-~~l~~~~~~~~~~~~piliv~NK~D  129 (182)
T d1moza_          60 NLKLNVWDLGGQTSIRPYWR-------C--YYADTAAVIFVVDSTDKDRMSTAS-KELHLMLQEEELQDAALLVFANKQD  129 (182)
T ss_dssp             TEEEEEEEEC----CCTTGG-------G--TTTTEEEEEEEEETTCTTTHHHHH-HHHHHHTTSSTTSSCEEEEEEECTT
T ss_pred             CEEEEEEecccccccchhHH-------h--hhccceeEEEEeeecccccchhHH-HHHHHHHHhhccCCcceEEEEEeec
Confidence            34678999999865321111       0  112247899999987655544432 22221 1111224689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      +.... ...+..        ..+..              ..+. .....++++||++|+|++++++.|.+.+.
T Consensus       130 l~~~~-~~~~i~--------~~~~~--------------~~~~-~~~~~~~e~SA~~g~gv~e~~~~l~~~i~  178 (182)
T d1moza_         130 QPGAL-SASEVS--------KELNL--------------VELK-DRSWSIVASSAIKGEGITEGLDWLIDVIK  178 (182)
T ss_dssp             STTCC-CHHHHH--------HHTTT--------------TTCC-SSCEEEEEEBGGGTBTHHHHHHHHHHHHH
T ss_pred             ccccc-CHHHHH--------HHHHH--------------HHHh-hCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            85422 111111        00000              0001 11257999999999999999998877653

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, 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 eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.08  E-value=1.7e-09  Score=93.97  Aligned_cols=106  Identities=17%  Similarity=0.294  Sum_probs=61.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCC-------CCHHHHHHHHHHHHHHHHhcCCCE-E
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFI-------TDVTKFISGCMASLSAMVQLELPH-V  185 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~-------~~~~~~i~~~l~~l~~~~~~~~p~-I  185 (284)
                      ++++.||||||+..      ....|.   ..+...+.++++||+...       -.+...     ..+.....++.|. |
T Consensus        83 ~~~i~iiDtPGH~d------f~~~~~---~g~~~~D~ailvvda~~G~~e~g~~~~~QT~-----eh~~~~~~~gv~~ii  148 (239)
T d1f60a3          83 KYQVTVIDAPGHRD------FIKNMI---TGTSQADCAILIIAGGVGEFEAGISKDGQTR-----EHALLAFTLGVRQLI  148 (239)
T ss_dssp             SEEEEEEECCCCTT------HHHHHH---HSSSCCSEEEEEEECSHHHHHHHTCTTSHHH-----HHHHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCcHH------HHHHHH---HHHHHhCEEEEEEECCCCccccccCchHhHH-----HHHHHHHHcCCCeEE
Confidence            56899999999654      223232   233446789999999531       011110     1111233567774 6


Q ss_pred             EEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC----ceEEEEeccCcccHHH
Q 023298          186 NILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM----VSFMPLDLRKESSIRY  255 (284)
Q Consensus       186 lVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~----~~~ipiSa~~~~~l~~  255 (284)
                      +++||+|++....+  .                    +......+.+++...++    +.|+|+|+.+|+|+.+
T Consensus       149 v~iNKmD~~~~d~~--~--------------------~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         149 VAVNKMDSVKWDES--R--------------------FQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             EEEECGGGGTTCHH--H--------------------HHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             EEEECCCCCCCCHH--H--------------------HHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            78999998753211  1                    11122233344444443    5789999999998744

>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=99.08  E-value=1e-09  Score=88.79  Aligned_cols=110  Identities=12%  Similarity=0.207  Sum_probs=65.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.+.||||+...   +.    +... ++.   .+++++++|...   ...+  +..++..+........|.++|.||+
T Consensus        53 ~~l~i~D~~g~~~~---~~----~~~~~~~~---~d~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~  119 (166)
T d1z0fa1          53 IKLQIWDTAGQERF---RA----VTRSYYRG---AAGALMVYDITR---RSTYNHLSSWLTDARNLTNPNTVIILIGNKA  119 (166)
T ss_dssp             EEEEEEECTTGGGT---CH----HHHHHHHT---CSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECT
T ss_pred             EEEEEeccCCchhH---HH----HHHHHhcC---CcEEEEEeccCc---hHHHHHHHHHHHHHHhhccccceEEEEcccc
Confidence            36789999997642   11    2222 333   357788888753   3333  2333333333334568899999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ...  .+                       ...++.++++ ..++.+||++|.|+++++..|.+.+
T Consensus       120 Dl~~~~-~~~--~~-----------------------~~~~~~~~~~-~~~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         120 DLEAQR-DVT--YE-----------------------EAKQFAEENG-LLFLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             TCGGGC-CSC--HH-----------------------HHHHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cchhhc-ccH--HH-----------------------HHHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            984322 110  00                       0012223444 4899999999999999998877653

>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=99.08  E-value=3.8e-10  Score=96.68  Aligned_cols=44  Identities=11%  Similarity=0.117  Sum_probs=40.3

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      -.+|.+++++||. |||||++.-||.|+..+|++|.+|.+|....
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~   52 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRA   52 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeeccccc
Confidence            3689999999999 9999999999999999999999999997553

>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=99.07  E-value=8.5e-10  Score=90.08  Aligned_cols=111  Identities=13%  Similarity=0.222  Sum_probs=66.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      ..+-+.||+|+.+....   ....   +..   .+++++++|..   ++..|  +..+...+.... ..+.|.++|.||+
T Consensus        54 ~~l~~~d~~g~~~~~~~---~~~~---~~~---~~~~i~v~d~~---~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~  121 (173)
T d2fn4a1          54 ARLDILDTAGQEEFGAM---REQY---MRA---GHGFLLVFAIN---DRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKA  121 (173)
T ss_dssp             EEEEEEECCCTTTTSCC---HHHH---HHH---CSEEEEEEETT---CHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECG
T ss_pred             eeeeccccccccccccc---cchh---hcc---ceeeeeecccc---cccccchhhhhhHHHHHHhccCCCceEEEEEee
Confidence            35678999998763321   1211   333   25788889986   44443  334433322222 3468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+..+. ....  +        +        .       .++...++ ..++.+||++|.|++++++.+.+.+
T Consensus       122 Dl~~~~-~~~~--~--------~--------~-------~~~~~~~~-~~~~e~Sak~g~gv~e~f~~l~~~i  167 (173)
T d2fn4a1         122 DLESQR-QVPR--S--------E--------A-------SAFGASHH-VAYFEASAKLRLNVDEAFEQLVRAV  167 (173)
T ss_dssp             GGGGGC-CSCH--H--------H--------H-------HHHHHHTT-CEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             chhhcc-ccch--h--------h--------h-------hHHHHhcC-CEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            985432 1100  0        0        0       11112233 5789999999999999999888765

>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=99.07  E-value=4.6e-10  Score=90.88  Aligned_cols=109  Identities=15%  Similarity=0.234  Sum_probs=64.5

Q ss_pred             CEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      .+-+.|++|+.....       +.. ....   .+++++++|..   ++..|  +..+...+.... ..+.|+++|.||+
T Consensus        52 ~l~~~d~~g~~~~~~-------~~~~~~~~---a~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~  118 (167)
T d1kaoa_          52 VLEILDTAGTEQFAS-------MRDLYIKN---GQGFILVYSLV---NQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKV  118 (167)
T ss_dssp             EEEEEECCCTTCCHH-------HHHHHHHH---CSEEEEEEETT---CHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECG
T ss_pred             eeccccCCCcccccc-------chHHHhhc---ccceeeeeeec---chhhhhhhhchhhhhhhhccCCCCCEEEEEEcc
Confidence            567899999765221       212 2333   25788888876   34443  233332222222 2468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... ....-.                  .       .+...+++ ..++.+||++|.|+++++..|.+.+
T Consensus       119 Dl~~~~-~~~~~~------------------~-------~~~~~~~~-~~~~e~Sak~g~~i~e~f~~i~~~i  164 (167)
T d1kaoa_         119 DLESER-EVSSSE------------------G-------RALAEEWG-CPFMETSAKSKTMVDELFAEIVRQM  164 (167)
T ss_dssp             GGGGGC-CSCHHH------------------H-------HHHHHHHT-SCEEEECTTCHHHHHHHHHHHHHHH
T ss_pred             chhhcc-cchHHH------------------H-------HHHHHHcC-CeEEEECCCCCcCHHHHHHHHHHHH
Confidence            986433 111000                  0       01112233 4789999999999999999887654

>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=99.06  E-value=1.5e-09  Score=98.35  Aligned_cols=193  Identities=11%  Similarity=0.063  Sum_probs=105.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhh----
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYC----   93 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~----   93 (284)
                      ...+-|.||| ||||||...|..++...|++|.+|=.||......-..   +.+-+.    |.+...+|+. .+.+    
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg~l---lgdr~r----m~~~~~~~~~-~ir~~~~~  122 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSI---LGDKTR----MARLAIDRNA-FIRPSPSS  122 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCS---SCCGGG----STTGGGCTTE-EEECCCCC
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHHhcc---ccchhh----HHHHhcccce-eecccccc
Confidence            3458899999 9999999999999999999999999999998543110   111111    1112222221 1110    


Q ss_pred             --hHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHH
Q 023298           94 --MEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCM  171 (284)
Q Consensus        94 --~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l  171 (284)
                        +..+.....+. ..-++.. +++++||-|-|.-..-.       .   +.  ...+..++++..... +.-..+..- 
T Consensus       123 ~~~gg~~~~~~~~-i~~~~~~-g~d~iiiETVG~gq~e~-------~---~~--~~~D~~v~v~~p~~G-D~iQ~~k~g-  186 (323)
T d2qm8a1         123 GTLGGVAAKTRET-MLLCEAA-GFDVILVETVGVGQSET-------A---VA--DLTDFFLVLMLPGAG-DELQGIKKG-  186 (323)
T ss_dssp             SSHHHHHHHHHHH-HHHHHHT-TCCEEEEEECSSSSCHH-------H---HH--TTSSEEEEEECSCC-------CCTT-
T ss_pred             ccccchhHHHHHH-HHhhccC-CCCeEEEeehhhhhhhh-------h---hh--cccceEEEEeeccch-hhhhhhhhh-
Confidence              11111222111 1122322 78999999998422100       0   11  224556666654322 111111100 


Q ss_pred             HHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHh----cc--CCceEEEE
Q 023298          172 ASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVD----EY--SMVSFMPL  245 (284)
Q Consensus       172 ~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~----~~--~~~~~ipi  245 (284)
                             -++.+-++|+||+|+.... .......                      ......+.    ..  ....++.+
T Consensus       187 -------ilE~aDi~vvNKaD~~~~~-~~~~~~~----------------------~~~~~~l~~~~~~~~~~~p~V~~~  236 (323)
T d2qm8a1         187 -------IFELADMIAVNKADDGDGE-RRASAAA----------------------SEYRAALHILTPPSATWTPPVVTI  236 (323)
T ss_dssp             -------HHHHCSEEEEECCSTTCCH-HHHHHHH----------------------HHHHHHHTTBCCSBTTBCCCEEEE
T ss_pred             -------HhhhhheeeEeccccccch-HHHHHHH----------------------HHHHHHhhcccccccCCCCceEEE
Confidence                   1245679999999986543 2211110                      00011111    11  13579999


Q ss_pred             eccCcccHHHHHHHHHHhcC
Q 023298          246 DLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       246 Sa~~~~~l~~Ll~~I~~~l~  265 (284)
                      ||++|+|+++|.+.|.+...
T Consensus       237 Sa~~g~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         237 SGLHGKGLDSLWSRIEDHRS  256 (323)
T ss_dssp             BTTTTBSHHHHHHHHHHHHH
T ss_pred             EecCCCCHHHHHHHHHHHHH
Confidence            99999999999999987653

>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=99.06  E-value=7.9e-10  Score=94.51  Aligned_cols=43  Identities=14%  Similarity=0.089  Sum_probs=39.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+|.+++++||. |||||++.-||.++.+.|++|.+|.+|....
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~   50 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRA   50 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccc
Confidence            468999999999 9999999999999999999999999998654

>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=99.06  E-value=1.2e-09  Score=88.63  Aligned_cols=91  Identities=15%  Similarity=0.127  Sum_probs=57.3

Q ss_pred             cCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHH
Q 023298          145 RNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFA  224 (284)
Q Consensus       145 ~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~  224 (284)
                      ......++++.++.........     ..+........+.++|+||+|++... +.....                    
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~v~~k~D~~~~~-~~~~~~--------------------  149 (188)
T d1puia_          96 RQSLQGLVVLMDIRHPLKDLDQ-----QMIEWAVDSNIAVLVLLTKADKLASG-ARKAQL--------------------  149 (188)
T ss_dssp             CTTEEEEEEEEETTSCCCHHHH-----HHHHHHHHTTCCEEEEEECGGGSCHH-HHHHHH--------------------
T ss_pred             hhheeEEEEeecccccchhHHH-----HHHHHhhhccccccchhhhhhccCHH-HHHHHH--------------------
Confidence            3434556666666543332222     11233446688999999999998644 222221                    


Q ss_pred             HHHHHHHHHHhcc-CCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          225 KLNKSLIELVDEY-SMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       225 ~l~~~i~~~l~~~-~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                         ..+.+.+..+ +..+++|+||++|.|+++|.+.|.+++
T Consensus       150 ---~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         150 ---NMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             ---HHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHhhCCCCcEEEEeCCCCCCHHHHHHHHHHHh
Confidence               1122333444 357899999999999999999998875

>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=99.06  E-value=1.2e-09  Score=88.82  Aligned_cols=110  Identities=11%  Similarity=0.113  Sum_probs=65.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.||||+....       .+.+..  ....+++++++|...   +..+  +..++..+......+.|.++|.||+|
T Consensus        54 ~~~~i~D~~G~~~~~-------~~~~~~--~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D  121 (174)
T d2bmea1          54 VKLQIWDTAGQERFR-------SVTRSY--YRGAAGALLVYDITS---RETYNALTNWLTDARMLASQNIVIILCGNKKD  121 (174)
T ss_dssp             EEEEEEEECCSGGGH-------HHHHTT--STTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             eeEEEEECCCchhhh-------hhHHHH--hhhCCEEEEEEeccc---chhHHHHhhhhcccccccCCceEEEEEEeccc
Confidence            357899999976521       122221  223468899999863   3333  33333333333345789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +..+. +.....                  .       .++...++ ..++.+||++|.|+++++..+.+.
T Consensus       122 ~~~~~-~~~~~~------------------~-------~~~~~~~~-~~~~e~Sak~~~gi~e~f~~l~~~  165 (174)
T d2bmea1         122 LDADR-EVTFLE------------------A-------SRFAQENE-LMFLETSALTGENVEEAFVQCARK  165 (174)
T ss_dssp             GGGGC-CSCHHH------------------H-------HHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             ccchh-chhhhH------------------H-------HHHHHhCC-CEEEEeeCCCCcCHHHHHHHHHHH
Confidence            75432 111000                  0       01112233 578999999999999998766543

>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=99.06  E-value=2.2e-10  Score=93.27  Aligned_cols=110  Identities=15%  Similarity=0.115  Sum_probs=61.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      ..+.+.||||+.+..       .+.+. +..   .+++++++|..   ++..+  +..+...+.... ....|.++|.||
T Consensus        48 ~~l~i~D~~g~e~~~-------~~~~~~~~~---~d~~ilv~d~t---~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK  114 (168)
T d2gjsa1          48 ASLMVYDIWEQDGGR-------WLPGHCMAM---GDAYVIVYSVT---DKGSFEKASELRVQLRRARQTDDVPIILVGNK  114 (168)
T ss_dssp             EEEEEEECC--------------CHHHHHTS---CSEEEEEEETT---CHHHHHHHHHHHHHHHHHCC--CCCEEEEEEC
T ss_pred             cceeeeecccccccc-------eecccchhh---hhhhceecccc---ccccccccccccchhhcccccccceEEEeecc
Confidence            467889999975421       12222 323   36788899986   34443  333433222222 245799999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+...+ ++....          .               .++...++ ..++.+||++|.|+++++..|.+.+
T Consensus       115 ~Dl~~~~-~v~~~~----------~---------------~~~~~~~~-~~~~e~Sak~~~~v~~~f~~l~~~i  161 (168)
T d2gjsa1         115 SDLVRSR-EVSVDE----------G---------------RACAVVFD-CKFIETSAALHHNVQALFEGVVRQI  161 (168)
T ss_dssp             TTCGGGC-CSCHHH----------H---------------HHHHHHHT-SEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             cchhhhc-chhHHH----------H---------------HHHHHhcC-CEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            9986433 211000          0               11112333 4789999999999999999886543

>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=99.05  E-value=7.2e-10  Score=90.44  Aligned_cols=110  Identities=12%  Similarity=0.150  Sum_probs=65.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.|++|+.+......      ..+..   .+++++++|..   ++..|  +..++..+......+.|.++|.||+|
T Consensus        52 ~~~~i~d~~g~~~~~~~~~------~~~~~---~d~~ilv~d~~---~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D  119 (173)
T d2a5ja1          52 IKLQIWDTAGQESFRSITR------SYYRG---AAGALLVYDIT---RRETFNHLTSWLEDARQHSSSNMVIMLIGNKSD  119 (173)
T ss_dssp             EEEEEECCTTGGGTSCCCH------HHHTT---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEeecccCccchhhHHH------HHhhc---cCEEEEEEeec---ChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCc
Confidence            3678899999876332111      11222   35788888875   44444  33443333333335789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +...+ ....-                  ..       .++...++ ..++.+||++|.|+++++..|.+.
T Consensus       120 ~~~~~-~~~~~------------------~~-------~~~a~~~~-~~~~e~Sa~tg~~V~e~f~~i~~~  163 (173)
T d2a5ja1         120 LESRR-DVKRE------------------EG-------EAFAREHG-LIFMETSAKTACNVEEAFINTAKE  163 (173)
T ss_dssp             CGGGC-CSCHH------------------HH-------HHHHHHHT-CEEEEECTTTCTTHHHHHHHHHHH
T ss_pred             hhhhh-hhHHH------------------HH-------HHHHHHcC-CEEEEecCCCCCCHHHHHHHHHHH
Confidence            75432 11100                  00       11112333 578999999999999988776553

>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=99.05  E-value=8.1e-10  Score=90.87  Aligned_cols=109  Identities=12%  Similarity=0.145  Sum_probs=65.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH----hcCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV----QLELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~----~~~~p~IlVl  188 (284)
                      ..+.+.||||+.+....+.        . .....+++++++|...   +..+  +..++..+....    ..+.|+++|.
T Consensus        51 ~~~~~~d~~g~~~~~~~~~--------~-~~~~~~~~i~~~d~~~---~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~  118 (184)
T d1vg8a_          51 VTMQIWDTAGQERFQSLGV--------A-FYRGADCCVLVFDVTA---PNTFKTLDSWRDEFLIQASPRDPENFPFVVLG  118 (184)
T ss_dssp             EEEEEEEECSSGGGSCSCC--------G-GGTTCSEEEEEEETTC---HHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEE
T ss_pred             EEEEeeecCCccccccccc--------c-cccCccEEEEeecccc---hhhhhcchhhHHHHHHHhccccccCCCEEEEE
Confidence            3678899999876433221        1 1123468899999853   3332  233332222221    2357999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      ||+|+..++ ...+..                          .+...+.....++.+||++|.|++++++.+.+
T Consensus       119 nK~Dl~~~~-~~~~~~--------------------------~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~  165 (184)
T d1vg8a_         119 NKIDLENRQ-VATKRA--------------------------QAWCYSKNNIPYFETSAKEAINVEQAFQTIAR  165 (184)
T ss_dssp             ECTTSSCCC-SCHHHH--------------------------HHHHHHTTSCCEEECBTTTTBSHHHHHHHHHH
T ss_pred             Eeecccccc-hhHHHH--------------------------HHHHHHhcCCeEEEEcCCCCcCHHHHHHHHHH
Confidence            999985432 111100                          11223344578999999999999999987654

>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=99.05  E-value=1.2e-09  Score=88.74  Aligned_cols=111  Identities=15%  Similarity=0.196  Sum_probs=64.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHH-HHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSA-MVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~-~~~~~~p~IlVlNK~  191 (284)
                      ..+-+.||||+.+....   ..   ..+..   .+++++++|..   ++..|  +..+...+.. ......|.|+|.||+
T Consensus        53 ~~~~~~d~~g~~~~~~~---~~---~~~~~---~~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~  120 (171)
T d2erya1          53 ARLDILDTAGQEEFGAM---RE---QYMRT---GEGFLLVFSVT---DRGSFEEIYKFQRQILRVKDRDEFPMILIGNKA  120 (171)
T ss_dssp             EEEEEEECC----CCHH---HH---HHHHH---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECT
T ss_pred             ccccccccccccccccc---cc---ccccc---cceEEEeeccc---cccchhhHHHHhHHHHhhcccCCCCEEEEEecc
Confidence            35789999998763321   11   11333   25788899976   34443  3344332222 223468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... .+..-                         .+.++.+.++ ..++.+||++|.|+++++..|.+.+
T Consensus       121 Dl~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~e~Sak~~~~i~e~f~~l~~~i  166 (171)
T d2erya1         121 DLDHQR-QVTQE-------------------------EGQQLARQLK-VTYMEASAKIRMNVDQAFHELVRVI  166 (171)
T ss_dssp             TCTTSC-SSCHH-------------------------HHHHHHHHTT-CEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             chhhhc-cchHH-------------------------HHHHHHHHcC-CEEEEEcCCCCcCHHHHHHHHHHHH
Confidence            985432 11100                         0011223444 4789999999999999999887765

>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=99.04  E-value=2.1e-10  Score=95.51  Aligned_cols=78  Identities=13%  Similarity=0.204  Sum_probs=45.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC-CH---HHHHHHHHHHHHHHHhcCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT-DV---TKFISGCMASLSAMVQLELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~-~~---~~~i~~~l~~l~~~~~~~~p~IlVlN  189 (284)
                      +..+.++||||+..  ........+..+...   ...+++++|+.... ..   ..++...+..+......+.|+++|+|
T Consensus        45 ~~~~~l~D~~g~~~--~~~~~~~~~~~~~~~---~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~N  119 (209)
T d1nrjb_          45 GSGVTLVDFPGHVK--LRYKLSDYLKTRAKF---VKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACN  119 (209)
T ss_dssp             GSSCEEEECCCCGG--GTHHHHHHHHHHGGG---EEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEE
T ss_pred             CeEEEEEecccccc--hhhHHHHHHHHHhhh---ccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEE
Confidence            44778999999765  222222222223322   35688888876532 21   22233333333344456899999999


Q ss_pred             CCccccc
Q 023298          190 KMDLVTN  196 (284)
Q Consensus       190 K~Dll~~  196 (284)
                      |+|+...
T Consensus       120 K~D~~~~  126 (209)
T d1nrjb_         120 KSELFTA  126 (209)
T ss_dssp             CTTSTTC
T ss_pred             eeccccc
Confidence            9999753

>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=99.03  E-value=6.9e-10  Score=90.52  Aligned_cols=111  Identities=13%  Similarity=0.191  Sum_probs=57.6

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+-+.||||+.....       +.+.  .....+++++++|+.   ++..+  +..+...+......+.|.++|.||.|
T Consensus        55 ~~l~i~D~~G~e~~~~-------~~~~--~~~~~~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D  122 (173)
T d2fu5c1          55 IKLQIWDTAGQERFRT-------ITTA--YYRGAMGIMLVYDIT---NEKSFDNIRNWIRNIEEHASADVEKMILGNKCD  122 (173)
T ss_dssp             EEEEEEEC----------------CCT--TTTTCSEEEEEEETT---CHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--
T ss_pred             EEEEEEECCCchhhHH-------HHHH--hccCCCEEEEEEECC---ChhhHHHHHHHHHHhhhhccCCceEEEEEeccc
Confidence            3567899999754221       1011  122347899999986   34433  44443433333445789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..... ......          .               .....+.+ ..++.+||++|+|+++++..|.+.+
T Consensus       123 ~~~~~-~~~~~~----------~---------------~~~~~~~~-~~~~e~Sa~~g~gv~e~f~~l~~~i  167 (173)
T d2fu5c1         123 VNDKR-QVSKER----------G---------------EKLALDYG-IKFMETSAKANINVENAFFTLARDI  167 (173)
T ss_dssp             CCSCC-CSCHHH----------H---------------HHHHHHHT-CEEEECCC---CCHHHHHHHHHHHH
T ss_pred             chhhc-ccHHHH----------H---------------HHHHHhcC-CEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            86533 111000          0               01112222 6799999999999999998887654

>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=99.03  E-value=8.9e-10  Score=89.50  Aligned_cols=112  Identities=14%  Similarity=0.179  Sum_probs=67.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+.+.||||+.+...       +.+ .+..   .+++++++|...   ...+  +..+...+......+.|.++|.||+
T Consensus        55 ~~~~~~d~~g~~~~~~-------~~~~~~~~---~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~  121 (170)
T d1r2qa_          55 VKFEIWDTAGQERYHS-------LAPMYYRG---AQAAIVVYDITN---EESFARAKNWVKELQRQASPNIVIALSGNKA  121 (170)
T ss_dssp             EEEEEEEECCSGGGGG-------GHHHHHTT---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEECG
T ss_pred             EEEEeccCCCchhhhh-------hHHHHhhC---cceEEEEeccch---hhHHHHHHHHhhhhhhccCCCceEEeecccc
Confidence            3578999999865321       112 2322   356788888753   3333  2233332223333468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      |+..+. .+..      +.            .       .++...++ ..++.+||++|.|+++++..|.+.++.
T Consensus       122 Dl~~~~-~v~~------e~------------~-------~~~~~~~~-~~~~e~SAk~g~~V~e~f~~l~~~i~~  169 (170)
T d1r2qa_         122 DLANKR-AVDF------QE------------A-------QSYADDNS-LLFMETSAKTSMNVNEIFMAIAKKLPK  169 (170)
T ss_dssp             GGGGGC-CSCH------HH------------H-------HHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHTSCC
T ss_pred             cccccc-cccH------HH------------H-------HHHHHhcC-CEEEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            985432 1110      00            0       11112333 579999999999999999999877653

>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=99.01  E-value=1e-09  Score=88.69  Aligned_cols=110  Identities=15%  Similarity=0.176  Sum_probs=66.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.||||+......   .+   ..++.   .+++++++|...   +..+  +..+............|.+++.||.|
T Consensus        51 ~~~~i~Dt~G~~~~~~~---~~---~~~~~---~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d  118 (166)
T d1g16a_          51 VKLQIWDTAGQERFRTI---TT---AYYRG---AMGIILVYDITD---ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD  118 (166)
T ss_dssp             EEEEEECCTTGGGTSCC---CH---HHHTT---EEEEEEEEETTC---HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEECCCchhhHHH---HH---HHHhc---CCEEEEEEECCC---ccCHHHHHhhhhhhhccccCcceeeeecchhh
Confidence            35678999997653221   11   12322   468899999863   4333  33333323333345678899999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +..+. ...+..                          .++...++ ..++++||++|+|++++++.+.+.+
T Consensus       119 ~~~~~-~~~~~~--------------------------~~~~~~~~-~~~~~~Sa~~~~~v~e~f~~l~~~i  162 (166)
T d1g16a_         119 METRV-VTADQG--------------------------EALAKELG-IPFIESSAKNDDNVNEIFFTLAKLI  162 (166)
T ss_dssp             CTTCC-SCHHHH--------------------------HHHHHHHT-CCEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             hhhhh-hhHHHH--------------------------HHHHHhcC-CeEEEECCCCCCCHHHHHHHHHHHH
Confidence            75433 111100                          11223344 5899999999999999998887654

>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=99.01  E-value=1.3e-09  Score=89.13  Aligned_cols=123  Identities=8%  Similarity=0.067  Sum_probs=68.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHH--HHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFI--SGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i--~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+-+.||||+-.....+       +..  ....+++++++|..   ++..|-  ..+..........+.|.++|.||+|
T Consensus        50 ~~l~i~D~~g~~~~~~~~-------~~~--~~~~~~~ilv~d~~---~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~D  117 (177)
T d1kmqa_          50 VELALWDTAGLEDYDRLR-------PLS--YPDTDVILMCFSID---SPDSLENIPEKWTPEVKHFCPNVPIILVGNKKD  117 (177)
T ss_dssp             EEEEEEEECCSGGGTTTG-------GGG--CTTCSEEEEEEETT---CHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGG
T ss_pred             eeeeccccCccchhcccc-------hhh--cccchhhhhhcccc---hhHHHHHHHHHHHHHHHHhCCCCceEEeeeccc
Confidence            367899999976532211       111  12246788899975   444442  1111111111224689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +............         .....-.     .....++..+++...++.+||++|.|++++++.+.+.
T Consensus       118 l~~~~~~~~~~~~---------~~~~~v~-----~~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~  174 (177)
T d1kmqa_         118 LRNDEHTRRELAK---------MKQEPVK-----PEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRA  174 (177)
T ss_dssp             GTTCHHHHHHHHH---------TTCCCCC-----HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHH---------hhccccc-----HHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHH
Confidence            9764411111100         0000000     0011233356677899999999999999999988764

>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=99.01  E-value=3.2e-09  Score=87.61  Aligned_cols=123  Identities=12%  Similarity=0.092  Sum_probs=68.4

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHH--HHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFIS--GCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~--~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+-+.||||+-.....+.        . .....+++++++|..   ++..|-.  .+..........+.|.++|.||+|
T Consensus        57 ~~l~i~D~~g~e~~~~~~~--------~-~~~~a~~~ilv~d~t---~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~D  124 (185)
T d2atxa1          57 YLLGLYDTAGQEDYDRLRP--------L-SYPMTDVFLICFSVV---NPASFQNVKEEWVPELKEYAPNVPFLLIGTQID  124 (185)
T ss_dssp             EEEEEECCCCSSSSTTTGG--------G-GCTTCSEEEEEEETT---CHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTT
T ss_pred             EEeecccccccchhhhhhh--------h-cccccceeeeccccc---hHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccc
Confidence            3567999999865221111        1 112246889999985   4444421  111111122234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +..+..........         ....  ..   .....++..+++...|+.+||++|.|++++++.+.+.
T Consensus       125 l~~~~~~~~~~~~~---------~~r~--v~---~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~  181 (185)
T d2atxa1         125 LRDDPKTLARLNDM---------KEKP--IC---VEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIA  181 (185)
T ss_dssp             STTCHHHHHHHTTT---------TCCC--CC---HHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhc---------cccc--cc---HHHHHHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHH
Confidence            97644111111100         0000  00   0011223355677889999999999999998877654

>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=99.01  E-value=1.8e-09  Score=87.92  Aligned_cols=109  Identities=10%  Similarity=0.169  Sum_probs=64.5

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh----cCCCEEEEe
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ----LELPHVNIL  188 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~----~~~p~IlVl  188 (284)
                      ..+-+.||+|+.+...       ....  .....++++++.|..   ++..+  +..++..+..+.+    .+.|+++|.
T Consensus        55 ~~~~i~d~~g~~~~~~-------~~~~--~~~~~~~~i~~~d~~---~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVg  122 (174)
T d1wmsa_          55 VTMQIWDTAGQERFRS-------LRTP--FYRGSDCCLLTFSVD---DSQSFQNLSNWKKEFIYYADVKEPESFPFVILG  122 (174)
T ss_dssp             EEEEEEECCCCGGGHH-------HHGG--GGTTCSEEEEEEETT---CHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEE
T ss_pred             eeEeeecccCcceehh-------hhhh--hhhccceEEEEEeee---cccccchhhhHHHHHHHHhccccCCCceEEEec
Confidence            3567899999765221       1111  123346788888875   33333  3333333322222    358999999


Q ss_pred             cCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          189 SKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       189 NK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      ||+|+..+.  +...                         .+.++..+.+...++.+||++|.|++++++.+.+
T Consensus       123 nK~Dl~~~~--v~~~-------------------------~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~  169 (174)
T d1wmsa_         123 NKIDISERQ--VSTE-------------------------EAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVR  169 (174)
T ss_dssp             ECTTCSSCS--SCHH-------------------------HHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             cccchhhcc--CcHH-------------------------HHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHH
Confidence            999985321  1100                         0112234455578999999999999999876654

>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=98.99  E-value=3.4e-09  Score=88.18  Aligned_cols=41  Identities=5%  Similarity=-0.088  Sum_probs=37.6

Q ss_pred             EEEEECCC--CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           21 IKCVFSPP--PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        21 ~~~viG~~--sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      .++|.|++  |||||+|.+||.+|+++|+||++||.|||++..
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~d~~g~~~   45 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPVASGSEK   45 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECSEEESCBC
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECccccCCCC
Confidence            37888885  999999999999999999999999999998754

>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=98.98  E-value=2.7e-09  Score=86.33  Aligned_cols=111  Identities=13%  Similarity=0.158  Sum_probs=65.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+.+.||+|+.+...       +.+.  .....+++++++|..   ++..|  +..++...........|.++|.||+|
T Consensus        52 ~~~~~~d~~g~~~~~~-------~~~~--~~~~~~~~i~v~d~~---~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~D  119 (167)
T d1z08a1          52 VNLAIWDTAGQERFHA-------LGPI--YYRDSNGAILVYDIT---DEDSFQKVKNWVKELRKMLGNEICLCIVGNKID  119 (167)
T ss_dssp             EEEEEEECCCC--------------CC--SSTTCSEEEEEEETT---CHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGG
T ss_pred             ceeeeeccCCcceecc-------cchh--hccCCceeEEEEeCC---chhHHHhhhhhhhhcccccccccceeeeccccc
Confidence            4678999999876321       1000  122246899999986   44444  33344333333445678999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +..+. .+..-                         .+.++.+.++ ..++.+||++|.|+++++..|.+.+
T Consensus       120 l~~~~-~v~~~-------------------------e~~~~a~~~~-~~~~e~Sak~~~~v~e~F~~l~~~i  164 (167)
T d1z08a1         120 LEKER-HVSIQ-------------------------EAESYAESVG-AKHYHTSAKQNKGIEELFLDLCKRM  164 (167)
T ss_dssp             GGGGC-CSCHH-------------------------HHHHHHHHTT-CEEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             ccccc-ccchH-------------------------HHHHHHHHcC-CeEEEEecCCCcCHHHHHHHHHHHH
Confidence            86533 22100                         0011223444 4789999999999999998877654

>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=98.98  E-value=2e-09  Score=87.44  Aligned_cols=110  Identities=14%  Similarity=0.211  Sum_probs=62.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK  190 (284)
                      ..+.+.||||+.+..       .+.+ .++.   .+.+++++|...   +..+  +..++..+.... ..+.|.++|.||
T Consensus        52 ~~l~i~d~~g~~~~~-------~~~~~~~~~---~~~~ilv~d~~~---~~s~~~~~~~~~~i~~~~~~~~~piiivgnK  118 (168)
T d1u8za_          52 VQIDILDTAGQEDYA-------AIRDNYFRS---GEGFLCVFSITE---MESFAATADFREQILRVKEDENVPFLLVGNK  118 (168)
T ss_dssp             EEEEEEECCC---CH-------HHHHHHHHH---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHHCCTTSCEEEEEEC
T ss_pred             ccccccccccccchh-------hhhhhcccc---cceeEEEeeccc---hhhhhhHHHHHHHHHHhhCCCCCcEEEEecc
Confidence            467889999986621       1222 2333   256888888753   3333  333433332222 246899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+.... .+..   ++                      +.++...++ ..++++||++|.|++++++.|.+.+
T Consensus       119 ~Dl~~~~-~v~~---~~----------------------~~~~~~~~~-~~~~e~Sak~g~gv~e~f~~l~~~i  165 (168)
T d1u8za_         119 SDLEDKR-QVSV---EE----------------------AKNRADQWN-VNYVETSAKTRANVDKVFFDLMREI  165 (168)
T ss_dssp             GGGGGGC-CSCH---HH----------------------HHHHHHHHT-CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccccccc-cccH---HH----------------------HHHHHHHcC-CeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            9985432 1110   00                      011112333 5789999999999999988776543

>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=98.97  E-value=2.2e-09  Score=86.77  Aligned_cols=109  Identities=14%  Similarity=0.227  Sum_probs=65.7

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHh-cCCCEEEEecCC
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQ-LELPHVNILSKM  191 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~-~~~p~IlVlNK~  191 (284)
                      .+-+.|+||+.....       .... +..   .+++++++|..   ++..|  +..++..+..... .+.|.++|.||+
T Consensus        52 ~l~~~d~~~~~~~~~-------~~~~~~~~---~~~~iiv~d~~---~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~  118 (166)
T d1ctqa_          52 LLDILDTAGQEEYSA-------MRDQYMRT---GEGFLCVFAIN---NTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKC  118 (166)
T ss_dssp             EEEEEEECCCGGGHH-------HHHHHHHH---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECT
T ss_pred             eeeeeeccCcccccc-------chhhhhhc---ccccceeeccc---ccccHHHHHHHHHHHHHhcCCCCCeEEEEeccc
Confidence            567889999776321       1122 223   25678888875   33333  3344433333322 468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+..+. ...+.                          +.++...++ ..++.+||++|+|+++++..|.+.+.
T Consensus       119 Dl~~~~-~~~~~--------------------------~~~~~~~~~-~~~~e~Sak~g~gi~e~f~~i~~~i~  164 (166)
T d1ctqa_         119 DLAART-VESRQ--------------------------AQDLARSYG-IPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             TCSCCC-SCHHH--------------------------HHHHHHHHT-CCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccccc-ccHHH--------------------------HHHHHHHhC-CeEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            985422 10000                          011223344 47999999999999999998877654

>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=98.97  E-value=2.1e-09  Score=92.03  Aligned_cols=113  Identities=13%  Similarity=0.256  Sum_probs=61.0

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH-H-HHHHHHHHHHHhcCC-CEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF-I-SGCMASLSAMVQLEL-PHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~-i-~~~l~~l~~~~~~~~-p~IlVlNK  190 (284)
                      ++.+-+|||||+..      +...+.   .++...+.++++||+...-.+..+ + ......+.....++. +.|+++||
T Consensus        80 ~~~i~iiDtPGH~d------f~~~~~---~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK  150 (224)
T d1jnya3          80 KYFFTIIDAPGHRD------FVKNMI---TGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNK  150 (224)
T ss_dssp             SCEEEECCCSSSTT------HHHHHH---HTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEEC
T ss_pred             CceeEEeeCCCcHH------HHHHHH---HHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEc
Confidence            56799999999765      122222   234456789999999753111110 0 000011112223344 57888999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC----CceEEEEeccCcccHHH
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS----MVSFMPLDLRKESSIRY  255 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~----~~~~ipiSa~~~~~l~~  255 (284)
                      +|+.........                    +......+.+++..++    ...|+|+||.+|+|+..
T Consensus       151 ~D~~~~~~~~~~--------------------~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         151 MDLTEPPYDEKR--------------------YKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             GGGSSSTTCHHH--------------------HHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             ccCCCccccHHH--------------------HHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            998753211111                    1111222333444433    36799999999999854

>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=98.97  E-value=4e-09  Score=85.37  Aligned_cols=111  Identities=10%  Similarity=0.137  Sum_probs=64.8

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH--hcCCCEEEEecC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV--QLELPHVNILSK  190 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~--~~~~p~IlVlNK  190 (284)
                      ..+.+.||+|+......      ....+..   .+++++++|..   ++..+  +..+...+....  ..+.|.++|.||
T Consensus        50 ~~l~~~d~~g~~~~~~~------~~~~~~~---a~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK  117 (171)
T d2erxa1          50 CTLQITDTTGSHQFPAM------QRLSISK---GHAFILVYSIT---SRQSLEELKPIYEQICEIKGDVESIPIMLVGNK  117 (171)
T ss_dssp             EEEEEEECCSCSSCHHH------HHHHHHH---CSEEEEEEETT---CHHHHHTTHHHHHHHHHHHC---CCCEEEEEEC
T ss_pred             ceecccccccccccccc------ccccccc---eeEEEEEeecc---cccchhcccchhhhhhhhhccCCCCcEEEEeec
Confidence            35678999997752210      1112333   25788899986   33333  233332222222  246899999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +|+..++ ++..-          +        .       .++...++ ..++.+||++|.|++++++.|.+..
T Consensus       118 ~Dl~~~~-~v~~~----------e--------~-------~~~~~~~~-~~~~e~Sak~~~~v~e~f~~l~~~~  164 (171)
T d2erxa1         118 CDESPSR-EVQSS----------E--------A-------EALARTWK-CAFMETSAKLNHNVKELFQELLNLE  164 (171)
T ss_dssp             GGGGGGC-CSCHH----------H--------H-------HHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             ccccccc-cccHH----------H--------H-------HHHHHHcC-CeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            9985433 22100          0        0       11112333 4789999999999999999888754

>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=98.96  E-value=2.9e-09  Score=86.37  Aligned_cols=110  Identities=15%  Similarity=0.259  Sum_probs=63.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHH-HHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDH-LKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~-l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      ..+-+.||||+....       .+... +..   .+++++++|..   ++..+  +..+............|.++|.||+
T Consensus        56 ~~l~i~Dt~G~e~~~-------~~~~~~~~~---~d~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~  122 (170)
T d2g6ba1          56 VKLQMWDTAGQERFR-------SVTHAYYRD---AHALLLLYDVT---NKASFDNIQAWLTEIHEYAQHDVALMLLGNKV  122 (170)
T ss_dssp             EEEEEEECCCC---------------CCGGG---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHSCTTCEEEEEEECC
T ss_pred             EEEEEEECCCchhhH-------HHHHHhhcC---CceeEEEecCC---cccchhhhhhhhhhhhhccCCCceEEEEEeee
Confidence            356899999975421       11111 122   36788889875   33333  3333332223334568999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |...+. .+..-                         .+.++...++ ..++.+||++|.|++++++.|.+.+
T Consensus       123 d~~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~e~Sak~g~gi~e~f~~l~~~i  168 (170)
T d2g6ba1         123 DSAHER-VVKRE-------------------------DGEKLAKEYG-LPFMETSAKTGLNVDLAFTAIAKEL  168 (170)
T ss_dssp             STTSCC-CSCHH-------------------------HHHHHHHHHT-CCEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             chhhcc-cccHH-------------------------HHHHHHHHcC-CEEEEEeCCCCcCHHHHHHHHHHHc
Confidence            986543 21100                         0011123334 5899999999999999999887654

>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=98.96  E-value=1.1e-08  Score=82.59  Aligned_cols=112  Identities=10%  Similarity=0.141  Sum_probs=67.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      ..+-+.|++|+.....   ..+   ..+..   .+++++++|..   ++..|  +..++..+.... ..+.|.++|.||+
T Consensus        51 ~~~~~~d~~g~~~~~~---~~~---~~~~~---~~~~ilv~d~~---~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~  118 (167)
T d1c1ya_          51 CMLEILDTAGTEQFTA---MRD---LYMKN---GQGFALVYSIT---AQSTFNDLQDLREQILRVKDTEDVPMILVGNKC  118 (167)
T ss_dssp             EEEEEEEECSSCSSTT---HHH---HHHHH---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECT
T ss_pred             EEeccccccCcccccc---ccc---ccccc---cceeEEeeecc---chhhhHhHHHHHHHHHHhcCCCCCeEEEEEEec
Confidence            3578899999876321   111   12333   25788888886   34443  344443332222 2467999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+.... .... .                        ...+...++....++.+||++|+|+++++..+.+.+
T Consensus       119 Dl~~~~-~~~~-~------------------------~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i  165 (167)
T d1c1ya_         119 DLEDER-VVGK-E------------------------QGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             TCGGGC-CSCH-H------------------------HHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             Cccccc-ccch-h------------------------HHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHh
Confidence            985432 1100 0                        001222445557899999999999999998887643

>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=98.95  E-value=1.6e-09  Score=88.44  Aligned_cols=112  Identities=13%  Similarity=0.139  Sum_probs=63.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      ..+.++|+|+..+       ..+++... .....+++++++|..   ++..+  +..+...+.... ..+.|.++|.||+
T Consensus        53 ~~~~~~d~~~~~g-------~e~~~~~~-~~~~~~~~ilvfd~t---~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~  121 (172)
T d2g3ya1          53 ATIILLDMWENKG-------ENEWLHDH-CMQVGDAYLIVYSIT---DRASFEKASELRIQLRRARQTEDIPIILVGNKS  121 (172)
T ss_dssp             EEEEEECCTTTTH-------HHHHHHHC-CCCCCSEEEEEEETT---CHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECT
T ss_pred             eeeeeeccccccc-------cccccccc-cccccceeeeeeccc---ccchhhhhhhhhhhhhhccccCCceEEEEeccc
Confidence            3568889887432       11221111 122346788888985   34333  333332222222 2468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      |+...+ ++..   ++               .       .++...++ ..++.+||++|.|+++++..|.+.+
T Consensus       122 Dl~~~~-~v~~---~~---------------~-------~~~a~~~~-~~~~e~Sak~g~~i~~~f~~l~~~i  167 (172)
T d2g3ya1         122 DLVRCR-EVSV---SE---------------G-------RACAVVFD-CKFIETSAAVQHNVKELFEGIVRQV  167 (172)
T ss_dssp             TCGGGC-CSCH---HH---------------H-------HHHHHHHT-CEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             cccccc-cccH---HH---------------H-------HHHHHHcC-CeEEEEeCCCCcCHHHHHHHHHHHH
Confidence            986432 1110   00               0       01112333 4789999999999999998877654

>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=98.94  E-value=1.1e-09  Score=89.70  Aligned_cols=113  Identities=10%  Similarity=0.201  Sum_probs=66.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK  190 (284)
                      ...+.+.||||+.+..   ...+.   .+..   .+++++++|..   ++..+  +..++..+... .....|.+++.||
T Consensus        55 ~~~~~i~Dt~G~~~~~---~~~~~---~~~~---~~~ii~v~d~~---~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk  122 (177)
T d1x3sa1          55 KAKLAIWDTAGQERFR---TLTPS---YYRG---AQGVILVYDVT---RRDTFVKLDNWLNELETYCTRNDIVNMLVGNK  122 (177)
T ss_dssp             EEEEEEEEECSSGGGC---CSHHH---HHTT---CCEEEEEEETT---CHHHHHTHHHHHHHHTTCCSCSCCEEEEEEEC
T ss_pred             ccEEEEEECCCchhhH---HHHHH---HHhc---CCEEEEEEECC---CccccccchhhhhhhcccccccceeeEEEeec
Confidence            3468999999976532   21111   1222   36788999975   33333  33333222111 2346888999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCC
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQW  266 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~  266 (284)
                      .|...+.  ....                         ...++..+++ ..++.+||++|+|++++++.+.+.+-.
T Consensus       123 ~d~~~~~--v~~~-------------------------~~~~~~~~~~-~~~~e~Sa~tg~gv~e~f~~l~~~l~~  170 (177)
T d1x3sa1         123 IDKENRE--VDRN-------------------------EGLKFARKHS-MLFIEASAKTCDGVQCAFEELVEKIIQ  170 (177)
T ss_dssp             TTSSSCC--SCHH-------------------------HHHHHHHHTT-CEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             ccccccc--ccHH-------------------------HHHHHHHHCC-CEEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            9975432  1100                         0012223444 579999999999999999877655433

>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=98.92  E-value=1.8e-09  Score=87.92  Aligned_cols=117  Identities=12%  Similarity=0.109  Sum_probs=69.4

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ...+.+.||||+.+....       .+..  ....+++++++|.....+-.. +..++...... ..+.|.++|.||+|+
T Consensus        51 ~~~l~i~D~~g~~~~~~~-------~~~~--~~~~~~~ilv~d~~~~~Sf~~-~~~~~~~~~~~-~~~~piilvgnK~Dl  119 (170)
T d1i2ma_          51 PIKFNVWDTAGQEKFGGL-------RDGY--YIQAQCAIIMFDVTSRVTYKN-VPNWHRDLVRV-CENIPIVLCGNKVDI  119 (170)
T ss_dssp             CEEEEEEECTTHHHHSSC-------GGGG--TTTCCEEEEEEETTSGGGGTT-HHHHHHHHHHH-HCSCCEEEEEECCCC
T ss_pred             ccccccccccccccccee-------cchh--cccccchhhccccccccccch-hHHHHHHHhhc-cCCCceeeecchhhh
Confidence            346789999997653211       1111  112467889999875422211 33333222221 247899999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcCCCCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQWGEDA  270 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~~g~d~  270 (284)
                      ..+. ...+..                           .....+ ...++.+||++|+|+++++..|.+.+..-+..
T Consensus       120 ~~~~-~~~~~~---------------------------~~~~~~-~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~~~  167 (170)
T d1i2ma_         120 KDRK-VKAKSI---------------------------VFHRKK-NLQYYDISAKSNYNFEKPFLWLARKLIGDPNL  167 (170)
T ss_dssp             SCSC-CTTTSH---------------------------HHHSSC-SSEEEEEBTTTTBTTTHHHHHHHHHHHTCTTC
T ss_pred             hhhh-hhhHHH---------------------------HHHHHc-CCEEEEEeCCCCCCHHHHHHHHHHHHccCCCC
Confidence            6533 111110                           111222 25789999999999999999888766544443

>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=98.91  E-value=5.1e-09  Score=84.51  Aligned_cols=110  Identities=16%  Similarity=0.161  Sum_probs=65.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      ..+-+.||+|+.+......       ..  ....+++++++|..   ++..|  +..+...+.... ..+.|+++|.||+
T Consensus        52 ~~l~i~d~~g~~~~~~~~~-------~~--~~~~d~~ilv~d~~---~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~  119 (167)
T d1xtqa1          52 YHLQLVDTAGQDEYSIFPQ-------TY--SIDINGYILVYSVT---SIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKK  119 (167)
T ss_dssp             EEEEEEECCCCCTTCCCCG-------GG--TSSCCEEEEEEETT---CHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECT
T ss_pred             EEeeecccccccccccccc-------hh--hhhhhhhhhhcccc---hhhhhhhhhhhhhhhhhcccccccceeeecccc
Confidence            3567899999765322111       01  11246788899976   44444  333433332222 3468999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      |+..++ .+..      +            ..       .++.++++ ..++.+||++|.|++++++.|...
T Consensus       120 Dl~~~r-~v~~------~------------~~-------~~~a~~~~-~~~~e~Sak~~~~v~~~f~~li~~  164 (167)
T d1xtqa1         120 DLHMER-VISY------E------------EG-------KALAESWN-AAFLESSAKENQTAVDVFRRIILE  164 (167)
T ss_dssp             TCGGGC-CSCH------H------------HH-------HHHHHHHT-CEEEECCTTCHHHHHHHHHHHHHH
T ss_pred             cccccc-chhH------H------------HH-------HHHHHHcC-CEEEEEecCCCCCHHHHHHHHHHH
Confidence            985433 1100      0            00       11112334 478899999999999998876543

>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=98.91  E-value=6.7e-09  Score=84.00  Aligned_cols=114  Identities=13%  Similarity=0.169  Sum_probs=68.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~  191 (284)
                      .++-+.||+|+....   .    +.+ .+..   .+++++++|...   +..|  +..+............|.++|.||+
T Consensus        52 ~~l~i~d~~g~~~~~---~----~~~~~~~~---~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~  118 (170)
T d1ek0a_          52 VKFEIWDTAGQERFA---S----LAPMYYRN---AQAALVVYDVTK---PQSFIKARHWVKELHEQASKDIIIALVGNKI  118 (170)
T ss_dssp             EEEEEEEECCSGGGG---G----GHHHHHTT---CSEEEEEEETTC---HHHHHHHHHHHHHHHHHSCTTCEEEEEEECG
T ss_pred             ccccccccCCchhHH---H----HHHHHHhc---cceEEEEEeCCc---ccchhhhhhhhhhhccccccccceeeeeccc
Confidence            467899999976522   1    112 2322   467888999863   4333  3333322222233568999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      |+.... ........                      ...++.++.+ ..++.+||++|.|+++++..|.+.++
T Consensus       119 d~~~~~-~~~~v~~~----------------------~~~~~~~~~~-~~~~e~Sak~g~gV~e~F~~i~~~i~  168 (170)
T d1ek0a_         119 DMLQEG-GERKVARE----------------------EGEKLAEEKG-LLFFETSAKTGENVNDVFLGIGEKIP  168 (170)
T ss_dssp             GGGGSS-CCCCSCHH----------------------HHHHHHHHHT-CEEEECCTTTCTTHHHHHHHHHTTSC
T ss_pred             cccccc-chhhhhHH----------------------HHHHHHHHcC-CEEEEecCCCCcCHHHHHHHHHHHhc
Confidence            986432 11111100                      0012223444 48999999999999999999987665

>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=98.90  E-value=6.6e-10  Score=91.48  Aligned_cols=111  Identities=17%  Similarity=0.246  Sum_probs=64.8

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecC
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSK  190 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK  190 (284)
                      ...+-+.||||+.+.       ..+.+..-+  .++.+++++|..   ++..+  +..+...+... .....|.++|.||
T Consensus        63 ~~~~~i~dt~G~e~~-------~~~~~~~~~--~~~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK  130 (186)
T d2f7sa1          63 KVHLQLWDTAGQERF-------RSLTTAFFR--DAMGFLLMFDLT---SQQSFLNVRNWMSQLQANAYCENPDIVLIGNK  130 (186)
T ss_dssp             EEEEEEEEEESHHHH-------HHHHHHHHT--TCCEEEEEEETT---CHHHHHHHHHHHHTCCCCCTTTCCEEEEEEEC
T ss_pred             eEEeccccCCcchhh-------HHHHHHHHh--cCCEEEEEEecc---ccccceeeeeccchhhhhccCCCceEEEEeee
Confidence            346789999996541       223332211  246889999975   44443  22222211111 1134678999999


Q ss_pred             CccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHh
Q 023298          191 MDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       191 ~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      +|+.... ++...                         .+.++.++++ ..++++||++|+|++++++.+.+.
T Consensus       131 ~Dl~~~~-~v~~~-------------------------e~~~~~~~~~-~~~~e~Sak~~~~i~e~f~~l~~~  176 (186)
T d2f7sa1         131 ADLPDQR-EVNER-------------------------QARELADKYG-IPYFETSAATGQNVEKAVETLLDL  176 (186)
T ss_dssp             TTCGGGC-CSCHH-------------------------HHHHHHHHTT-CCEEEEBTTTTBTHHHHHHHHHHH
T ss_pred             ccchhhh-cchHH-------------------------HHHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHH
Confidence            9985433 21110                         0012234455 479999999999999999887654

>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=98.89  E-value=1.7e-08  Score=83.35  Aligned_cols=124  Identities=14%  Similarity=0.142  Sum_probs=69.3

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+-+.||||+......+.        . .....+++++++|..   +++.|  +..+..........+.|.++|.||+|
T Consensus        51 ~~l~i~D~~g~~~~~~~~~--------~-~~~~~~~~ilv~d~~---~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~D  118 (191)
T d2ngra_          51 YTLGLFDTAGQEDYDRLRP--------L-SYPQTDVFLVCFSVV---SPSSFENVKEKWVPEITHHCPKTPFLLVGTQID  118 (191)
T ss_dssp             EEEEEEEECCSGGGTTTGG--------G-GCTTCSEEEEEEETT---CHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGG
T ss_pred             eeeeccccccchhhhhhhh--------h-cccccceeecccccc---hHHHHHHHHHHHHHHHhhcCCCCceEEEecccc
Confidence            3578899999865322111        1 112246788999986   44443  22222211112234789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      +..+..........          ... ....+   ...++..+++...++.+||++|.|++++++.+.+..
T Consensus       119 l~~~~~~~~~~~~~----------~~~-~v~~~---~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~  176 (191)
T d2ngra_         119 LRDDPSTIEKLAKN----------KQK-PITPE---TAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA  176 (191)
T ss_dssp             GGGCHHHHHHHHTT----------TCC-CCCHH---HHHHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccccchhhhhhhhc----------ccc-cccHH---HHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHH
Confidence            97644111111100          000 00000   011223455667899999999999999998777654

>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=98.89  E-value=2.6e-08  Score=78.81  Aligned_cols=119  Identities=12%  Similarity=0.031  Sum_probs=67.2

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ...+.+.|+|+.........       .  .......+++++|..........................|.++|.||.|+
T Consensus        48 ~~~~~~~~~~~~~~~~~~~~-------~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl  118 (169)
T d1upta_          48 NLKFQVWDLGGLTSIRPYWR-------C--YYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDM  118 (169)
T ss_dssp             TEEEEEEEECCCGGGGGGGG-------G--GCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             ceEEEEeeccccccccccch-------h--hhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccc
Confidence            34667888888654322111       0  11223567788887655444443332222222223456889999999998


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                      .... ...+..        .++..               -........++|+||++|+|++++++.|.+.+.
T Consensus       119 ~~~~-~~~~i~--------~~~~~---------------~~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~  166 (169)
T d1upta_         119 EQAM-TSSEMA--------NSLGL---------------PALKDRKWQIFKTSATKGTGLDEAMEWLVETLK  166 (169)
T ss_dssp             TTCC-CHHHHH--------HHHTG---------------GGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccc-cHHHHH--------HHHHH---------------HHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            6533 111111        11100               001112368999999999999999999987653

>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=98.88  E-value=2.8e-08  Score=80.51  Aligned_cols=111  Identities=13%  Similarity=0.229  Sum_probs=67.0

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHH-HhcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAM-VQLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~-~~~~~p~IlVlNK~  191 (284)
                      ..+-+.||+|+......   ..   ..++.   ++++++++|..   ++..|  +..+...+... ...+.|.|+|.||+
T Consensus        52 ~~~~i~d~~g~~~~~~~---~~---~~~~~---~~~~llv~d~~---d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~  119 (169)
T d1x1ra1          52 AILDVLDTAGQEEFSAM---RE---QYMRT---GDGFLIVYSVT---DKASFEHVDRFHQLILRVKDRESFPMILVANKV  119 (169)
T ss_dssp             EEEEEEECCSCGGGCSS---HH---HHHHH---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECT
T ss_pred             ccccccccccccccccc---hh---hhhhh---ccEEEEecccc---cchhhhccchhhHHHHhhccccCccEEEEeccc
Confidence            35678999998764322   11   12333   25788888886   44444  33444333322 23578999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc-cHHHHHHHHHHhc
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNCI  264 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~-~l~~Ll~~I~~~l  264 (284)
                      |+.... .+..   +                      .+.++...++ ..++.+||+++. |+++++..+.+.+
T Consensus       120 Dl~~~~-~v~~---e----------------------~~~~~~~~~~-~~~~e~Sak~~~~nV~~~F~~l~~~i  166 (169)
T d1x1ra1         120 DLMHLR-KVTR---D----------------------QGKEMATKYN-IPYIETSAKDPPLNVDKTFHDLVRVI  166 (169)
T ss_dssp             TCSTTC-CSCH---H----------------------HHHHHHHHHT-CCEEEEBCSSSCBSHHHHHHHHHHHH
T ss_pred             chhhhc-eeeh---h----------------------hHHHHHHHcC-CEEEEEcCCCCCcCHHHHHHHHHHHH
Confidence            986543 2210   0                      0012223445 478999999876 9999988776643

>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=98.87  E-value=5.9e-09  Score=85.56  Aligned_cols=124  Identities=14%  Similarity=0.163  Sum_probs=69.2

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHH-HHHHHHHHHhcCCCEEEEecCCc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISG-CMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~-~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      .+-+.|++|+......+.        . .....+++++++|..   ++..|  +.. +...+ .....+.|+++|.||+|
T Consensus        54 ~~~~~d~~g~~~~~~~~~--------~-~~~~~~~~ilv~d~~---~~~sf~~i~~~~~~~~-~~~~~~~piilvgnK~D  120 (183)
T d1mh1a_          54 NLGLWDTAGQEDYDRLRP--------L-SYPQTDVSLICFSLV---SPASFENVRAKWYPEV-RHHCPNTPIILVGTKLD  120 (183)
T ss_dssp             EEEEECCCCSGGGTTTGG--------G-GCTTCSEEEEEEETT---CHHHHHHHHHTHHHHH-HHHSTTSCEEEEEECHH
T ss_pred             EEEeecccccccchhhhh--------h-cccccceeeeeeccc---hHHHHHHHHHHHHHHH-HHhCCCCcEEEEeeccc
Confidence            567889999765322111        1 112246788999985   44444  222 22211 12234689999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH-hcCC
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN-CIQW  266 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~-~l~~  266 (284)
                      +..++.......+..        .....      ......+..+++...++.+||++|.|+++++..+.+ +|+.
T Consensus       121 l~~~~~~~~~~~~~~--------~~~~~------~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il~p  181 (183)
T d1mh1a_         121 LRDDKDTIEKLKEKK--------LTPIT------YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP  181 (183)
T ss_dssp             HHTCHHHHHHHHHTT--------CCCCC------HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSCC
T ss_pred             chhhhhhhhhhhhcc--------ccchh------hHHHHHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHcCC
Confidence            876441111111000        00000      000122335567789999999999999999887665 4543

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

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: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.85  E-value=1e-09  Score=95.69  Aligned_cols=113  Identities=14%  Similarity=0.214  Sum_probs=57.1

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCC---------CHHHHHHHHHHHHHHHHhcCCC-
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFIT---------DVTKFISGCMASLSAMVQLELP-  183 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~---------~~~~~i~~~l~~l~~~~~~~~p-  183 (284)
                      .+.+.++||||+....      ..+   +..+...+.++++||+...-         ...+.+       ......+.| 
T Consensus       101 ~~~i~~iDtPGH~df~------~~~---~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l-------~l~~~~~i~~  164 (245)
T d1r5ba3         101 HRRFSLLDAPGHKGYV------TNM---INGASQADIGVLVISARRGEFEAGFERGGQTREHA-------VLARTQGINH  164 (245)
T ss_dssp             SEEEEECCCCC--------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHH-------HHHHHTTCSS
T ss_pred             cceeeeecccccccch------hhh---hhhhhhhcceeeEEEcCCCccCCccccccchHHHH-------HHHHHcCCCe
Confidence            4579999999976521      112   23334567899999996421         112211       122345666 


Q ss_pred             EEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC---CceEEEEeccCcccHHHHHHH
Q 023298          184 HVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS---MVSFMPLDLRKESSIRYVLSQ  259 (284)
Q Consensus       184 ~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~---~~~~ipiSa~~~~~l~~Ll~~  259 (284)
                      .++++||+|+...+ ..+...    +.+.+++           ...+.++. .+.   -+.|+|+||++|+|+.+++..
T Consensus       165 iiv~iNKmD~~~~~-~~e~~~----~ei~~~l-----------~~~l~~i~-~~~~~~~v~~VPiSA~~G~nI~~~~~s  226 (245)
T d1r5ba3         165 LVVVINKMDEPSVQ-WSEERY----KECVDKL-----------SMFLRRVA-GYNSKTDVKYMPVSAYTGQNVKDRVDS  226 (245)
T ss_dssp             EEEEEECTTSTTCS-SCHHHH----HHHHHHH-----------HHHHHHHH-CCCHHHHEEEEECBTTTTBTTSSCCCT
T ss_pred             EEEEEEcCCCCccc-hhHHHH----HHHHHHH-----------HHHHHHHh-CcCcccCCEEEEeeccCCCCcccchhc
Confidence            56889999986422 111110    1111111           11111111 111   257999999999999876544

>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=98.84  E-value=1.4e-08  Score=82.21  Aligned_cols=109  Identities=15%  Similarity=0.160  Sum_probs=62.9

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEecCC
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILSKM  191 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlNK~  191 (284)
                      ..+-+.||||+.....       ....+..   .+.++++.|..   ++..+  +..+........ ..+.|.++|.||+
T Consensus        50 ~~l~i~D~~g~~~~~~-------~~~~~~~---~~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~  116 (168)
T d2atva1          50 VSMEILDTAGQEDTIQ-------REGHMRW---GEGFVLVYDIT---DRGSFEEVLPLKNILDEIKKPKNVTLILVGNKA  116 (168)
T ss_dssp             EEEEEEECCCCCCCHH-------HHHHHHH---CSEEEEEEETT---CHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECG
T ss_pred             eEEEEeeccccccccc-------chhhhcc---cccceeecccC---CccchhhhhhhcccccccccccCcceeeeccch
Confidence            3578999999754211       1122333   25688888875   44444  222222122222 2478999999999


Q ss_pred             ccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc-cHHHHHHHHHHh
Q 023298          192 DLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNC  263 (284)
Q Consensus       192 Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~-~l~~Ll~~I~~~  263 (284)
                      |+..+. .+..   .               ..       .++..+++ ..++.+||++|+ |+++++..|.+.
T Consensus       117 Dl~~~r-~V~~---~---------------e~-------~~~a~~~~-~~~~e~Saktg~gnV~e~F~~l~~~  162 (168)
T d2atva1         117 DLDHSR-QVST---E---------------EG-------EKLATELA-CAFYECSACTGEGNITEIFYELCRE  162 (168)
T ss_dssp             GGGGGC-CSCH---H---------------HH-------HHHHHHHT-SEEEECCTTTCTTCHHHHHHHHHHH
T ss_pred             hhhhhc-cCcH---H---------------HH-------HHHHHHhC-CeEEEEccccCCcCHHHHHHHHHHH
Confidence            985432 1100   0               00       11113344 478999999998 599998877654

>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=98.84  E-value=5.2e-09  Score=82.30  Aligned_cols=121  Identities=13%  Similarity=0.042  Sum_probs=65.6

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +....+.|+++.........        . .......+++++|.............+..........+.|++++.||.|+
T Consensus        43 ~~~~~~~~~~~~~~~~~~~~--------~-~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~  113 (166)
T d2qtvb1          43 NIKFTTFDLGGHIQARRLWK--------D-YFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDA  113 (166)
T ss_dssp             TCCEEEEECCCSGGGGGGGG--------G-GCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTS
T ss_pred             CeeEEEEeeccchhhhhhHh--------h-hhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccc
Confidence            45788999999765432111        1 11224568888998754433332222222112223367899999999998


Q ss_pred             ccch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          194 VTNK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       194 l~~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      ....  .++.+.+.         +....          ..+.+.......++++||++|+|++++++.+.+
T Consensus       114 ~~~~~~~~i~~~~~---------~~~~~----------~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         114 PNAVSEAELRSALG---------LLNTT----------GSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             SSCCCHHHHHHHHT---------CSSCC----------C---CCSSCCEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             cccCCHHHHHHHhh---------hhhhh----------HHHhhcccCCCEEEEeeCCCCCCHHHHHHHHhC
Confidence            5421  01211110         00000          001112223457999999999999999987754

>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=98.82  E-value=5.9e-09  Score=83.70  Aligned_cols=108  Identities=12%  Similarity=0.247  Sum_probs=62.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHH-HHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH-hcCCCEEEEec
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVD-HLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV-QLELPHVNILS  189 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~-~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~-~~~~p~IlVlN  189 (284)
                      ...+.+.|++|..+....      ..+ .+..   .+++++++|..   ++..|  +..++..+.... ..+.|.++|.|
T Consensus        50 ~~~~~~~~~~~~~~~~~~------~~~~~~~~---~d~~ilv~d~~---~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgn  117 (165)
T d1z06a1          50 RIKIQLWDTAGQERFRKS------MVQHYYRN---VHAVVFVYDMT---NMASFHSLPAWIEECKQHLLANDIPRILVGN  117 (165)
T ss_dssp             EEEEEEEECCCSHHHHTT------THHHHHTT---CCEEEEEEETT---CHHHHHTHHHHHHHHHHHCCCSCCCEEEEEE
T ss_pred             ceEEEEEeccCchhhccc------cceeeecC---CCceEEEEEee---hhhhhhhhhhhhHHHHhhccCCCCeEEEEec
Confidence            346788999996653211      111 2322   46899999986   44443  333433322222 24689999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCc---ccHHHHHHHH
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKE---SSIRYVLSQI  260 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~---~~l~~Ll~~I  260 (284)
                      |+|+..+. ++..-                         .+.++.+.++ ..++.+||+++   +|++++++.|
T Consensus       118 K~Dl~~~~-~v~~~-------------------------~~~~~~~~~~-~~~~e~SAkt~~~~~~V~e~F~~l  164 (165)
T d1z06a1         118 KCDLRSAI-QVPTD-------------------------LAQKFADTHS-MPLFETSAKNPNDNDHVEAIFMTL  164 (165)
T ss_dssp             CTTCGGGC-CSCHH-------------------------HHHHHHHHTT-CCEEECCSSSGGGGSCHHHHHHHH
T ss_pred             cccchhcc-chhHH-------------------------HHHHHHHHCC-CEEEEEecccCCcCcCHHHHHHHh
Confidence            99986432 11000                         0012224455 47899999875   5888887765

>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=98.80  E-value=4.2e-08  Score=90.91  Aligned_cols=132  Identities=9%  Similarity=0.085  Sum_probs=75.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      ..+++++||||.-...  .. .+..+.... ....+++++++|.. +...+..+.      ..+.+.++|+++|+||+|.
T Consensus       106 ~~~~~l~DtPG~~~~~--~~-~~~~~~~~~-~~~~d~~l~~~~~~-~~~~d~~l~------~~l~~~~k~~~~V~nK~D~  174 (400)
T d1tq4a_         106 IPNVVFWDLPGIGSTN--FP-PDTYLEKMK-FYEYDFFIIISATR-FKKNDIDIA------KAISMMKKEFYFVRTKVDS  174 (400)
T ss_dssp             CTTEEEEECCCGGGSS--CC-HHHHHHHTT-GGGCSEEEEEESSC-CCHHHHHHH------HHHHHTTCEEEEEECCHHH
T ss_pred             CCeEEEEeCCCccccc--cc-HHHHHHHhh-hhcceEEEEecCCC-CCHHHHHHH------HHHHHcCCCEEEEEeCccc
Confidence            4468999999975522  22 233333332 12235677777753 333232232      2344679999999999997


Q ss_pred             ccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCC--ceEEEEeccCc--ccHHHHHHHHHHhcCCC
Q 023298          194 VTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSM--VSFMPLDLRKE--SSIRYVLSQIDNCIQWG  267 (284)
Q Consensus       194 l~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~--~~~ipiSa~~~--~~l~~Ll~~I~~~l~~g  267 (284)
                      .............+.+.+++           .+...+.+.+...+.  ..++++|..+.  .++..|.+.+.+.+|..
T Consensus       175 ~~~~~~~~~~~~~~~e~~l~-----------~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~  241 (400)
T d1tq4a_         175 DITNEADGEPQTFDKEKVLQ-----------DIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIY  241 (400)
T ss_dssp             HHHHHHTTCCTTCCHHHHHH-----------HHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             ccchhhhcccccccHHHHHH-----------HHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHHH
Confidence            53220111111111222222           233345566666554  46889998654  48999999999998864

>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=98.76  E-value=2.7e-08  Score=79.99  Aligned_cols=126  Identities=10%  Similarity=0.050  Sum_probs=60.5

Q ss_pred             CEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCEEEEecCCcccc
Q 023298          116 DYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISGCMASLSAMVQLELPHVNILSKMDLVT  195 (284)
Q Consensus       116 ~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~  195 (284)
                      .+.+.|++++........      .....   ...+++++|........................+.|.+++.||.|+..
T Consensus        58 ~~~~~~~~~~~~~~~~~~------~~~~~---~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~  128 (186)
T d1f6ba_          58 TFTTFDLGGHIQARRVWK------NYLPA---INGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE  128 (186)
T ss_dssp             EEEEEEECC----CCGGG------GGGGG---CSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             ccccccccchhhhhhHHh------hhhcc---cceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccc
Confidence            567778888665432211      01112   246788888764332222221111111111234799999999999854


Q ss_pred             ch--hhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhc
Q 023298          196 NK--KEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       196 ~~--~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..  .++.+.+...     ...........         .........++++||++|+|++++++.+.+.+
T Consensus       129 ~~~~~~i~~~~~~~-----~~~~~~~~~~~---------~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         129 AISEERLREMFGLY-----GQTTGKGSVSL---------KELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             CCCHHHHHHHHTCT-----TTCCCSSCCCT---------TTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHhhc-----ccchhhhhhhH---------HHhhcCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence            22  0111111100     00000000000         00012235799999999999999999887654

>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=98.67  E-value=1.3e-07  Score=77.36  Aligned_cols=123  Identities=12%  Similarity=0.068  Sum_probs=67.1

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHHhcCCCEEEEecCCc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMVQLELPHVNILSKMD  192 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~~~~~p~IlVlNK~D  192 (284)
                      ..+-+.||+|+......+.        . -....+++++++|..   ++..|  +..+..........+.|.++|-||+|
T Consensus        50 ~~~~i~D~~g~~~~~~~~~--------~-~~~~~~~~ilv~d~~---~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~D  117 (179)
T d1m7ba_          50 IELSLWDTSGSPYYDNVRP--------L-SYPDSDAVLICFDIS---RPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSD  117 (179)
T ss_dssp             EEEEEEEECCSGGGTTTGG--------G-GCTTCSEEEEEEETT---CHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGG
T ss_pred             Eeecccccccccccccccc--------c-hhhhhhhhheeeecc---cCCCHHHHHHHHHHHHhccCCcceEEEEEeccc
Confidence            3567889999765322111        1 112246788999975   44444  22222221222235789999999999


Q ss_pred             cccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcc-cHHHHHHHHHHh
Q 023298          193 LVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKES-SIRYVLSQIDNC  263 (284)
Q Consensus       193 ll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~-~l~~Ll~~I~~~  263 (284)
                      +.............         +..  ...   .....++..+++...++.+||++|. +++++++.+.+.
T Consensus       118 l~~~~~~~~~~~~~---------~~~--~V~---~~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~  175 (179)
T d1m7ba_         118 LRTDVSTLVELSNH---------RQT--PVS---YDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLA  175 (179)
T ss_dssp             GGGCHHHHHHHHTT---------TCC--CCC---HHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHH
T ss_pred             ccccchhhHHHhhh---------hcC--cch---HHHHHHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHH
Confidence            86533121111100         000  000   0011223345566789999999998 599999876654

>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=98.65  E-value=1.6e-07  Score=76.82  Aligned_cols=107  Identities=10%  Similarity=0.094  Sum_probs=61.7

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHH--HHHHHHHHHHHH---hcCCCEEEEec
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKF--ISGCMASLSAMV---QLELPHVNILS  189 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~--i~~~l~~l~~~~---~~~~p~IlVlN  189 (284)
                      ..+.+.||+|+...           ..+..   ++++++++|..   ++..|  +..+...+..+.   ....|+++|.|
T Consensus        52 ~~l~i~Dt~g~~~~-----------~~~~~---ad~~ilVfd~~---~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~  114 (175)
T d2bmja1          52 HLVLIREEAGAPDA-----------KFSGW---ADAVIFVFSLE---DENSFQAVSRLHGQLSSLRGEGRGGLALALVGT  114 (175)
T ss_dssp             EEEEEEECSSCCCH-----------HHHHH---CSEEEEEEETT---CHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEE
T ss_pred             EEEEEeeccccccc-----------ccccc---cceeEEEeecc---cchhhhhhHHHHHHHHHHhhcccCCccEEEEee
Confidence            35678899997641           11333   25788888875   44443  333333222222   24568999999


Q ss_pred             CCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHH
Q 023298          190 KMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDN  262 (284)
Q Consensus       190 K~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~  262 (284)
                      |.|+-... . ......                      ...++..+.....++.+||+++.|+++++..+.+
T Consensus       115 k~d~d~~~-~-~~v~~~----------------------~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~  163 (175)
T d2bmja1         115 QDRISASS-P-RVVGDA----------------------RARALCADMKRCSYYETCATYGLNVDRVFQEVAQ  163 (175)
T ss_dssp             CTTCCSSS-C-CCSCHH----------------------HHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHH
T ss_pred             ecCcchhh-h-cchhHH----------------------HHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHH
Confidence            98873221 0 001000                      0011223334468999999999999998876654

>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=98.64  E-value=1e-07  Score=83.04  Aligned_cols=126  Identities=10%  Similarity=0.020  Sum_probs=67.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHL   97 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~   97 (284)
                      +..|+++|.+ |||||++..|.      |+++..++--|+.+....      +.           ..             
T Consensus        32 ~l~I~LvG~tg~GKSSliN~il------g~~~~~vs~~~~~T~~~~------~~-----------~~-------------   75 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSII------GERVVSISPFQSEGPRPV------MV-----------SR-------------   75 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH------TSCCSCCCSSSCCCSSCE------EE-----------EE-------------
T ss_pred             CcEEEEECCCCCcHHHHHHHHh------CCCceeecCCCCcceeEE------EE-----------EE-------------
Confidence            4459999999 99999999886      456666553333322110      00           00             


Q ss_pred             hhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCC--CCCHHHHHHHHHHHHH
Q 023298           98 EDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQF--ITDVTKFISGCMASLS  175 (284)
Q Consensus        98 ~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~--~~~~~~~i~~~l~~l~  175 (284)
                                ...   +.++++|||||..+...........+..........+++|+++...  ++..+......   +.
T Consensus        76 ----------~~~---g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~---l~  139 (257)
T d1h65a_          76 ----------SRA---GFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKA---IT  139 (257)
T ss_dssp             ----------EET---TEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHH---HH
T ss_pred             ----------Eec---cEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHH---HH
Confidence                      011   4478999999987632221111111222222222456777776543  33322222111   22


Q ss_pred             HH--HhcCCCEEEEecCCccccc
Q 023298          176 AM--VQLELPHVNILSKMDLVTN  196 (284)
Q Consensus       176 ~~--~~~~~p~IlVlNK~Dll~~  196 (284)
                      .+  .....++|+|+||+|.+..
T Consensus       140 ~~fg~~~~~~~ivv~t~~D~~~~  162 (257)
T d1h65a_         140 DSFGKGIWNKAIVALTHAQFSPP  162 (257)
T ss_dssp             HHHCGGGGGGEEEEEECCSCCCG
T ss_pred             HHcchhhhhCEEEEEECcccCCc
Confidence            22  2334689999999999763

>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=98.63  E-value=2.9e-07  Score=76.35  Aligned_cols=71  Identities=17%  Similarity=0.248  Sum_probs=39.3

Q ss_pred             CCCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHHHHHHH---HHHHH-H--HHHhcCCCEEEE
Q 023298          114 DDDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVTKFISG---CMASL-S--AMVQLELPHVNI  187 (284)
Q Consensus       114 ~~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~~~i~~---~l~~l-~--~~~~~~~p~IlV  187 (284)
                      ...+.++||||+...      ...+.+.+..  ..+.+++++|+..   ...++..   .+..+ .  ...+.+.|+++|
T Consensus        46 ~~~~~~~d~~g~~~~------~~~~~~~~~~--~~~~~i~v~D~~d---~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv  114 (207)
T d2fh5b1          46 GNSLTLIDLPGHESL------RFQLLDRFKS--SARAVVFVVDSAA---FQREVKDVAEFLYQVLIDSMALKNSPSLLIA  114 (207)
T ss_dssp             CCEEEEEECCCCHHH------HHHHHHHHGG--GEEEEEEEEETTT---HHHHHHHHHHHHHHHHHHHHTSTTCCEEEEE
T ss_pred             eeeeeeeeccccccc------cchhhhhhhh--hccccceEEEccc---ccccHHHHHHHHHHHHHhHHHhhcCCcEEEE
Confidence            346788999996431      1223333322  1367889999863   2222211   11111 1  112245789999


Q ss_pred             ecCCcccc
Q 023298          188 LSKMDLVT  195 (284)
Q Consensus       188 lNK~Dll~  195 (284)
                      .||+|+..
T Consensus       115 ~NK~Dl~~  122 (207)
T d2fh5b1         115 CNKQDIAM  122 (207)
T ss_dssp             EECTTSTT
T ss_pred             EECcccCC
Confidence            99999975

>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=98.24  E-value=2.8e-06  Score=69.50  Aligned_cols=40  Identities=10%  Similarity=0.070  Sum_probs=37.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      |..|+++|.| |||||++..|++++...|.++.++|.|.-.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D~~r   42 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQYR   42 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEccccee
Confidence            7889999999 999999999999999999999999998644

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal 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: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.15  E-value=1.1e-06  Score=76.88  Aligned_cols=99  Identities=17%  Similarity=0.187  Sum_probs=62.7

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLEDN  100 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~~  100 (284)
                      +=+||-| |||||+...|+.             .+|....+|+.                  .+-||-+++.+-+.   +
T Consensus         5 ~GivG~Pn~GKSTlf~~lt~-------------~~~~~~~ypf~------------------ti~pn~gvv~v~d~---r   50 (278)
T d1jala1           5 CGIVGLPNVGKSTLFNALTK-------------AGIEAANYPFC------------------TIEPNTGVVPMPDP---R   50 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHH-------------TC------CCC------------------CCCCCSSEEECCCH---H
T ss_pred             EEEECCCCCCHHHHHHHHHC-------------CCCccccCCCC------------------CCCCceEEEecccH---h
Confidence            6689999 999999999998             45555555552                  23377666554221   1


Q ss_pred             HHHHHHHHhhccC--CCCEEEEeCCCCccccc-ccchHHHHHHHHHhcCCCeEEEEEecCC
Q 023298          101 LDDWLAEELDNYL--DDDYLVFDCPGQIELFT-HVPVLRNFVDHLKSRNFNVCAVYLLDSQ  158 (284)
Q Consensus       101 ~~~~l~~~l~~~~--~~~~viiDtPg~~e~~~-~~~~~~~l~~~l~~~d~~~vil~LiDa~  158 (284)
                      + +++.+......  ..++-++|.||.++... ...+|++++++++.+   ++++|+||+.
T Consensus        51 ~-~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~g~Glg~~FL~~ir~~---d~LihVVr~f  107 (278)
T d1jala1          51 L-DALAEIVKPERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRET---DAIGHVVRCF  107 (278)
T ss_dssp             H-HHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGGTCCHHHHHHTC---SEEEEEEECS
T ss_pred             H-HHHHHhcCCCceeeeeEEEEEccccCCCcccCCCccHHHHHHHHhc---cceEEEeecc
Confidence            1 33333322111  34577999999988643 356678899999874   6899999874

>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=98.11  E-value=1.2e-05  Score=65.20  Aligned_cols=19  Identities=16%  Similarity=0.252  Sum_probs=17.4

Q ss_pred             eEEEEECCC-CcHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSL   38 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~L   38 (284)
                      ..++++|.+ |||||+...+
T Consensus         3 iKivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           3 VKILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            458999999 9999999998

>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=98.11  E-value=1.5e-06  Score=68.66  Aligned_cols=41  Identities=5%  Similarity=-0.067  Sum_probs=35.6

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAENF   61 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~~   61 (284)
                      ++.|+|++ ||||||+.+|+.+|..+|++|.++.-|+.....
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d~~~~~~   45 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDMDV   45 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC----
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEeccccccccc
Confidence            48899999 999999999999999999999999999987544

>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=98.03  E-value=2.9e-06  Score=76.85  Aligned_cols=66  Identities=15%  Similarity=0.164  Sum_probs=44.2

Q ss_pred             CCEEEEeCCCCcccccccchHHHHHHHHHhcCCCeEEEEEecCCCCCCHH-HHHHHHHHHHHHHHhcCCCEEEEecCCcc
Q 023298          115 DDYLVFDCPGQIELFTHVPVLRNFVDHLKSRNFNVCAVYLLDSQFITDVT-KFISGCMASLSAMVQLELPHVNILSKMDL  193 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~~~~~~~l~~~l~~~d~~~vil~LiDa~~~~~~~-~~i~~~l~~l~~~~~~~~p~IlVlNK~Dl  193 (284)
                      +.+-+|||||+....      ......+..   .+.++++||+...-.+. ..+.      ....+.++|.++|+||+|.
T Consensus        96 ~~inliDtPGh~dF~------~ev~~al~~---~D~allVVda~eGv~~qT~~~~------~~a~~~~~p~i~viNKiDr  160 (341)
T d1n0ua2          96 FLINLIDSPGHVDFS------SEVTAALRV---TDGALVVVDTIEGVCVQTETVL------RQALGERIKPVVVINKVDR  160 (341)
T ss_dssp             EEEEEECCCCCCSSC------HHHHHHHHT---CSEEEEEEETTTBSCHHHHHHH------HHHHHTTCEEEEEEECHHH
T ss_pred             eEEEEEcCCCcHHHH------HHHHHHHhh---cCceEEEEecccCcchhHHHHH------HHHHHcCCCeEEEEECccc
Confidence            346789999987633      234445544   46788899997653333 3232      2344678999999999997


Q ss_pred             cc
Q 023298          194 VT  195 (284)
Q Consensus       194 l~  195 (284)
                      ..
T Consensus       161 ~~  162 (341)
T d1n0ua2         161 AL  162 (341)
T ss_dssp             HH
T ss_pred             cc
Confidence            53

>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=98.00  E-value=7e-06  Score=66.35  Aligned_cols=25  Identities=16%  Similarity=0.246  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcccHHHHHHHHHHhc
Q 023298          240 VSFMPLDLRKESSIRYVLSQIDNCI  264 (284)
Q Consensus       240 ~~~ipiSa~~~~~l~~Ll~~I~~~l  264 (284)
                      ..++..||++|+|++.+++.|.+.+
T Consensus       170 ~~~~~tSAk~~~ni~~vF~~i~~~I  194 (200)
T d2bcjq2         170 IYSHFTCATDTENIRFVFAAVKDTI  194 (200)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             eEEEEeEEEcCHhHHHHHHHHHHHH
Confidence            3466789999999999998887654

>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=97.96  E-value=2.5e-05  Score=62.67  Aligned_cols=23  Identities=4%  Similarity=0.103  Sum_probs=19.3

Q ss_pred             eEEEEeccCcccHHHHHHHHHHh
Q 023298          241 SFMPLDLRKESSIRYVLSQIDNC  263 (284)
Q Consensus       241 ~~ipiSa~~~~~l~~Ll~~I~~~  263 (284)
                      -++..||++++|++.+++.+.+.
T Consensus       168 ~~~~tSA~~~~nv~~~F~~v~~~  190 (195)
T d1svsa1         168 YTHFTCATDTKNVQFVFDAVTDV  190 (195)
T ss_dssp             EEEECCTTCHHHHHHHHHHHHHH
T ss_pred             eeEEEEeECCHhHHHHHHHHHHH
Confidence            35668999999999999888765

>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=97.86  E-value=5.5e-06  Score=65.52  Aligned_cols=40  Identities=8%  Similarity=0.042  Sum_probs=37.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      .|+++||| |||||++..+++.|...|.+|.++..+|....
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~~~~~v~~~~~~~~~~~   43 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGFYTEEVRQG   43 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHTTCCCEEEECCEEETT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEecccccc
Confidence            48999999 99999999999999999999999999997664

>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=97.86  E-value=8.1e-06  Score=65.76  Aligned_cols=52  Identities=13%  Similarity=0.254  Sum_probs=42.8

Q ss_pred             hhhhhhccccc-ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298            5 LDLLCKGYMSW-LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus         5 ~~~~~~~~~~~-~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +|-|||--.+- -.+|.+|.|.|++ |||||+|..|++.+...+..+..++.|.
T Consensus         7 ~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~~~~   60 (198)
T d1rz3a_           7 IDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD   60 (198)
T ss_dssp             HHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             HHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHhccccccceeccccc
Confidence            57788766443 3467778899999 9999999999999999999988887663

>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=97.84  E-value=9.3e-06  Score=64.74  Aligned_cols=41  Identities=7%  Similarity=-0.048  Sum_probs=35.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      |+++-|+|+. ||||||..+|...|..+|.+|.+|--|+..-
T Consensus         1 Mkii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~d~~~~   42 (165)
T d1xjca_           1 MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGG   42 (165)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC---
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEeccCcc
Confidence            4567899999 9999999999999999999999998887654

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

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: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.81  E-value=1.1e-05  Score=71.02  Aligned_cols=100  Identities=18%  Similarity=0.293  Sum_probs=63.1

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC-cCCCCCCCCccccccccccHHHHhhhcCcccCchhhhhhHhhhh
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD-PAAENFDYPVAMDIRELISLEDVMEELGLGPNGGLIYCMEHLED   99 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD-Pq~~~~~~~~~~dir~~i~~~~vm~~~~lgPng~l~~~~e~~~~   99 (284)
                      +=++|.| ||||||...|+..             + |....+|+.                  .+-||-+.+.+-+.   
T Consensus        13 iGivG~Pn~GKSTlfnalT~~-------------~~~~~anypft------------------Ti~pn~g~v~v~d~---   58 (296)
T d1ni3a1          13 TGIVGMPNVGKSTFFRAITKS-------------VLGNPANYPYA------------------TIDPEEAKVAVPDE---   58 (296)
T ss_dssp             EEEEECSSSSHHHHHHHHHHS-------------TTTSTTCCSSC------------------CCCTTEEEEEECCH---
T ss_pred             EEEECCCCCCHHHHHHHHHCC-------------CCCCcCCCCcc------------------CccCCeEEEecccc---
Confidence            7799999 9999999999862             1 223334442                  22366555543221   


Q ss_pred             cHHHHHHHHhhc--cCCCCEEEEeCCCCcccc-cccchHHHHHHHHHhcCCCeEEEEEecCCC
Q 023298          100 NLDDWLAEELDN--YLDDDYLVFDCPGQIELF-THVPVLRNFVDHLKSRNFNVCAVYLLDSQF  159 (284)
Q Consensus       100 ~~~~~l~~~l~~--~~~~~~viiDtPg~~e~~-~~~~~~~~l~~~l~~~d~~~vil~LiDa~~  159 (284)
                      .+ +++.+....  .....+.++|.||.++.. ....+|++++.+++.+   ++++|+||+..
T Consensus        59 r~-~~l~~~~~~~~~~~~~i~~~DvaGLv~gA~~g~GLGn~fL~~ir~~---d~lihVV~~f~  117 (296)
T d1ni3a1          59 RF-DWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNAFLSHVRAV---DAIYQVVRAFD  117 (296)
T ss_dssp             HH-HHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCHHHHHHHTTC---SEEEEEEECCC
T ss_pred             ch-hhhhhcccCCceecccceeeeccccccccccccccHHHHHHHhhcc---ceeEEEEeccC
Confidence            11 222222211  113468899999998864 4456788999999763   68999998854

>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=97.73  E-value=5.2e-05  Score=63.50  Aligned_cols=21  Identities=10%  Similarity=0.021  Sum_probs=18.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLY   39 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La   39 (284)
                      .+.++++|.+ |||||+...+.
T Consensus         6 ~~KilllG~~~vGKTsll~~~~   27 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMR   27 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCEEEEECCCCCCHHHHHHHHh
Confidence            4568999999 99999998885

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {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 YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=97.69  E-value=1.6e-05  Score=69.17  Aligned_cols=82  Identities=10%  Similarity=0.201  Sum_probs=56.4

Q ss_pred             CCeEEEEEecCCCC-CCHHHHHHHHHHHHHHHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHH
Q 023298          147 FNVCAVYLLDSQFI-TDVTKFISGCMASLSAMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAK  225 (284)
Q Consensus       147 ~~~vil~LiDa~~~-~~~~~~i~~~l~~l~~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~  225 (284)
                      ..|+|++++|++.. ++.+..+..++       + ++|+|+|+||+|++..+ ....|.+                    
T Consensus        15 ~~DvIl~V~DaR~P~ss~~~~l~~~~-------~-~Kp~IlVlNK~DLv~~~-~~~~w~~--------------------   65 (273)
T d1puja_          15 LIDIVYELVDARIPMSSRNPMIEDIL-------K-NKPRIMLLNKADKADAA-VTQQWKE--------------------   65 (273)
T ss_dssp             GCSEEEEEEETTSTTTTSCHHHHHHC-------S-SSCEEEEEECGGGSCHH-HHHHHHH--------------------
T ss_pred             hCCEEEEEEECCCCCCCCCHHHHHHH-------c-CCCeEEEEECccCCchH-HHHHHHH--------------------
Confidence            35799999999854 44445444332       3 78999999999998755 4444431                    


Q ss_pred             HHHHHHHHHhccCCceEEEEeccCcccHHHHHHHHHHhcC
Q 023298          226 LNKSLIELVDEYSMVSFMPLDLRKESSIRYVLSQIDNCIQ  265 (284)
Q Consensus       226 l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~Ll~~I~~~l~  265 (284)
                             .+.. .....+++|+.++.+...+...+.+.++
T Consensus        66 -------~f~~-~~~~~i~isa~~~~~~~~~~~~~~~~l~   97 (273)
T d1puja_          66 -------HFEN-QGIRSLSINSVNGQGLNQIVPASKEILQ   97 (273)
T ss_dssp             -------HHHT-TTCCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             -------HHHh-cCCccceeecccCCCccccchhhhhhhh
Confidence                   1122 2356789999999998888777766554

>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=97.63  E-value=2.6e-05  Score=62.04  Aligned_cols=36  Identities=19%  Similarity=0.163  Sum_probs=32.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      |++++|.|++ |||||.+..|+++|...|.++..+..
T Consensus         1 mkiivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~~~   37 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINY   37 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEC
Confidence            4678899999 99999999999999999998877763

>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=97.60  E-value=2.1e-05  Score=62.33  Aligned_cols=36  Identities=11%  Similarity=0.091  Sum_probs=31.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ++|+|.|++ |||||+|..|++.|...+.++.++..+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~~   38 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   38 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEecC
Confidence            468999999 999999999999999998888877653

>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=97.60  E-value=0.00047  Score=59.60  Aligned_cols=29  Identities=14%  Similarity=-0.002  Sum_probs=24.0

Q ss_pred             cccccccCceEEEEECCC-CcHHHHHHHHHH
Q 023298           11 GYMSWLYALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        11 ~~~~~~~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      |-...+..|. ++|+|.- +||||+..+|..
T Consensus        19 g~~~~~~~P~-ivvvG~~SsGKSsliNaLlg   48 (299)
T d2akab1          19 GQNADLDLPQ-IAVVGGQSAGKSSVLENFVG   48 (299)
T ss_dssp             CCCTTCCCCE-EEEEEBTTSCHHHHHHHHHT
T ss_pred             CCCCCCCCCe-EEEEcCCCCCHHHHHHHHhC
Confidence            4456678887 8899999 999999999864

>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=97.52  E-value=0.0005  Score=57.09  Aligned_cols=48  Identities=13%  Similarity=0.213  Sum_probs=41.2

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ||-++.|   .+......+|.|++ |||||+|.+++..+.+.|.+|+.+.++
T Consensus        15 LD~~l~G---Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e   63 (242)
T d1tf7a2          15 LDEMCGG---GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYE   63 (242)
T ss_dssp             HHHHTTS---SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             HHHhhcC---CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeecc
Confidence            6666663   35567779999999 999999999999999999999999876

>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=97.51  E-value=2.6e-05  Score=63.38  Aligned_cols=26  Identities=19%  Similarity=0.368  Sum_probs=23.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .+|.+|+|+||+ |||||.|..||+.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            478889999999 99999999999976

>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=97.50  E-value=0.00012  Score=61.70  Aligned_cols=34  Identities=3%  Similarity=0.036  Sum_probs=26.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +.+|.|.- |||||+..++...  ..|+|+++|=-|-
T Consensus         5 v~iitGFLGaGKTTll~~lL~~--~~~~riaVI~Ne~   39 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEF   39 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS--CCCCCEEEECSSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc--CCCCcEEEEEecc
Confidence            47889987 9999998877663  4688998886664

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {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 PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.41  E-value=5.7e-06  Score=73.24  Aligned_cols=42  Identities=14%  Similarity=0.143  Sum_probs=20.2

Q ss_pred             CCEEEEeCCCCcccccc-cchHHHHHHHHHhcCCCeEEEEEecCCC
Q 023298          115 DDYLVFDCPGQIELFTH-VPVLRNFVDHLKSRNFNVCAVYLLDSQF  159 (284)
Q Consensus       115 ~~~viiDtPg~~e~~~~-~~~~~~l~~~l~~~d~~~vil~LiDa~~  159 (284)
                      .++.++|+||.++.... ...+++++.++   ...++++++||+..
T Consensus        71 ~~i~~~D~pGli~ga~~g~~~~~~~l~~i---~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDL---RMASALIHVVDATG  113 (319)
T ss_dssp             EEEEEEECC---------------CCCSS---TTCSEEEEEEETTC
T ss_pred             ccEEEEECCCcccchhcccchHHHHHHhh---ccceEEEEEecccc
Confidence            46899999998875421 22233333333   33578999999863

>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=97.41  E-value=0.00056  Score=52.49  Aligned_cols=21  Identities=19%  Similarity=0.270  Sum_probs=17.9

Q ss_pred             eEEEEECCC-CcHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~   40 (284)
                      ..|+++|++ |||||+++.|.+
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            458899999 999999988754

>d1jwyb_ c.37.1.8 (B:) Dynamin G 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: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.35  E-value=0.00056  Score=59.45  Aligned_cols=26  Identities=12%  Similarity=-0.012  Sum_probs=21.6

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHH
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      ..+.-|. ++|+|.- +||||+..+|..
T Consensus        20 ~~~~lP~-ivVvG~~ssGKSSliNaLlG   46 (306)
T d1jwyb_          20 DPLDLPQ-IVVVGSQSSGKSSVLENIVG   46 (306)
T ss_dssp             CTTCCCE-EEEEECSSSSHHHHHHHHHT
T ss_pred             CCCCCCe-EEEEeCCCCCHHHHHHHHhC
Confidence            4466676 8999999 999999998875

>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=97.35  E-value=4.4e-05  Score=60.05  Aligned_cols=24  Identities=8%  Similarity=0.038  Sum_probs=21.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++.|+|+||+ |||||+|..||+.+
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4569999999 99999999999975

>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=97.30  E-value=7e-05  Score=60.03  Aligned_cols=41  Identities=7%  Similarity=-0.133  Sum_probs=33.2

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      +..+|+++|++ |||||+++.|+..|...+.....++-|-..
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~~d~~~   59 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIR   59 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEECHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchhHHhhh
Confidence            45668999999 999999999999999887776666655433

>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=97.30  E-value=9.2e-05  Score=61.01  Aligned_cols=38  Identities=13%  Similarity=0.212  Sum_probs=32.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhc-----CCceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETV-----RRTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~-----g~~v~iVdLD   55 (284)
                      +|.+|.|.|+. |||||+|..|++.|...     +.+|.+|.+|
T Consensus         1 ~P~iIgI~G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D   44 (213)
T d1uj2a_           1 EPFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQD   44 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhchhccccCCCceEEEecc
Confidence            48889999999 99999999999988653     4578888887

>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=97.30  E-value=8.1e-05  Score=58.52  Aligned_cols=35  Identities=17%  Similarity=0.028  Sum_probs=27.1

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +.+.|+++||+ |||||+|..|++   +.|.+++.+|.|
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~---~lg~~~~~~~~d   38 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN---LPGVPKVHFHSD   38 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT---CSSSCEEEECTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH---HhCCCEEEecHH
Confidence            45679999999 999999988876   346666666655

>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=97.26  E-value=0.00014  Score=56.90  Aligned_cols=40  Identities=5%  Similarity=-0.068  Sum_probs=30.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCC-ceEEEecCcC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRR-TMHIVNLDPA   57 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~-~v~iVdLDPq   57 (284)
                      +..+|+++|++ |||||++..|++.|...+. .+..++.|..
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~~~~~   46 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTV   46 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhhhhHHh
Confidence            44668999999 9999999999999977543 4445554433

>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=97.25  E-value=5.6e-05  Score=58.16  Aligned_cols=22  Identities=18%  Similarity=0.138  Sum_probs=19.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      -|+++||+ |||||+++.||+.|
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38888999 99999999999965

>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=97.25  E-value=7.6e-05  Score=58.40  Aligned_cols=23  Identities=13%  Similarity=0.065  Sum_probs=20.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |. |+++||+ |||||+|..|++.+
T Consensus         5 ~~-I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PN-ILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CC-EEEECSTTSSHHHHHHHHHHHH
T ss_pred             CE-EEEECCCCCCHHHHHHHHHHHH
Confidence            45 7899999 99999999999854

>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=97.22  E-value=0.0001  Score=59.68  Aligned_cols=24  Identities=17%  Similarity=0.416  Sum_probs=22.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |..|+|+||| |||||.|..||+.+
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5679999999 99999999999976

>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=97.21  E-value=0.00012  Score=57.31  Aligned_cols=35  Identities=9%  Similarity=-0.014  Sum_probs=27.5

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +++|++.|++ |||||+++.|++.|   |.+...++.|.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l---~~~~~~~~~d~   38 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL---PEPWLAFGVDS   38 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS---SSCEEEEEHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc---CCCeEEeecch
Confidence            4568899999 99999999999954   55666666554

>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=97.20  E-value=8.4e-05  Score=58.98  Aligned_cols=24  Identities=21%  Similarity=0.164  Sum_probs=20.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +|+ ++++|++ |||||+++.||+.|
T Consensus         1 ~p~-IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           1 APK-AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             CCS-EEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCc-EEEECCCCCCHHHHHHHHHHHh
Confidence            477 6677999 99999999999876

>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=97.19  E-value=0.00012  Score=61.72  Aligned_cols=40  Identities=8%  Similarity=0.155  Sum_probs=32.2

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ..-..|.++++.||| |||||++..+|..+   +..+..||.|.
T Consensus        27 ~~~~~P~~ilL~GpPGtGKT~la~~la~~~---~~~~~~i~~d~   67 (273)
T d1gvnb_          27 KAVESPTAFLLGGQPGSGKTSLRSAIFEET---QGNVIVIDNDT   67 (273)
T ss_dssp             CCCSSCEEEEEECCTTSCTHHHHHHHHHHT---TTCCEEECTHH
T ss_pred             cCCCCCEEEEEECCCCCCHHHHHHHHHHHh---hcceEEEecHH
Confidence            355679999999999 99999999999855   45677777653

>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=97.18  E-value=0.00016  Score=64.19  Aligned_cols=40  Identities=15%  Similarity=0.083  Sum_probs=35.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHh--cCCceEEEecC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCET--VRRTMHIVNLD   55 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~--~g~~v~iVdLD   55 (284)
                      --.|++|.|.|+. |||||+|..|+..|++  .+.+|.+|.+|
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D  119 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTD  119 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGG
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeee
Confidence            3568999999999 9999999999999986  47899999998

>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=97.18  E-value=0.00053  Score=59.26  Aligned_cols=41  Identities=12%  Similarity=0.165  Sum_probs=35.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      ..-.+..+.||+ |||||+|..++....+.|.+|++||.--.
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~   93 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHA   93 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCC
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccc
Confidence            344568899999 99999999999999999999999997543

>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=97.16  E-value=0.00065  Score=58.86  Aligned_cols=48  Identities=17%  Similarity=0.252  Sum_probs=39.0

Q ss_pred             hhhhhh-cccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298            5 LDLLCK-GYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus         5 ~~~~~~-~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      ||.++- |   =+...++.-+.|++ |||||+|..++....+.|.+|++||.-
T Consensus        45 lD~~Lg~G---Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE   94 (268)
T d1xp8a1          45 LDLALGVG---GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAE   94 (268)
T ss_dssp             HHHHTSSS---SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHHhcCC---CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECC
Confidence            555543 3   24455678899999 999999999999999999999999965

>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=97.09  E-value=0.00016  Score=58.46  Aligned_cols=24  Identities=17%  Similarity=0.398  Sum_probs=20.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |++ ++++||| |||||.|..||+.+
T Consensus         3 ~~r-iil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVR-AVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCE-EEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccE-EEEECCCCCCHHHHHHHHHHHh
Confidence            445 6678999 99999999999965

>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=97.07  E-value=0.00013  Score=56.63  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=20.3

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +.++++||+ |||||++..|++.+
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999 99999999999854

>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=97.07  E-value=0.00027  Score=58.09  Aligned_cols=37  Identities=8%  Similarity=0.056  Sum_probs=31.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      |+|-|+- |||||.|..|+++|...|.++.++---|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~~ep~~   42 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETLEQLGIRDMVFTREPGG   42 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEecCCCC
Confidence            7778999 999999999999999999887766655643

>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=97.00  E-value=0.00016  Score=58.80  Aligned_cols=25  Identities=20%  Similarity=0.319  Sum_probs=22.3

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRH   41 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~   41 (284)
                      -++.+|+++||| |||||.|..|++.
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            467789999999 9999999999985

>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=96.98  E-value=0.00016  Score=58.43  Aligned_cols=25  Identities=12%  Similarity=0.226  Sum_probs=22.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .|-.|+|+||+ |||||.|..|++.+
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46669999999 99999999999976

>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=96.97  E-value=0.00023  Score=56.61  Aligned_cols=21  Identities=10%  Similarity=0.177  Sum_probs=19.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+|+||| |||||.|..||+.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8899999 99999999999976

>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=96.96  E-value=0.00027  Score=55.23  Aligned_cols=25  Identities=12%  Similarity=0.094  Sum_probs=22.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .+.+++++||+ |||||+++.|++.|
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            56778899999 99999999999976

>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=96.95  E-value=0.00033  Score=58.25  Aligned_cols=43  Identities=12%  Similarity=-0.083  Sum_probs=35.8

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecCcCCC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLDPAAE   59 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq~~   59 (284)
                      .++.+|+++|.+ |||||++..|+..|.. .++++..+|-|--..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR~   66 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIRF   66 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHHH
Confidence            467789999999 9999999999988854 678888888876444

>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=96.92  E-value=0.00042  Score=57.51  Aligned_cols=53  Identities=15%  Similarity=0.149  Sum_probs=40.4

Q ss_pred             eehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhc------CCceEEEecCcCC
Q 023298            3 RYLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETV------RRTMHIVNLDPAA   58 (284)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~------g~~v~iVdLDPq~   58 (284)
                      ..||.+|.|   -+..-..++|.||+ |||||+|.+++...+..      +.+++.++.....
T Consensus        23 ~~LD~ll~G---Glp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (254)
T d1pzna2          23 KSLDKLLGG---GIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTF   82 (254)
T ss_dssp             HHHHHHHTS---SEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCC
T ss_pred             HHHHHhhcC---CccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchh
Confidence            358888888   44555669999999 99999999999987643      4567777765543

>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=96.90  E-value=0.00028  Score=55.83  Aligned_cols=21  Identities=14%  Similarity=0.081  Sum_probs=19.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+++|++ |||||+++.||+.|
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7888999 99999999999987

>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=96.89  E-value=0.0017  Score=54.71  Aligned_cols=57  Identities=21%  Similarity=0.307  Sum_probs=40.3

Q ss_pred             HHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccC-CceEEEEeccCcccHHH
Q 023298          177 MVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYS-MVSFMPLDLRKESSIRY  255 (284)
Q Consensus       177 ~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~-~~~~ipiSa~~~~~l~~  255 (284)
                      ....+.|.++|+||+|+..++ +...+.                           +..+.+. ...++.+|+++++|++.
T Consensus        37 a~~~~i~pvIvlnK~DL~~~~-~~~~~~---------------------------~~~~~~~~~~~v~~vSa~~~~g~~~   88 (225)
T d1u0la2          37 AEKNELETVMVINKMDLYDED-DLRKVR---------------------------ELEEIYSGLYPIVKTSAKTGMGIEE   88 (225)
T ss_dssp             HHHTTCEEEEEECCGGGCCHH-HHHHHH---------------------------HHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             HHHcCCCEEEEEeCcccCCHH-HHHHHH---------------------------HhhcccccceeEEEeccccchhHhh
Confidence            346789999999999998654 333332                           1112222 25789999999999999


Q ss_pred             HHHHHH
Q 023298          256 VLSQID  261 (284)
Q Consensus       256 Ll~~I~  261 (284)
                      |...+.
T Consensus        89 L~~~l~   94 (225)
T d1u0la2          89 LKEYLK   94 (225)
T ss_dssp             HHHHHS
T ss_pred             HHHHhc
Confidence            988664

>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=96.87  E-value=0.00019  Score=57.89  Aligned_cols=24  Identities=13%  Similarity=0.080  Sum_probs=21.1

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      -+|..++++|++ |||||++..++.
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            578899999999 999999988754

>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=96.87  E-value=0.00028  Score=57.19  Aligned_cols=25  Identities=20%  Similarity=0.445  Sum_probs=21.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +..+++++||+ |||||.|..|++.+
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45569999999 99999999999965

>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=96.85  E-value=0.00032  Score=56.22  Aligned_cols=21  Identities=10%  Similarity=0.214  Sum_probs=19.7

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+++||| |||||.|..||+.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7899999 99999999999976

>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=96.83  E-value=0.00058  Score=55.41  Aligned_cols=34  Identities=9%  Similarity=0.126  Sum_probs=30.5

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .|+|-|+- |||||++..|+++|..+|.+|.++.-
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~   36 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            37889998 99999999999999999999988753

>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=96.81  E-value=0.00029  Score=55.11  Aligned_cols=22  Identities=5%  Similarity=0.087  Sum_probs=19.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .|+++||+ |||||+|..|++.+
T Consensus         7 ~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           7 NILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHh
Confidence            49999999 99999999999854

>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=96.77  E-value=0.00037  Score=55.65  Aligned_cols=21  Identities=19%  Similarity=0.327  Sum_probs=19.9

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+++||+ |||||.|..|++.+
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8899999 99999999999987

>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=96.76  E-value=0.00036  Score=56.84  Aligned_cols=23  Identities=22%  Similarity=0.431  Sum_probs=20.1

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRH   41 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~   41 (284)
                      .++ ++++||| |||||.|..||+.
T Consensus         6 ~mr-IiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           6 LLR-AAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CCE-EEEECCTTSSHHHHHHHHHHH
T ss_pred             cee-EEEECCCCCCHHHHHHHHHHH
Confidence            444 8889999 9999999999995

>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=96.69  E-value=0.00051  Score=54.98  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=20.2

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++ |+|+||+ |||||.|..||+.+
T Consensus         3 mr-Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IR-MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CE-EEEECCTTSSHHHHHHHHHHHH
T ss_pred             eE-EEEECCCCCCHHHHHHHHHHHh
Confidence            44 7788999 99999999999965

>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=96.65  E-value=0.00052  Score=60.18  Aligned_cols=39  Identities=13%  Similarity=-0.029  Sum_probs=33.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +..+|-|.|+. |||||+|..|.+.+.+.|.++.+|..|-
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Ds   42 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDA   42 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCC
Confidence            34468999999 9999999999999999999999999884

>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=96.62  E-value=0.0028  Score=54.79  Aligned_cols=41  Identities=7%  Similarity=0.127  Sum_probs=35.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      +...++..+.|++ +||||+|..++......|.+|+.||.--
T Consensus        57 ~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~   98 (269)
T d1mo6a1          57 LPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEH   98 (269)
T ss_dssp             BCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             cccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCc
Confidence            4556678999999 9999999999999999999999999644

>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=96.57  E-value=0.00074  Score=55.21  Aligned_cols=42  Identities=10%  Similarity=-0.062  Sum_probs=33.9

Q ss_pred             ehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCc
Q 023298            4 YLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRT   48 (284)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~   48 (284)
                      .||-+..|   ++..-...+|.|++ +||||+|..++..++..+..
T Consensus        22 ~LD~ll~G---Gl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~   64 (258)
T d2i1qa2          22 ELDSVLGG---GLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL   64 (258)
T ss_dssp             HHHHHTTS---SEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGE
T ss_pred             HHHHhcCC---CccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCC
Confidence            47777766   56666779999999 99999999999988765543

>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=96.55  E-value=0.0015  Score=55.47  Aligned_cols=50  Identities=12%  Similarity=0.072  Sum_probs=38.7

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHH-hcCCceEEEecCcCC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCE-TVRRTMHIVNLDPAA   58 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~-~~g~~v~iVdLDPq~   58 (284)
                      ||-++.|+.    +--.++|.|++ +||||++.+++..++ ..|.+|+++.+.-..
T Consensus        25 lD~~~~G~~----~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~~~   76 (277)
T d1cr2a_          25 INDKTLGAR----GGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESV   76 (277)
T ss_dssp             HHHHHCSBC----TTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCH
T ss_pred             HHHHhcCCC----CCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeeccch
Confidence            566666643    23458899999 999999999998765 579999999987443

>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=96.52  E-value=0.0015  Score=53.91  Aligned_cols=36  Identities=11%  Similarity=0.072  Sum_probs=31.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      .|+|-|+- |||||.+..|+++|..+|.+|.++. -|+
T Consensus         5 lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~-~p~   41 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR-FPE   41 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE-SSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe-CCC
Confidence            46677999 9999999999999999999998876 444

>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=96.52  E-value=0.00068  Score=53.93  Aligned_cols=21  Identities=10%  Similarity=0.213  Sum_probs=19.3

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+|+||+ |||||.|..|++.+
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7889999 99999999999865

>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=96.50  E-value=0.00075  Score=53.44  Aligned_cols=21  Identities=14%  Similarity=0.002  Sum_probs=19.1

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+++|++ |||||+++.||+.|
T Consensus         5 Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999 99999999999866

>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=96.46  E-value=0.0014  Score=57.25  Aligned_cols=40  Identities=13%  Similarity=0.205  Sum_probs=32.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhc---CCceEEEecCc
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETV---RRTMHIVNLDP   56 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~---g~~v~iVdLDP   56 (284)
                      -+|.+|-|-|+. |||||+|..|...|.++   +.+|.+|-+|-
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Dd   68 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDD   68 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGG
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCC
Confidence            458888899999 99999999999998763   45688887764

>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=96.44  E-value=0.00091  Score=54.69  Aligned_cols=25  Identities=12%  Similarity=0.162  Sum_probs=20.7

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +..|.|-||+ |||||.|..||+.|.
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3346677999 999999999999763

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.42  E-value=0.0017  Score=53.89  Aligned_cols=41  Identities=7%  Similarity=0.012  Sum_probs=31.6

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHh-cCCceEEEecCcC
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCET-VRRTMHIVNLDPA   57 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~-~g~~v~iVdLDPq   57 (284)
                      ..|..+++.||+ +||||++..+++.+.. .+.++..++....
T Consensus        41 ~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~   83 (276)
T d1fnna2          41 HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIY   83 (276)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTC
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhh
Confidence            456789999999 9999999999999865 4455655555443

>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=96.42  E-value=0.00095  Score=54.19  Aligned_cols=23  Identities=13%  Similarity=0.374  Sum_probs=20.5

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +|+|.||| |||||.|+.|++.+.
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            58888999 999999999999763

>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=96.34  E-value=0.0011  Score=51.99  Aligned_cols=24  Identities=8%  Similarity=0.113  Sum_probs=22.1

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhc
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETV   45 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~   45 (284)
                      ++++||+ |||||+++.++..+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            8999999 99999999999998754

>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=96.21  E-value=0.0026  Score=51.59  Aligned_cols=51  Identities=10%  Similarity=0.032  Sum_probs=38.3

Q ss_pred             ehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHH-HHhcCCceEEEecCcC
Q 023298            4 YLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRH-CETVRRTMHIVNLDPA   57 (284)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~-l~~~g~~v~iVdLDPq   57 (284)
                      -||-++.|   -+..-...+|.|++ +||||+|.+++.. +...+.+++++..+..
T Consensus        14 ~LD~~l~G---Gi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~   66 (242)
T d1tf7a1          14 GFDDISHG---GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEET   66 (242)
T ss_dssp             THHHHTTS---SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             HHHHhhcC---CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCC
Confidence            36666653   25566779999999 9999999998775 4556789999888643

>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=96.16  E-value=0.0013  Score=53.79  Aligned_cols=53  Identities=19%  Similarity=0.224  Sum_probs=39.2

Q ss_pred             ehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHH------hcCCceEEEecCcCCC
Q 023298            4 YLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCE------TVRRTMHIVNLDPAAE   59 (284)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~------~~g~~v~iVdLDPq~~   59 (284)
                      .||-++.|   =|..-..++|.|++ |||||+|..++...+      ..|.+++.++......
T Consensus        22 ~LD~ll~G---Gi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~   81 (251)
T d1szpa2          22 NLDTLLGG---GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFR   81 (251)
T ss_dssp             HHHHHHTS---SEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCC
T ss_pred             HHHhhhCC---CCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHH
Confidence            46777766   23444569999999 999999999987643      2466888888866654

>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=96.12  E-value=0.0011  Score=52.50  Aligned_cols=41  Identities=22%  Similarity=0.303  Sum_probs=30.9

Q ss_pred             eehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhcC
Q 023298            3 RYLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETVR   46 (284)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g   46 (284)
                      +-||-+..|   .+..-..+.|.||+ |||||+|.+++...+..+
T Consensus        10 ~~LD~ll~G---Gi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~   51 (242)
T d1n0wa_          10 KELDKLLQG---GIETGSITEMFGEFRTGKTQICHTLAVTCQLPI   51 (242)
T ss_dssp             HHHHHHTTT---SEETTSEEEEECCTTSSHHHHHHHHHHHTTSCG
T ss_pred             HHHHHhhcC---CCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhh
Confidence            457777765   33334458999999 999999999998876543

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {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 YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=96.11  E-value=0.0029  Score=54.30  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=19.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      .+..++|+|.| |||||+...|..
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CceEEEEEecCccchhhhhhhhhc
Confidence            45669999999 999999998864

>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=96.07  E-value=0.0032  Score=51.74  Aligned_cols=53  Identities=11%  Similarity=0.156  Sum_probs=38.2

Q ss_pred             eehhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHhc------CCceEEEecCcCC
Q 023298            3 RYLDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCETV------RRTMHIVNLDPAA   58 (284)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~------g~~v~iVdLDPq~   58 (284)
                      ..||-++.|   .+-.-..++|.|++ +||||+|.+++......      +..+..++..+..
T Consensus        24 ~~LD~~lgG---Gip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (258)
T d1v5wa_          24 QEFDKLLGG---GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTF   83 (258)
T ss_dssp             HHHHHHTTS---SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCC
T ss_pred             HHHHHhhcC---CCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHH
Confidence            347888876   46666779999999 99999999999876543      2345555554443

>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=95.95  E-value=0.0015  Score=54.23  Aligned_cols=29  Identities=10%  Similarity=-0.030  Sum_probs=25.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVR   46 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g   46 (284)
                      ||+.|+|=|+- |||||+|..|+++|...+
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~~~   30 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPEWH   30 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTTSE
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhhcC
Confidence            79999999998 999999999999886543

>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=95.93  E-value=0.0015  Score=55.40  Aligned_cols=60  Identities=13%  Similarity=0.261  Sum_probs=37.5

Q ss_pred             HHHhcCCCEEEEecCCccccchhhhhhhcCcchHHHHHHhhhcchhHHHHHHHHHHHHHhccCCceEEEEeccCcccHHH
Q 023298          176 AMVQLELPHVNILSKMDLVTNKKEIEDYLNPESQFLLSELNQHMAPQFAKLNKSLIELVDEYSMVSFMPLDLRKESSIRY  255 (284)
Q Consensus       176 ~~~~~~~p~IlVlNK~Dll~~~~~l~~~l~~~~~~l~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~ipiSa~~~~~l~~  255 (284)
                      .....+.|.++|+||+|+..++ +.+++++                       .+.+.....+ ..++.+|+++++|++.
T Consensus        36 ~a~~~~i~pvIvlnK~DL~~~~-~~~~~~~-----------------------~~~~~y~~~g-~~v~~~Sa~~~~gl~~   90 (231)
T d1t9ha2          36 LVEANDIQPIICITKMDLIEDQ-DTEDTIQ-----------------------AYAEDYRNIG-YDVYLTSSKDQDSLAD   90 (231)
T ss_dssp             HHHTTTCEEEEEEECGGGCCCH-HHHHHHH-----------------------HHHHHHHHHT-CCEEECCHHHHTTCTT
T ss_pred             HHHHcCCCEEEEEecccccccH-HHHHHHH-----------------------HHHHHHhhcc-ccceeeecCChhHHHH
Confidence            3446789999999999998755 3333321                       0001111112 5788889888888887


Q ss_pred             HHHHH
Q 023298          256 VLSQI  260 (284)
Q Consensus       256 Ll~~I  260 (284)
                      |.+.+
T Consensus        91 L~~~l   95 (231)
T d1t9ha2          91 IIPHF   95 (231)
T ss_dssp             TGGGG
T ss_pred             HHHhh
Confidence            76544

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

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

Probab=95.86  E-value=0.0041  Score=53.11  Aligned_cols=35  Identities=6%  Similarity=0.082  Sum_probs=28.1

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..|+++++.||+ +|||+++..+|..+   |.+++.|+.
T Consensus        43 ~~~~~iLL~GppGtGKT~la~~iA~~~---~~~~~~i~~   78 (256)
T d1lv7a_          43 KIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISG   78 (256)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCEEEECS
T ss_pred             CCCCeEEeeCCCCCCccHHHHHHHHHc---CCCEEEEEh
Confidence            357889999999 99999999999865   555555554

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.85  E-value=0.003  Score=52.38  Aligned_cols=34  Identities=3%  Similarity=0.019  Sum_probs=30.8

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      +++.||+ ||||.++.++++.+...++++..+++.
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~   73 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   73 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHhccCccceEEechH
Confidence            7899999 999999999999999999988888654

>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=95.83  E-value=0.0024  Score=57.47  Aligned_cols=35  Identities=20%  Similarity=0.152  Sum_probs=29.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      -+++++++.||| +||||+|..++..+   |.+++-||.
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~---~~~~i~in~  187 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC---GGKALNVNL  187 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH---CCEEECCSS
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEEC
Confidence            567799999999 99999999999965   456666664

>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=95.74  E-value=0.0043  Score=51.45  Aligned_cols=34  Identities=12%  Similarity=0.169  Sum_probs=27.4

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      ..+++.||+ +||||++..+|+.   .+..+..+|...
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~---~~~~~~~~~~~~   87 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQE---LGYDILEQNASD   87 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH---TTCEEEEECTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH---HHhhhhcccccc
Confidence            468999999 9999999999985   456677777643

>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=95.74  E-value=0.0051  Score=52.01  Aligned_cols=34  Identities=12%  Similarity=0.175  Sum_probs=26.2

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..++.+++.||+ ||||+++..+|..+   |.+++-++
T Consensus        38 ~p~~~vLL~GppGtGKT~la~alA~~~---~~~~~~i~   72 (246)
T d1d2na_          38 TPLVSVLLEGPPHSGKTALAAKIAEES---NFPFIKIC   72 (246)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEE
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHhhcc---cccccccc
Confidence            356789999999 99999999999854   44444443

>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=95.71  E-value=0.0045  Score=52.46  Aligned_cols=35  Identities=9%  Similarity=0.033  Sum_probs=27.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ..|+++++.||+ +|||++++.+|..   .|.+++.||.
T Consensus        40 ~~~~giLl~GppGtGKT~la~aia~~---~~~~~~~i~~   75 (247)
T d1ixza_          40 RIPKGVLLVGPPGVGKTHLARAVAGE---ARVPFITASG   75 (247)
T ss_dssp             CCCSEEEEECCTTSSHHHHHHHHHHH---TTCCEEEEEH
T ss_pred             CCCceEEEecCCCCChhHHHHHHHHH---cCCCEEEEEh
Confidence            346789999999 9999999999974   4566665543

>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=95.67  E-value=0.0045  Score=54.05  Aligned_cols=34  Identities=9%  Similarity=0.052  Sum_probs=26.7

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .|.++++.||+ ||||++|+.+|+.+   +.....+|+
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~---~~~~~~i~~   82 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEA   82 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEG
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhcc---ccchhcccc
Confidence            46789999999 99999999999965   344444444

>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=95.61  E-value=0.0061  Score=51.17  Aligned_cols=50  Identities=12%  Similarity=0.147  Sum_probs=35.9

Q ss_pred             hhhhhhcccccccCceEEEEECCC-CcHHHHHHHHHHHHHh----------cCCceEEEecCcCC
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPP-PNQSTYCSSLYRHCET----------VRRTMHIVNLDPAA   58 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l~~----------~g~~v~iVdLDPq~   58 (284)
                      +|.+..|+.   .| ...+|.|++ +||||++..+|..++.          .+.+|++++.+-..
T Consensus        19 ~d~li~G~~---pg-~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~   79 (274)
T d1nlfa_          19 LDYVLPNMV---AG-TVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPP   79 (274)
T ss_dssp             CCEEETTEE---TT-SEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCH
T ss_pred             HHHHhCCcc---CC-cEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchH
Confidence            345556654   34 357899999 9999999999998764          23478888775543

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

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

Probab=95.50  E-value=0.0064  Score=51.59  Aligned_cols=35  Identities=9%  Similarity=0.199  Sum_probs=27.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ...|+++++.||+ +|||+++..+|..   .+.+++.++
T Consensus        35 ~~~~~giLL~GppGtGKT~l~~ala~~---~~~~~~~i~   70 (258)
T d1e32a2          35 VKPPRGILLYGPPGTGKTLIARAVANE---TGAFFFLIN   70 (258)
T ss_dssp             CCCCCEEEEECCTTSSHHHHHHHHHHH---TTCEEEEEC
T ss_pred             CCCCceeEEecCCCCCchHHHHHHHHH---hCCeEEEEE
Confidence            3458899999999 9999999999985   455555554

>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=95.48  E-value=0.0021  Score=51.51  Aligned_cols=29  Identities=7%  Similarity=-0.104  Sum_probs=24.6

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++--+|..|+|-|+- |||||++..|++++
T Consensus         4 ~~~~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           4 AEGTQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             TTTCCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             cCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            445678889999999 99999999998865

>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=95.33  E-value=0.0042  Score=51.36  Aligned_cols=24  Identities=21%  Similarity=0.330  Sum_probs=20.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +..+++.||+ +||||++..+|..+
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4568999999 99999999999854

>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=95.25  E-value=0.0046  Score=51.01  Aligned_cols=30  Identities=13%  Similarity=0.284  Sum_probs=23.5

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      .+++.||+ +||||++..+++.+   +.....+|
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~~---~~~~~~~~   67 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASEL---QTNIHVTS   67 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH---TCCEEEEE
T ss_pred             eEEEECCCCCcHHHHHHHHHhcc---CCCccccc
Confidence            48899999 99999999999864   44455444

>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=95.16  E-value=0.0057  Score=48.77  Aligned_cols=33  Identities=18%  Similarity=0.165  Sum_probs=23.9

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCc
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDP   56 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDP   56 (284)
                      .|.+|-|.|+. |||||+|..|.    +.|.++  ++.|-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~----~~g~~~--~~~D~   35 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR----SWGYPV--LDLDA   35 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH----HTTCCE--EEHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH----HCCCeE--EEccH
Confidence            37778899999 99999887664    456554  45543

>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=95.16  E-value=0.0056  Score=48.64  Aligned_cols=22  Identities=18%  Similarity=0.221  Sum_probs=19.0

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .++++||+ |||||++..|.+..
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48899999 99999999887743

>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=95.14  E-value=0.0072  Score=49.35  Aligned_cols=35  Identities=14%  Similarity=0.188  Sum_probs=26.2

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAEN   60 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~~   60 (284)
                      ++|.|+|+. |||||.|..|    ...|.  .++|+|--+..
T Consensus         4 ~iIgitG~igSGKStv~~~l----~~~G~--~vidaD~i~~~   39 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAF----ADLGI--NVIDADIIARQ   39 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHH----HHTTC--EEEEHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHH----HHCCC--cEEEchHHHHH
Confidence            567899999 9999988755    45564  57788766653

>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=95.14  E-value=0.0082  Score=54.35  Aligned_cols=36  Identities=25%  Similarity=0.291  Sum_probs=30.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      .++|.||. |||||+...+-+++...+++++.|- ||-
T Consensus       160 liLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiE-dPi  196 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQELNSSERNILTVE-DPI  196 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEE-SSC
T ss_pred             eEEEEcCCCCCccHHHHHHhhhhcCCCceEEEec-cCc
Confidence            36789999 9999999999999877778888887 664

>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=95.12  E-value=0.0015  Score=53.80  Aligned_cols=29  Identities=17%  Similarity=0.209  Sum_probs=24.8

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVR   46 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g   46 (284)
                      +++.|+|-|+- |||||+|..|+++|...+
T Consensus         1 ~~k~I~ieG~dGsGKST~~~~L~~~l~~~~   30 (241)
T d1p5zb_           1 RIKKISIEGNIAAGKSTFVNILKQLCEDWE   30 (241)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGCTTEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHhcCC
Confidence            35679999999 999999999999886544

>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=95.10  E-value=0.0067  Score=51.37  Aligned_cols=38  Identities=11%  Similarity=0.132  Sum_probs=26.3

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHh-cC---CceEEEec
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCET-VR---RTMHIVNL   54 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~-~g---~~v~iVdL   54 (284)
                      |..||  .+|+|+| |||||++.....+|.. .+   .+++++-.
T Consensus        12 ~~~~~--~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~   54 (306)
T d1uaaa1          12 FVTGP--CLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTF   54 (306)
T ss_dssp             CCSSE--EEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEES
T ss_pred             CCCCC--EEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeC
Confidence            55677  4688999 9999887776666643 33   36777654

>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=94.99  E-value=0.0072  Score=48.68  Aligned_cols=22  Identities=18%  Similarity=0.323  Sum_probs=19.5

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      |+|+||+ |||||++..|++.+.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            7899999 999999999988653

>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=94.95  E-value=0.0062  Score=50.30  Aligned_cols=34  Identities=12%  Similarity=0.149  Sum_probs=23.9

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .+++.||+ +||||++..+++.+...+.....++.
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~   69 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDV   69 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHHHSCTTCCC-----
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcCcccccccccc
Confidence            48899999 99999999999987554444444443

>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=94.85  E-value=0.0068  Score=49.75  Aligned_cols=24  Identities=21%  Similarity=0.133  Sum_probs=21.7

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      .+++.||+ +||||++..+|+.+..
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l~~   71 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARELFG   71 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHh
Confidence            48999999 9999999999998764

>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=94.80  E-value=0.01  Score=53.18  Aligned_cols=39  Identities=21%  Similarity=0.077  Sum_probs=32.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+.++|+|+. ||||++...+...+...|.+++++  ||.++
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iii--D~kge   89 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIV--DPNGD   89 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEE--EETTH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEE--eCChh
Confidence            3558999999 999999999988888889888887  56665

>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=94.70  E-value=0.0086  Score=49.51  Aligned_cols=31  Identities=10%  Similarity=0.069  Sum_probs=27.2

Q ss_pred             ccccccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           12 YMSWLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        12 ~~~~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +...-.++.++++.||| +|||++|..|...|
T Consensus        46 ~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          46 FLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            34456889999999999 99999999999987

>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=94.60  E-value=0.059  Score=43.71  Aligned_cols=26  Identities=12%  Similarity=-0.042  Sum_probs=22.7

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      |-++++.||+ +||||++..+|++|-.
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~   50 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLC   50 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhccc
Confidence            4458999999 9999999999998853

>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=94.56  E-value=0.0095  Score=47.64  Aligned_cols=21  Identities=19%  Similarity=0.325  Sum_probs=18.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHH
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l   42 (284)
                      |+|+||+ |||||++..|++..
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999 99999999997743

>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=94.52  E-value=0.029  Score=43.40  Aligned_cols=34  Identities=9%  Similarity=0.240  Sum_probs=31.2

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      +.-+++||= |||||-....+..+...|++|++++
T Consensus         8 ~l~lI~GpMfSGKTteLi~~~~~~~~~g~~vl~i~   42 (141)
T d1xx6a1           8 WVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFK   42 (141)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeccccHHHHHHHHHHHHhhhcCCcEEEEE
Confidence            567899999 9999999999999999999999987

>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=94.46  E-value=0.013  Score=49.83  Aligned_cols=33  Identities=9%  Similarity=0.264  Sum_probs=26.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      .++++++.||+ +|||+++.++|..+   |.+.+.++
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~~~~~   73 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIK   73 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHHT---TCEEEEEC
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHHh---CCcEEEEE
Confidence            46789999999 99999999999965   45554444

>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=94.46  E-value=0.015  Score=47.65  Aligned_cols=37  Identities=14%  Similarity=0.056  Sum_probs=28.4

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+++|.||+ +||||++..++.   ..+.....+++-....
T Consensus        30 ~~i~i~G~~G~GKTsLl~~~~~---~~~~~~~~i~~~~~~~   67 (283)
T d2fnaa2          30 PITLVLGLRRTGKSSIIKIGIN---ELNLPYIYLDLRKFEE   67 (283)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH---HHTCCEEEEEGGGGTT
T ss_pred             CEEEEEcCCCCcHHHHHHHHHH---HCCCCeEEEEeccccc
Confidence            468899999 999999988765   4567778887754443

>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=94.33  E-value=0.019  Score=48.93  Aligned_cols=40  Identities=0%  Similarity=-0.085  Sum_probs=26.5

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcC----CceEEEecCc
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVR----RTMHIVNLDP   56 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g----~~v~iVdLDP   56 (284)
                      |..||  ++|.|+| |||||...+-..+|...+    .+++++-.-.
T Consensus        22 ~~~g~--~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~   66 (318)
T d1pjra1          22 TTEGP--LLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTN   66 (318)
T ss_dssp             CCSSC--EEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSH
T ss_pred             CCCCC--EEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccH
Confidence            34566  6788999 999988877666665433    3566664433

>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=94.30  E-value=0.01  Score=49.07  Aligned_cols=24  Identities=8%  Similarity=-0.002  Sum_probs=20.6

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      ++++.||+ +||||++..+++.|..
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~~   72 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVSE   72 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHh
Confidence            34567999 9999999999999864

>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=94.29  E-value=0.024  Score=46.43  Aligned_cols=24  Identities=8%  Similarity=0.135  Sum_probs=21.9

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      -++++|+| ||||+++..||.-+..
T Consensus        45 n~lLvG~pGVGKTalv~~LA~ri~~   69 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHHHHHh
Confidence            48999999 9999999999998875

>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=94.28  E-value=0.012  Score=48.08  Aligned_cols=25  Identities=12%  Similarity=0.001  Sum_probs=22.0

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVR   46 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g   46 (284)
                      +++.||+ +||||++..+++.+....
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~~~~   64 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELLGRS   64 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCCCchhhHHHHHHHHhccc
Confidence            7899999 999999999999886543

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.10  E-value=0.013  Score=47.77  Aligned_cols=25  Identities=16%  Similarity=0.267  Sum_probs=21.7

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVR   46 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g   46 (284)
                      +++.||+ +||||++..+++.+....
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l~~~~   63 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREIYGKN   63 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTS
T ss_pred             EEEECCCCCChhHHHHHHHHHhhcCC
Confidence            7899999 999999999999876443

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=94.07  E-value=0.034  Score=48.40  Aligned_cols=35  Identities=9%  Similarity=-0.002  Sum_probs=27.9

Q ss_pred             cCce-EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALV-IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~-~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .+|. .++++||+ ||||.+++.||+.+   +.+.+.+|+
T Consensus        49 ~~p~~~~lf~Gp~GvGKT~lak~la~~l---~~~~i~~d~   85 (315)
T d1r6bx3          49 HKPVGSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDM   85 (315)
T ss_dssp             TSCSEEEEEECSTTSSHHHHHHHHHHHH---TCEEEEEEG
T ss_pred             CCCceEEEEECCCcchhHHHHHHHHhhc---cCCeeEecc
Confidence            4555 47799999 99999999999976   456666775

>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=93.88  E-value=0.017  Score=46.03  Aligned_cols=20  Identities=5%  Similarity=0.041  Sum_probs=17.8

Q ss_pred             EEEEECCC-CcHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~   40 (284)
                      .++++||. |||||++..|.+
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            48899999 999999988776

>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=93.87  E-value=0.018  Score=46.94  Aligned_cols=32  Identities=13%  Similarity=0.274  Sum_probs=24.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHh---cCCceEEEe
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCET---VRRTMHIVN   53 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~---~g~~v~iVd   53 (284)
                      +++.||+ +||||++..+++.+..   .+....-+|
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~   71 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN   71 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC
T ss_pred             EEEECCCCCChHHHHHHHHHHHcCCcccccchhhee
Confidence            7899999 9999999999998753   234444444

>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=93.86  E-value=0.098  Score=42.27  Aligned_cols=26  Identities=8%  Similarity=-0.114  Sum_probs=22.8

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      +..+++.||+ +||||++..+++++..
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~   41 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEK   41 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhc
Confidence            3348999999 9999999999999865

>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=93.79  E-value=0.016  Score=46.95  Aligned_cols=34  Identities=15%  Similarity=0.136  Sum_probs=24.2

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++|-|+|+. |||||.|..|    .+.|..  ++|+|--+.
T Consensus         3 ~iIgITG~igSGKStv~~~l----~~~G~~--vidaD~i~~   37 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF----TDLGVP--LVDADVVAR   37 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH----HTTTCC--EEEHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH----HHCCCe--EEEchHHHH
Confidence            457799999 9999987655    445654  567775443

>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=93.56  E-value=0.022  Score=48.47  Aligned_cols=24  Identities=8%  Similarity=0.052  Sum_probs=20.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      -+++.|.|+| +||||+++.+.+..
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhh
Confidence            3568899999 99999999998753

>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=93.40  E-value=0.051  Score=46.46  Aligned_cols=25  Identities=4%  Similarity=-0.072  Sum_probs=22.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhc
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETV   45 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~   45 (284)
                      -++++|+| ||||+++..||.-+...
T Consensus        41 n~lLVG~~GvGKTalv~~la~ri~~~   66 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAWRIVQG   66 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CcEEECCCCCcHHHHHHHHHHHHHhC
Confidence            48899999 99999999999988753

>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=93.24  E-value=0.18  Score=41.81  Aligned_cols=30  Identities=13%  Similarity=0.053  Sum_probs=24.1

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHH--HHHhcCCc
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYR--HCETVRRT   48 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~--~l~~~g~~   48 (284)
                      .+.++|.||- +||||+.+.++-  +|++.|..
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~   73 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALMAYIGSY   73 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCC
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHHHHcCCe
Confidence            4668999999 999999987765  46777763

>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=93.08  E-value=0.031  Score=51.19  Aligned_cols=34  Identities=9%  Similarity=0.046  Sum_probs=27.9

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |.-++++||. ||||-++++||..+   +-+...+|.-
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l---~VPFv~~daT   83 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEAT   83 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGG
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh---CCCEEEeecc
Confidence            4569999999 99999999999965   5666777653

>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=93.03  E-value=0.071  Score=40.58  Aligned_cols=34  Identities=15%  Similarity=0.220  Sum_probs=30.6

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      +.-+++||= |||||-....+..+...|++|++++
T Consensus         3 ~L~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ik   37 (133)
T d1xbta1           3 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIK   37 (133)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEEEecccCHHHHHHHHHHHHHHHcCCcEEEEe
Confidence            346889999 9999999999999888999999997

>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=93.03  E-value=0.03  Score=45.75  Aligned_cols=21  Identities=19%  Similarity=0.347  Sum_probs=18.6

Q ss_pred             EEEEECCC-CcHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRH   41 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~   41 (284)
                      .++|+||+ |||||+...|.+.
T Consensus         4 livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            48899999 9999999988873

>d2jfga1 c.5.1.1 (A:1-93) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=92.94  E-value=0.049  Score=38.51  Aligned_cols=38  Identities=5%  Similarity=-0.139  Sum_probs=30.1

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      -|.+++ ++|+|-| ||.|+     |++|.++|.+|.+.|..+..
T Consensus         2 ~~~~K~-v~ViGlG~sG~s~-----a~~L~~~g~~v~~~D~~~~~   40 (93)
T d2jfga1           2 DYQGKN-VVIIGLGLTGLSC-----VDFFLARGVTPRVMDTRMTP   40 (93)
T ss_dssp             CCTTCC-EEEECCSHHHHHH-----HHHHHHTTCCCEEEESSSSC
T ss_pred             CcCCCE-EEEEeECHHHHHH-----HHHHHHCCCEEEEeeCCcCc
Confidence            355666 8999999 99875     57888899999999975543

>d1s1ma2 c.37.1.10 (A:1-266) CTP synthase PyrG, 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: CTP synthase PyrG, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.84  E-value=0.85  Score=38.34  Aligned_cols=116  Identities=16%  Similarity=0.226  Sum_probs=71.8

Q ss_pred             eEEEEECCC---CcHHHHHHHHHHHHHhcCCceEEEecCcCCC-----CCCCC------------ccccccc--------
Q 023298           20 VIKCVFSPP---PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE-----NFDYP------------VAMDIRE--------   71 (284)
Q Consensus        20 ~~~~viG~~---sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~-----~~~~~------------~~~dir~--------   71 (284)
                      +.++|.|--   -||=..+..++..|..+|.+|.++-+||--|     ..||+            .+.|+-.        
T Consensus         4 kyifvtGGV~S~lGKGi~~aSig~llk~~g~~V~~~K~DPYlNvD~GtmsP~eHGEvfVt~DG~EtDlDlG~YERFl~~~   83 (266)
T d1s1ma2           4 NYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYINVDPGTMSPIQHGEVFVTEDGAETDLDLGHYERFIRTK   83 (266)
T ss_dssp             EEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECCSCSCGGGSCTTTSCCCEECTTSCEECTHHHHHHHHCSSC
T ss_pred             eEEEEeCCcccccchHHHHHHHHHHHHhCCceeEEEecccceecCCCCCCchhhceeEEeccccccccCccceeccCCCC
Confidence            458999973   7999999999999999999999999999877     23443            1222221        


Q ss_pred             -----ccc----HHHHhhhcCccc-CchhhhhhHhhhhcHHHHHHHHhhccCCCCEEEEeCCCCcccccccchHHHH
Q 023298           72 -----LIS----LEDVMEELGLGP-NGGLIYCMEHLEDNLDDWLAEELDNYLDDDYLVFDCPGQIELFTHVPVLRNF  138 (284)
Q Consensus        72 -----~i~----~~~vm~~~~lgP-ng~l~~~~e~~~~~~~~~l~~~l~~~~~~~~viiDtPg~~e~~~~~~~~~~l  138 (284)
                           -++    .++|+++..-|- -|.-+..+-.+...+.+|+.+.-+   +.+++++..-|-+......+..+.+
T Consensus        84 l~~~~niTtGkiy~~Vi~kER~G~yLG~TVQvIPHiTdeIk~~I~~~~~---~~Di~ivEiGGTVGDIEs~pFlEAi  157 (266)
T d1s1ma2          84 MSRRNNFTTGRIYSDVLRKERRGDYLGATVQVIPHITNAIKERVLEGGE---GHDVVLVEIGGTVGDIESLPFLEAI  157 (266)
T ss_dssp             CCGGGEEEHHHHHHHHHHHHHTTTTTTCCCCHHHHHHHHHHHHHHHHHT---TCSEEEEEECSCTTSSTTHHHHHHH
T ss_pred             CcCccccchhHHHHHHHHHhhccccccCcccccCchHHHHHHHHHhcCC---CCCEEEEeccceechhhcchHHHHH
Confidence                 111    344554322221 122233334455555556654332   6799999999987755544444443

>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=92.80  E-value=0.08  Score=40.59  Aligned_cols=33  Identities=9%  Similarity=0.083  Sum_probs=29.0

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      .-+++||= |||||-....++.+...|++|++++
T Consensus         4 L~~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ik   37 (139)
T d2b8ta1           4 IEFITGPMFAGKTAELIRRLHRLEYADVKYLVFK   37 (139)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEccccCHHHHHHHHHHHHHHHCCCcEEEEE
Confidence            46789999 9999988888888888999999987

>d2vo1a1 c.37.1.10 (A:1-273) CTP synthase PyrG, 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: Nitrogenase iron protein-like
domain: CTP synthase PyrG, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.49  E-value=0.78  Score=38.73  Aligned_cols=40  Identities=13%  Similarity=0.062  Sum_probs=36.3

Q ss_pred             eEEEEECC--C-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSP--P-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~--~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +.|+|.|-  . -||=..+..++..|..+|.+|.++-+||--|
T Consensus         2 KyifVtGGV~S~lGKGi~~aSig~ll~~~g~~V~~~K~DPYlN   44 (273)
T d2vo1a1           2 KYILVTGGVISGIGKGIIASSVGTILKSCGLHVTSIKIDPYIN   44 (273)
T ss_dssp             EEEEEEECSSSSSSHHHHHHHHHHHHHHTTCCEEEEEEECSSC
T ss_pred             eEEEEeCCcccccchHHHHHHHHHHHHhCCceeEEEeccccee
Confidence            45899996  3 8999999999999999999999999999877

>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=92.43  E-value=0.06  Score=46.83  Aligned_cols=38  Identities=8%  Similarity=0.096  Sum_probs=30.1

Q ss_pred             cCce-EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           17 YALV-IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        17 ~~~~-~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      .+|. .++++||. +|||.+++.||+.|...+.+.+.+|+
T Consensus        50 ~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~   89 (315)
T d1qvra3          50 NRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDM   89 (315)
T ss_dssp             SSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECT
T ss_pred             CCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEec
Confidence            4565 45677999 99999999999999765666666765

>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=92.22  E-value=0.036  Score=47.26  Aligned_cols=28  Identities=7%  Similarity=0.110  Sum_probs=24.5

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ...+..++++.||| +||||++..+.+.+
T Consensus       100 ~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_         100 KFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             CSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34667899999999 99999999999876

>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=92.18  E-value=0.029  Score=45.87  Aligned_cols=27  Identities=15%  Similarity=0.248  Sum_probs=23.1

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcC
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVR   46 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g   46 (284)
                      ..|.|-|+- |||||.+..|+++|..++
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L~~~~   31 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKLQPNC   31 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHTTTSE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhCC
Confidence            348899998 999999999999987544

>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=91.98  E-value=0.051  Score=44.45  Aligned_cols=36  Identities=8%  Similarity=0.094  Sum_probs=26.0

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec-CcCCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL-DPAAE   59 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL-DPq~~   59 (284)
                      |.+|.+.|+. |||||.|..|++.   .|  ..++|+ |+-..
T Consensus         1 M~iIgiTG~igSGKsTva~~l~e~---~g--~~~i~~aD~i~~   38 (241)
T d1deka_           1 MKLIFLSGVKRSGKDTTADFIMSN---YS--AVKYQLAGPIKD   38 (241)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH---SC--EEECCTTHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh---CC--CeEEcccHHHHH
Confidence            4678899999 9999998888662   23  567773 55443

>d1e8ca3 c.72.2.1 (A:104-337) UDP-N-acetylmuramyl tripeptide synthetase MurE {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramyl tripeptide synthetase MurE
species: Escherichia coli [TaxId: 562]

Probab=91.72  E-value=0.11  Score=41.69  Aligned_cols=34  Identities=12%  Similarity=0.093  Sum_probs=28.6

Q ss_pred             CceEEEEECCCCcHHHHHHHHHHHHHhcCCceEEE
Q 023298           18 ALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        18 ~~~~~~viG~~sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      +.++|.|.|+ .||||++..++..|...|+++.++
T Consensus         4 ~~~vI~ITGT-~GKTTt~~~l~~iL~~~g~~~~~~   37 (234)
T d1e8ca3           4 NLRLVGVTGT-NGKTTTTQLLAQWSQLLGEISAVM   37 (234)
T ss_dssp             SSEEEEEESS-SCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCeEEEEECC-CcHHHHHHHHHHHHHHCCCCeEEE
Confidence            4566667755 699999999999999999999876

>d1vcoa2 c.37.1.10 (A:11-282) CTP synthase PyrG, 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: Nitrogenase iron protein-like
domain: CTP synthase PyrG, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.67  E-value=0.97  Score=38.13  Aligned_cols=40  Identities=13%  Similarity=0.057  Sum_probs=36.2

Q ss_pred             eEEEEECCC---CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSPP---PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~---sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      +.++|.|-=   -||=..+..++..|..+|.+|.++-+||--|
T Consensus         3 kyifvtGGV~S~lGKGi~~asig~ll~~~g~~v~~~K~DpYlN   45 (272)
T d1vcoa2           3 KYVFITGGVVSSLGKGILTSSLGALLRARGYRVTAIKIDPYVN   45 (272)
T ss_dssp             EEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECSSC
T ss_pred             eEEEEeCCcccccccHHHHHHHHHHHHhCCCceeEEeecccee
Confidence            458899974   7999999999999999999999999999877

>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=91.30  E-value=0.057  Score=45.19  Aligned_cols=27  Identities=11%  Similarity=-0.066  Sum_probs=21.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      ++--++.++||. |||||+.+.++..+.
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl~~   51 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGLET   51 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            344468999999 999999999988653

>d1j6ua3 c.72.2.1 (A:89-295) UDP-N-acetylmuramate-alanine ligase MurC {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Thermotoga maritima [TaxId: 2336]

Probab=90.93  E-value=0.11  Score=41.42  Aligned_cols=35  Identities=9%  Similarity=0.003  Sum_probs=27.5

Q ss_pred             CceEEEEECCCCcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           18 ALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        18 ~~~~~~viG~~sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      .++.+.|.|+ .||||++.-|+..|...|.++-.++
T Consensus        13 ~~~~iAITGT-nGKTTt~~~l~~iL~~~g~~~~~~~   47 (207)
T d1j6ua3          13 KKEEFAVTGT-DGKTTTTAMVAHVLKHLRKSPTVFL   47 (207)
T ss_dssp             CCCEEEEECS-SSHHHHHHHHHHHHHHTTCCCEEEC
T ss_pred             CCCEEEEECC-CCHHHHHHHHHHHHHhCCCCCeEEE
Confidence            4555667544 8999999999999999998765554

>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=90.93  E-value=0.04  Score=48.30  Aligned_cols=31  Identities=13%  Similarity=0.161  Sum_probs=24.1

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      -++|+|+. |||||+...|..++-. +.+++.|
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~-~~rivti  199 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPK-EERIISI  199 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCT-TCCEEEE
T ss_pred             CEEEEeeccccchHHHHHHhhhccc-ccceeec
Confidence            38999999 9999999998876543 4455555

>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=90.84  E-value=0.13  Score=38.72  Aligned_cols=38  Identities=8%  Similarity=-0.072  Sum_probs=31.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHh-c-CCceEEEecC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCET-V-RRTMHIVNLD   55 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~-~-g~~v~iVdLD   55 (284)
                      +-+++++.|-. |||||++..|..-|.+ . ||+|-++|=|
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            34568899998 9999999999888877 3 6888888665

>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=90.76  E-value=0.073  Score=43.83  Aligned_cols=26  Identities=4%  Similarity=-0.110  Sum_probs=22.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      |..+++.||+ +||||++..+++.+-.
T Consensus        34 ~~~~Ll~Gp~G~GKtt~a~~~~~~l~~   60 (239)
T d1njfa_          34 HHAYLFSGTRGVGKTSIARLLAKGLNC   60 (239)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHC
T ss_pred             CeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence            5568899999 9999999999998753

>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=90.72  E-value=0.09  Score=47.16  Aligned_cols=38  Identities=13%  Similarity=0.174  Sum_probs=26.4

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcC-----CceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVR-----RTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g-----~~v~iVdLDPq~~   59 (284)
                      +++||+| ||||+++..||.-+....     +..-++.+|++.=
T Consensus        46 ~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l   89 (387)
T d1qvra2          46 PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL   89 (387)
T ss_dssp             CEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---
T ss_pred             CeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh
Confidence            6888999 999999999999876532     1234666666553

>d2jfga3 c.72.2.1 (A:94-297) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=90.52  E-value=0.19  Score=39.61  Aligned_cols=42  Identities=12%  Similarity=0.208  Sum_probs=30.6

Q ss_pred             hhhhhhcccccccCceEEEEECCCCcHHHHHHHHHHHHHhcCCceEEE
Q 023298            5 LDLLCKGYMSWLYALVIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~viG~~sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      +||+|+-    ...|. |.|.|+ .||||++..|+..|...|+++.+.
T Consensus         2 ~~lf~~~----~~~~v-I~VTGT-~GKTTt~~~l~~iL~~~g~~~~~~   43 (204)
T d2jfga3           2 IELFCRE----AQAPI-VAITGS-NGKSTVTTLVGEMAKAAGVNVGVG   43 (204)
T ss_dssp             HHHHHHH----CCSCE-EEEECS-SSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHhhc----CCCCE-EEEECC-CCHHHHHHHHHHHHHhcCCCcccC
Confidence            4666653    23454 666554 799999999999999999887643

>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=90.46  E-value=0.075  Score=44.65  Aligned_cols=23  Identities=9%  Similarity=0.192  Sum_probs=20.3

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      ++.++||. |||||+.+.++..+.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCChHHHHHHHHHcCCC
Confidence            56789999 999999999999764

>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=90.46  E-value=0.05  Score=47.89  Aligned_cols=34  Identities=6%  Similarity=0.071  Sum_probs=29.3

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      ..|.|=|+= |||||++..|++++..+|.+|.++-
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~~   40 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAITPNRILLIG   40 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEe
Confidence            348888997 9999999999999998888877764

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=90.28  E-value=0.045  Score=47.42  Aligned_cols=22  Identities=23%  Similarity=0.073  Sum_probs=20.5

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHH
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .++++|++ +||||+++.++..|
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHHHS
T ss_pred             eEEEECCCCccHHHHHHHHHHhC
Confidence            58999999 99999999999876

>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=90.25  E-value=0.11  Score=40.89  Aligned_cols=27  Identities=4%  Similarity=0.058  Sum_probs=22.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      +..++++.|+= |||||+++.+++.|..
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhccc
Confidence            34468889997 9999999999998753

>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=90.23  E-value=0.067  Score=44.67  Aligned_cols=26  Identities=12%  Similarity=0.079  Sum_probs=21.2

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRH   41 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~   41 (284)
                      +++--++.++||. |||||+.+.++..
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            3445568999999 9999999988874

>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=90.21  E-value=0.14  Score=45.20  Aligned_cols=25  Identities=16%  Similarity=0.169  Sum_probs=19.9

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHh
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCET   44 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~   44 (284)
                      +..+|.||| +||||+...+...+.+
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~  189 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQ  189 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHH
Confidence            358999999 9999998877666543

>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=89.88  E-value=0.073  Score=44.65  Aligned_cols=27  Identities=11%  Similarity=0.009  Sum_probs=22.4

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+--.+.|+|+. |||||+++.|...+.
T Consensus        27 ~~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          27 KQGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            344558999999 999999999998753

>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=89.87  E-value=0.089  Score=44.17  Aligned_cols=26  Identities=12%  Similarity=0.005  Sum_probs=21.3

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +--++.++||. |||||+.+.++..+.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~~   54 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLEE   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            33468899999 999999999987653

>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=89.79  E-value=0.11  Score=41.49  Aligned_cols=25  Identities=8%  Similarity=-0.073  Sum_probs=19.5

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRT   48 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~   48 (284)
                      .++++.|++ +||||++..|.    ++|.+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~----~~g~~   40 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELV----QRGHR   40 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH----HTTCE
T ss_pred             EEEEEEeCCCCCHHHHHHHHH----HcCCe
Confidence            459999999 99999887654    45664

>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=89.75  E-value=0.07  Score=45.07  Aligned_cols=27  Identities=19%  Similarity=0.098  Sum_probs=22.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+--.+.|+||. |||||++..|+..+.
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            344468999999 999999999987653

>d1a9xa4 c.30.1.1 (A:556-676) Carbamoyl phosphate synthetase (CPS), large subunit PreATP-grasp domains {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PreATP-grasp domain
superfamily: PreATP-grasp domain
family: BC N-terminal domain-like
domain: Carbamoyl phosphate synthetase (CPS), large subunit PreATP-grasp domains
species: Escherichia coli [TaxId: 562]

Probab=89.71  E-value=0.5  Score=35.26  Aligned_cols=46  Identities=17%  Similarity=0.108  Sum_probs=36.9

Q ss_pred             CceEEEEECCC---CcHH----HHHHHHHHHHHhcCCceEEEecCcCCCCCCCC
Q 023298           18 ALVIKCVFSPP---PNQS----TYCSSLYRHCETVRRTMHIVNLDPAAENFDYP   64 (284)
Q Consensus        18 ~~~~~~viG~~---sGKT----T~~~~La~~l~~~g~~v~iVdLDPq~~~~~~~   64 (284)
                      +++ ++|+|.|   .|-+    -.|.+....|.+.|+++.+||-.|..-.+.|.
T Consensus         4 ~kk-vlViGsGp~rIGq~~EfDy~~~~a~~aLk~~g~~~IliN~NPeTVstd~d   56 (121)
T d1a9xa4           4 REK-IMVLGGGPNRIGQGIEFDYCCVHASLALREDGYETIMVNCNPETVSTDYD   56 (121)
T ss_dssp             SCE-EEEECCCSCBTTBCHHHHHHHHHHHHHHHHTTCEEEEECCCTTSSTTSTT
T ss_pred             CCE-EEEECCCcCcccccchhhHHHHHHHHHHHhcCCeEEEEecChhhhhcChh
Confidence            444 8999996   7776    34567777788999999999999999887763

>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=89.61  E-value=0.098  Score=42.76  Aligned_cols=36  Identities=3%  Similarity=-0.010  Sum_probs=27.9

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEe
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVN   53 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVd   53 (284)
                      .|.. +++++|. +|||+.....+.++...|+++++|=
T Consensus        57 ~g~~-~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~   93 (237)
T d1gkub1          57 RKES-FAATAPTGVGKTSFGLAMSLFLALKGKRCYVIF   93 (237)
T ss_dssp             TTCC-EECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEE
T ss_pred             CCCC-EEEEecCCChHHHHHHHHHHHHHHhcCeEEEEe
Confidence            3445 6777887 9999988888888888888887764

>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=89.57  E-value=0.094  Score=43.91  Aligned_cols=28  Identities=25%  Similarity=0.153  Sum_probs=23.1

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +.+--.+.|+||. |||||+.+.|+..+.
T Consensus        25 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          25 AQPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            4445568999999 999999999988764

>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=89.54  E-value=0.07  Score=44.52  Aligned_cols=26  Identities=4%  Similarity=0.048  Sum_probs=21.7

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      ++--++.++||. |||||+.+.++..+
T Consensus        24 ~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          24 ESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            334468999999 99999999999865

>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=89.49  E-value=0.078  Score=44.51  Aligned_cols=26  Identities=19%  Similarity=0.036  Sum_probs=21.7

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRH   41 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~   41 (284)
                      +++--++.++||. |||||+.+.++..
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          28 VPAGQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             ECSSCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            4445568999999 9999999999874

>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=89.36  E-value=0.13  Score=42.88  Aligned_cols=39  Identities=10%  Similarity=0.104  Sum_probs=28.1

Q ss_pred             ccccCceEEEEECCC-CcHHH-HHHHHHHHHHhcCCceEEE
Q 023298           14 SWLYALVIKCVFSPP-PNQST-YCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT-~~~~La~~l~~~g~~v~iV   52 (284)
                      .||.+.+.++|.+|. ||||+ +...+...+...|.+++++
T Consensus         4 ~~~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~~~~~~~lvi   44 (305)
T d2bmfa2           4 DIFRKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGLRTLIL   44 (305)
T ss_dssp             SSSSTTCEEEECCCTTSSTTTTHHHHHHHHHHHHTCCEEEE
T ss_pred             HHhhcCCcEEEEECCCCCHHHHHHHHHHHHHHhcCCEEEEE
Confidence            367777878999998 99996 4444544455567788776

>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=89.23  E-value=0.087  Score=44.37  Aligned_cols=27  Identities=19%  Similarity=0.181  Sum_probs=22.3

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      +.+--.+.|+||. |||||+.+.+...+
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            3444568999999 99999999998865

>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=89.13  E-value=0.076  Score=44.66  Aligned_cols=23  Identities=9%  Similarity=0.101  Sum_probs=20.7

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      -++.++||. |||||+.+.++..+
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            458999999 99999999999865

>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=88.95  E-value=0.12  Score=43.39  Aligned_cols=25  Identities=12%  Similarity=0.014  Sum_probs=21.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      --++.++||. |||||+.+.++..+.
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3458899999 999999999998764

>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=88.92  E-value=0.12  Score=45.18  Aligned_cols=25  Identities=4%  Similarity=-0.089  Sum_probs=20.2

Q ss_pred             ceEEEE-ECCC-CcHHHHHHHHHHHHH
Q 023298           19 LVIKCV-FSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        19 ~~~~~v-iG~~-sGKTT~~~~La~~l~   43 (284)
                      |+.+++ .||| +|||.++..||..+.
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~~~~  148 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGEALG  148 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHhc
Confidence            445554 7999 999999999999664

>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=88.90  E-value=0.097  Score=44.32  Aligned_cols=27  Identities=11%  Similarity=0.031  Sum_probs=21.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHC   42 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l   42 (284)
                      .++--++.++||. |||||+++.++..+
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            3444568899999 99999999998754

>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=88.71  E-value=0.14  Score=41.05  Aligned_cols=29  Identities=10%  Similarity=-0.010  Sum_probs=22.0

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      ++|+|.+ ||||.++-.|+    ..+.++++|-.
T Consensus         2 iLVtGGarSGKS~~AE~l~----~~~~~~~YiAT   31 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALI----GDAPQVLYIAT   31 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHH----CSCSSEEEEEC
T ss_pred             EEEECCCCccHHHHHHHHH----hcCCCcEEEEc
Confidence            6899999 99999887654    45566776653

>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=88.71  E-value=0.17  Score=37.42  Aligned_cols=30  Identities=10%  Similarity=0.166  Sum_probs=21.3

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      ...+|.+|. ||||+.+.   .++...|++++++
T Consensus         9 ~~~ll~apTGsGKT~~~~---~~~~~~~~~vli~   39 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVP---AAYAAQGYKVLVL   39 (136)
T ss_dssp             EEEEEECCTTSCTTTHHH---HHHHTTTCCEEEE
T ss_pred             CEEEEEeCCCCCHHHHHH---HHHHHcCCcEEEE
Confidence            446788888 99998753   3445677777665

>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=88.69  E-value=0.085  Score=42.78  Aligned_cols=26  Identities=8%  Similarity=0.019  Sum_probs=21.5

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +-.++.++||- |||||+.+.++..+.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcccc
Confidence            33457899999 999999999998654

>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=88.65  E-value=0.11  Score=41.61  Aligned_cols=25  Identities=12%  Similarity=-0.044  Sum_probs=19.9

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHHhcCCc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCETVRRT   48 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~~~g~~   48 (284)
                      .++++.|++ +||||++..|.+    +|.+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~----~G~~   41 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN----KNHL   41 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT----TTCE
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH----cCCc
Confidence            459999999 999999977654    5654

>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=88.49  E-value=0.11  Score=45.56  Aligned_cols=37  Identities=8%  Similarity=-0.113  Sum_probs=28.3

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      |.-.+..|+|=|+= |||||++..|++++...+ .+.++
T Consensus         2 ~~~~~~rI~iEG~iGsGKSTl~~~L~~~l~~~~-~v~~~   39 (333)
T d1p6xa_           2 HMVTIVRIYLDGVYGIGKSTTGRVMASAASGGS-PTLYF   39 (333)
T ss_dssp             CEEEEEEEEEECSTTSSHHHHHHHHHSGGGCSS-CEEEE
T ss_pred             CCCceEEEEEECCccCCHHHHHHHHHHHhccCC-CeEEE
Confidence            34456778899997 999999999999987554 34443

>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=88.49  E-value=0.16  Score=44.91  Aligned_cols=33  Identities=12%  Similarity=0.184  Sum_probs=25.3

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEec
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdL   54 (284)
                      |.-++++||. ||||-+++.||+.+   +....-+|.
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~---~~~~ir~D~  101 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDA  101 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEG
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc---ccceeehhh
Confidence            4448899999 99999999999875   334455554

>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=88.30  E-value=0.12  Score=44.26  Aligned_cols=27  Identities=4%  Similarity=-0.023  Sum_probs=22.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+--.+.|+||. |||||+.+.++..+.
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            344558899999 999999999987653

>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=88.25  E-value=0.12  Score=42.99  Aligned_cols=24  Identities=8%  Similarity=0.149  Sum_probs=19.0

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLY   39 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La   39 (284)
                      ++.++. .+++|+. |||||+...|.
T Consensus        92 ~l~~kt-~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          92 YLKGKI-STMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             HHSSSE-EEEECSTTSSHHHHHHHHS
T ss_pred             HhcCCe-EEEECCCCCCHHHHHHhhc
Confidence            344554 7899999 99999998764

>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=88.24  E-value=0.22  Score=41.05  Aligned_cols=29  Identities=14%  Similarity=0.102  Sum_probs=23.2

Q ss_pred             eEEEEECCC-CcHHHHHHHHH--HHHHhcCCc
Q 023298           20 VIKCVFSPP-PNQSTYCSSLY--RHCETVRRT   48 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La--~~l~~~g~~   48 (284)
                      ..++|.||- +||||+.+.++  .+|++.|.-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~   67 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSF   67 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCC
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccce
Confidence            468999999 99999998765  456777753

>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=87.87  E-value=0.16  Score=40.21  Aligned_cols=21  Identities=14%  Similarity=0.015  Sum_probs=17.1

Q ss_pred             eEEEEECCC-CcHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~   40 (284)
                      .++++.|++ +||||++..|.+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            459999999 999998865544

>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=87.53  E-value=0.13  Score=42.91  Aligned_cols=24  Identities=13%  Similarity=0.101  Sum_probs=21.1

Q ss_pred             eEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      -++.++||. |||||+.+.++..+.
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCC
Confidence            468899999 999999999998764

>d2bcgg1 c.3.1.3 (G:5-301) Guanine nucleotide dissociation inhibitor, GDI {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: GDI-like N domain
domain: Guanine nucleotide dissociation inhibitor, GDI
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.35  E-value=0.22  Score=38.54  Aligned_cols=33  Identities=3%  Similarity=-0.129  Sum_probs=27.9

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      ++|||.| +|=||     |..|+++|++|++++-.++..
T Consensus         8 viViGaG~~Gl~~-----A~~La~~G~~V~vlE~~~~~G   41 (297)
T d2bcgg1           8 VIVLGTGITECIL-----SGLLSVDGKKVLHIDKQDHYG   41 (297)
T ss_dssp             EEEECCSHHHHHH-----HHHHHHTTCCEEEECSSSSSC
T ss_pred             EEEECcCHHHHHH-----HHHHHHCCCCEEEEcCCCCCC
Confidence            7999999 99665     677788999999999987654

>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=87.13  E-value=0.14  Score=43.01  Aligned_cols=27  Identities=11%  Similarity=0.114  Sum_probs=22.0

Q ss_pred             cCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           17 YALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        17 ~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+--++.++||. |||||+++.++..+.
T Consensus        28 ~~Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          28 NKGDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            334468899999 999999999998654

>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=86.76  E-value=0.3  Score=35.27  Aligned_cols=33  Identities=9%  Similarity=0.170  Sum_probs=23.1

Q ss_pred             EEEECCC-CcHHHHH-HHHHHHHHhcCCceEEEec
Q 023298           22 KCVFSPP-PNQSTYC-SSLYRHCETVRRTMHIVNL   54 (284)
Q Consensus        22 ~~viG~~-sGKTT~~-~~La~~l~~~g~~v~iVdL   54 (284)
                      .++.+|. ||||+.+ ..+...+...+++++++-.
T Consensus        10 ~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p   44 (140)
T d1yksa1          10 TVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAP   44 (140)
T ss_dssp             EEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeec
Confidence            4555666 9999655 4666777777888877763

>d1p3da3 c.72.2.1 (A:107-321) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=86.45  E-value=0.46  Score=37.63  Aligned_cols=32  Identities=9%  Similarity=-0.057  Sum_probs=25.6

Q ss_pred             eEEEEECCCCcHHHHHHHHHHHHHhcCCceEEE
Q 023298           20 VIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        20 ~~~~viG~~sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      +.|.|.|+ .||||++.-++..|...|+++..+
T Consensus        13 ~~I~ITGT-nGKTTt~~~l~~iL~~~~~~~~~~   44 (215)
T d1p3da3          13 HGIAVAGT-HGKTTTTAMISMIYTQAKLDPTFV   44 (215)
T ss_dssp             EEEEEESS-SCHHHHHHHHHHHHHHTTCCCEEE
T ss_pred             CEEEEECC-CCHHHHHHHHHHHHHhCCCCceEe
Confidence            44556443 899999999999999999887765

>d2iida1 c.3.1.2 (A:4-319,A:433-486) L-aminoacid oxidase {Malayan pit viper (Calloselasma rhodostoma) [TaxId: 8717]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: L-aminoacid oxidase
species: Malayan pit viper (Calloselasma rhodostoma) [TaxId: 8717]

Probab=86.36  E-value=0.24  Score=40.55  Aligned_cols=39  Identities=3%  Similarity=-0.094  Sum_probs=31.8

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      -..|+.|+|||.| +|=|+     |.+|+++|++|.+++-.+...
T Consensus        27 ~~~pkkV~IIGaG~aGLsa-----A~~L~~~G~~V~vlE~~~~~G   66 (370)
T d2iida1          27 TSNPKHVVIVGAGMAGLSA-----AYVLAGAGHQVTVLEASERPG   66 (370)
T ss_dssp             CSSCCEEEEECCBHHHHHH-----HHHHHHHTCEEEEECSSSSSB
T ss_pred             CCCCCeEEEECCCHHHHHH-----HHHHHHCCCCEEEEeCCCCCC
Confidence            4567789999999 99776     557888999999999876543

>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=86.33  E-value=0.51  Score=36.77  Aligned_cols=40  Identities=8%  Similarity=-0.014  Sum_probs=35.3

Q ss_pred             eEEEEECCCCcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           20 VIKCVFSPPPNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        20 ~~~~viG~~sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      .+++-.|+|=||||-+..+|--.+-+|.||++|-+=-+..
T Consensus         4 ~i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQFlKg~~   43 (157)
T d1g5ta_           4 IIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTW   43 (157)
T ss_dssp             CEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSS
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEEEecCCc
Confidence            3588999999999999999998888999999999877654

>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=86.27  E-value=0.32  Score=41.78  Aligned_cols=29  Identities=7%  Similarity=0.150  Sum_probs=23.6

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHHHhcCC
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHCETVRR   47 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l~~~g~   47 (284)
                      |-+ +.|+|++ +||||+...++.+......
T Consensus        43 GQr-~~I~g~~g~GKT~l~~~i~~~~~~~~~   72 (289)
T d1xpua3          43 GQR-GLIVAPPKAGKTMLLQNIAQSIAYNHP   72 (289)
T ss_dssp             TCE-EEEEECSSSSHHHHHHHHHHHHHHHCT
T ss_pred             CCe-eeEeCCCCCCHHHHHHHHHHHHhhcCC
Confidence            344 7888888 9999999999999876543

>d1e5qa1 c.2.1.3 (A:2-124,A:392-450) Saccharopine reductase {Rice blast fungus (Magnaporthe grisea) [TaxId: 148305]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: Saccharopine reductase
species: Rice blast fungus (Magnaporthe grisea) [TaxId: 148305]

Probab=85.93  E-value=0.3  Score=37.08  Aligned_cols=33  Identities=3%  Similarity=-0.060  Sum_probs=28.0

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAAE   59 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~~   59 (284)
                      |+|+|.| +|.++     |++|.++|++|.++|-++...
T Consensus         5 IliiGaG~~G~~~-----a~~L~~~g~~V~v~dr~~~~a   38 (182)
T d1e5qa1           5 VLMLGSGFVTRPT-----LDVLTDSGIKVTVACRTLESA   38 (182)
T ss_dssp             EEEECCSTTHHHH-----HHHHHTTTCEEEEEESCHHHH
T ss_pred             EEEECCCHHHHHH-----HHHHHhCCCEEEEEECChHHH
Confidence            7889999 99985     567788899999999888754

>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=85.74  E-value=0.11  Score=43.83  Aligned_cols=29  Identities=10%  Similarity=-0.042  Sum_probs=22.5

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      .+.+--.+.|+|+. |||||+.+.++..+.
T Consensus        40 ~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          40 SIEKGETVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHhcCC
Confidence            34444569999999 999999998887543

>d1a9xa3 c.30.1.1 (A:1-127) Carbamoyl phosphate synthetase (CPS), large subunit PreATP-grasp domains {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PreATP-grasp domain
superfamily: PreATP-grasp domain
family: BC N-terminal domain-like
domain: Carbamoyl phosphate synthetase (CPS), large subunit PreATP-grasp domains
species: Escherichia coli [TaxId: 562]

Probab=85.72  E-value=0.82  Score=34.31  Aligned_cols=46  Identities=13%  Similarity=0.001  Sum_probs=36.4

Q ss_pred             CceEEEEECCC---CcHH----HHHHHHHHHHHhcCCceEEEecCcCCCCCCC
Q 023298           18 ALVIKCVFSPP---PNQS----TYCSSLYRHCETVRRTMHIVNLDPAAENFDY   63 (284)
Q Consensus        18 ~~~~~~viG~~---sGKT----T~~~~La~~l~~~g~~v~iVdLDPq~~~~~~   63 (284)
                      ..+.++|+|.|   .|-+    -.|.+-...|.+.|+++.+||-.|..-.+.|
T Consensus         6 ~~kkvlilGsGp~~IGq~~EfDy~~~~a~~alke~g~~~iliN~NP~TVstd~   58 (127)
T d1a9xa3           6 DIKSILILGAGPIVIGQACEFDYSGAQACKALREEGYRVINVNSNPATIMTDP   58 (127)
T ss_dssp             SCCEEEEECCCSCBTTBCTHHHHHHHHHHHHHHHHTCEEEEECSCTTCGGGCG
T ss_pred             CCCEEEEECCCcCcccccchhHHHHHHHHHHHHHcCCeEEEecCchHhhhcCh
Confidence            34559999996   7765    3566677778889999999999999977766

>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=85.20  E-value=0.18  Score=41.65  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=18.5

Q ss_pred             eEEEEECCC-CcHHHHHHHHHH
Q 023298           20 VIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        20 ~~~~viG~~-sGKTT~~~~La~   40 (284)
                      -++.++||- |||||+.+.++.
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            358899999 999999998887

>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=85.01  E-value=0.23  Score=41.35  Aligned_cols=28  Identities=11%  Similarity=0.027  Sum_probs=22.9

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHH
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCE   43 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~   43 (284)
                      +..--++-++||. |||||+.+.++..+.
T Consensus        25 v~~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          25 IEEGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4445568899999 999999999998654

>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=84.86  E-value=0.39  Score=37.86  Aligned_cols=36  Identities=6%  Similarity=-0.093  Sum_probs=21.3

Q ss_pred             ccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEE
Q 023298           16 LYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIV   52 (284)
Q Consensus        16 ~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iV   52 (284)
                      +.+.. +++.+|. ||||+.+.........++.++++|
T Consensus        38 ~~~~~-~il~apTGsGKT~~a~l~i~~~~~~~~~vl~l   74 (202)
T d2p6ra3          38 FSGKN-LLLAMPTAAGKTLLAEMAMVREAIKGGKSLYV   74 (202)
T ss_dssp             TTCSC-EEEECSSHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HcCCC-EEEEcCCCCchhHHHHHHHHHHhhccCcceee
Confidence            34555 6788888 999876643333333344455444

>d1mv8a2 c.2.1.6 (A:1-202) GDP-mannose 6-dehydrogenase {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: 6-phosphogluconate dehydrogenase-like, N-terminal domain
domain: GDP-mannose 6-dehydrogenase
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=84.29  E-value=0.4  Score=38.25  Aligned_cols=32  Identities=6%  Similarity=-0.026  Sum_probs=25.6

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      |.|||.| +|-++     |..|+.+|++|..+|.|+..
T Consensus         3 I~ViGlG~vGl~~-----a~~la~~g~~V~g~D~n~~~   35 (202)
T d1mv8a2           3 ISIFGLGYVGAVC-----AGCLSARGHEVIGVDVSSTK   35 (202)
T ss_dssp             EEEECCSTTHHHH-----HHHHHHTTCEEEEECSCHHH
T ss_pred             EEEECCCHhHHHH-----HHHHHhCCCcEEEEeCCHHH
Confidence            8899999 99654     44556689999999998753

>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=83.78  E-value=0.63  Score=36.15  Aligned_cols=34  Identities=3%  Similarity=-0.042  Sum_probs=21.4

Q ss_pred             CceEEEEECCC-CcHHHHHHHHHHHH-HhcCCceEEE
Q 023298           18 ALVIKCVFSPP-PNQSTYCSSLYRHC-ETVRRTMHIV   52 (284)
Q Consensus        18 ~~~~~~viG~~-sGKTT~~~~La~~l-~~~g~~v~iV   52 (284)
                      +.. .+|++|. +|||..+..++... ...++++++|
T Consensus        23 ~~n-~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i   58 (200)
T d1wp9a1          23 ETN-CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLML   58 (200)
T ss_dssp             GSC-EEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEE
T ss_pred             cCC-eEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEE
Confidence            344 4566777 99998766666543 3456666554

>d1lssa_ c.2.1.9 (A:) Ktn Mja218 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Potassium channel NAD-binding domain
domain: Ktn Mja218
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=83.71  E-value=0.4  Score=35.42  Aligned_cols=32  Identities=6%  Similarity=0.079  Sum_probs=27.1

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      |+|+|-| .|++     +++.|...|..|.+||-||..
T Consensus         3 IvI~G~G~~G~~-----la~~L~~~g~~v~vid~d~~~   35 (132)
T d1lssa_           3 IIIAGIGRVGYT-----LAKSLSEKGHDIVLIDIDKDI   35 (132)
T ss_dssp             EEEECCSHHHHH-----HHHHHHHTTCEEEEEESCHHH
T ss_pred             EEEECCCHHHHH-----HHHHHHHCCCCcceecCChhh
Confidence            8999999 8875     456777889999999999864

>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=83.33  E-value=0.18  Score=41.91  Aligned_cols=26  Identities=4%  Similarity=0.006  Sum_probs=20.1

Q ss_pred             ccccCceEEEEECCC-CcHHHHHHHHHH
Q 023298           14 SWLYALVIKCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        14 ~~~~~~~~~~viG~~-sGKTT~~~~La~   40 (284)
                      .++.++. .+++|+. |||||+...|..
T Consensus        93 ~~l~~~~-~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          93 PHFQDKT-TVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             GGGTTSE-EEEEESHHHHHHHHHHHHCC
T ss_pred             Hhhccce-EEEECCCCccHHHHHHhhcc
Confidence            4455555 6789999 999999988754

>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=83.25  E-value=0.46  Score=39.38  Aligned_cols=34  Identities=3%  Similarity=0.076  Sum_probs=25.0

Q ss_pred             EEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecC
Q 023298           22 KCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLD   55 (284)
Q Consensus        22 ~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLD   55 (284)
                      |+|.|++ +|||+++..+..+..........+|+.
T Consensus        26 vlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~   60 (247)
T d1ny5a2          26 VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVA   60 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETT
T ss_pred             EEEECCCCcCHHHHHHHHHHhcCCcccccccchhh
Confidence            6889999 999999999987544444455555553

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), 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: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.48  E-value=0.31  Score=41.33  Aligned_cols=27  Identities=11%  Similarity=0.026  Sum_probs=20.9

Q ss_pred             ccccCceE-EEEECCC-CcHHHHHHHHHH
Q 023298           14 SWLYALVI-KCVFSPP-PNQSTYCSSLYR   40 (284)
Q Consensus        14 ~~~~~~~~-~~viG~~-sGKTT~~~~La~   40 (284)
                      +...+|.+ |.|+||. +||||+...|..
T Consensus        26 ~~~~~~v~vvsi~G~~~sGKS~llN~l~~   54 (277)
T d1f5na2          26 SAITQPMVVVAIVGLYRTGKSYLMNKLAG   54 (277)
T ss_dssp             HTCCSBEEEEEEEEBTTSSHHHHHHHHTT
T ss_pred             HcCCCCEEEEEEECCCCCCHHHHHHHHcC
Confidence            44567764 4599999 999999988753

>d1ryia1 c.3.1.2 (A:1-218,A:307-364) Glycine oxidase ThiO {Bacillus sp. [TaxId: 1409]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: Glycine oxidase ThiO
species: Bacillus sp. [TaxId: 1409]

Probab=82.14  E-value=0.48  Score=38.49  Aligned_cols=32  Identities=3%  Similarity=-0.093  Sum_probs=27.4

Q ss_pred             EEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcC
Q 023298           21 IKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPA   57 (284)
Q Consensus        21 ~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq   57 (284)
                      =|+|||.| +|=||     |.+|+++|++|++|+-++-
T Consensus         6 DvvIIGaGi~Gls~-----A~~La~~G~~V~vlE~~~~   38 (276)
T d1ryia1           6 EAVVIGGGIIGSAI-----AYYLAKENKNTALFESGTM   38 (276)
T ss_dssp             EEEEECCSHHHHHH-----HHHHHHTTCCEEEECSSST
T ss_pred             CEEEECcCHHHHHH-----HHHHHHCCCcEEEEeCCCC
Confidence            38999999 99776     6788889999999998753

>d1gg4a4 c.72.2.1 (A:99-312) UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF
species: Escherichia coli [TaxId: 562]

Probab=81.23  E-value=0.62  Score=36.37  Aligned_cols=29  Identities=3%  Similarity=-0.071  Sum_probs=23.7

Q ss_pred             EEEECCCCcHHHHHHHHHHHHHhcCCceEE
Q 023298           22 KCVFSPPPNQSTYCSSLYRHCETVRRTMHI   51 (284)
Q Consensus        22 ~~viG~~sGKTT~~~~La~~l~~~g~~v~i   51 (284)
                      |.|.|+ -||||++..++.-|...|+++..
T Consensus         5 I~VTGT-nGKTTt~~mi~~iL~~~g~~~~~   33 (214)
T d1gg4a4           5 VALTGS-SGKTSVKEMTAAILSQCGNTLYT   33 (214)
T ss_dssp             EEEECS-SCHHHHHHHHHHHHTTTSCEEEC
T ss_pred             EEEeCC-CcHHHHHHHHHHHHHhCCCCEEE
Confidence            445543 79999999999999999987764

>d1seza1 c.3.1.2 (A:13-329,A:442-497) Protoporphyrinogen oxidase {Tobacco (Nicotiana tabacum) [TaxId: 4097]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: Protoporphyrinogen oxidase
species: Tobacco (Nicotiana tabacum) [TaxId: 4097]

Probab=81.03  E-value=0.63  Score=36.87  Aligned_cols=34  Identities=6%  Similarity=-0.023  Sum_probs=27.6

Q ss_pred             ceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           19 LVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        19 ~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      ++ |+|||.| +|=|+     |..|++.|.+|.+++-.+..
T Consensus         2 Kk-V~IIGaG~aGL~a-----A~~La~~G~~V~vlE~~~~~   36 (373)
T d1seza1           2 KR-VAVIGAGVSGLAA-----AYKLKIHGLNVTVFEAEGKA   36 (373)
T ss_dssp             CE-EEEECCSHHHHHH-----HHHHHTTSCEEEEECSSSSS
T ss_pred             CE-EEEECcCHHHHHH-----HHHHHhCCCCEEEEeCCCCC
Confidence            45 9999999 99555     56778899999999976654

>d1li4a1 c.2.1.4 (A:190-352) S-adenosylhomocystein hydrolase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Formate/glycerate dehydrogenases, NAD-domain
domain: S-adenosylhomocystein hydrolase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.89  E-value=0.58  Score=36.67  Aligned_cols=38  Identities=13%  Similarity=0.087  Sum_probs=32.7

Q ss_pred             cccCceEEEEECCC-CcHHHHHHHHHHHHHhcCCceEEEecCcCC
Q 023298           15 WLYALVIKCVFSPP-PNQSTYCSSLYRHCETVRRTMHIVNLDPAA   58 (284)
Q Consensus        15 ~~~~~~~~~viG~~-sGKTT~~~~La~~l~~~g~~v~iVdLDPq~   58 (284)
                      .++|+. +.|+|-| +||-     +|..++..|-+|.+.|.||-.
T Consensus        21 ~l~Gk~-v~V~GyG~iG~g-----~A~~~rg~G~~V~v~e~dp~~   59 (163)
T d1li4a1          21 MIAGKV-AVVAGYGDVGKG-----CAQALRGFGARVIITEIDPIN   59 (163)
T ss_dssp             CCTTCE-EEEECCSHHHHH-----HHHHHHHTTCEEEEECSCHHH
T ss_pred             eecCCE-EEEeccccccHH-----HHHHHHhCCCeeEeeecccch
Confidence            467888 9999999 9986     588888899999999999943